Title: Functions for Base Types and Core R and 'Tidyverse' Features
Description: A toolbox for working with base types, core R features
like the condition system, and core 'Tidyverse' features like tidy
evaluation.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut],
mikefc [cph] (Hash implementation based on Mike's xxhashlite),
Yann Collet [cph] (Author of the embedded xxHash library),
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between rlang versions 0.4.10 dated 2020-12-30 and 0.4.11 dated 2021-04-30
DESCRIPTION | 7 +- MD5 | 26 +++++----- NEWS.md | 7 ++ README.md | 2 build/rlang.pdf |binary src/internal/hash.c | 14 ++--- src/version.c | 2 tests/testthat/_snaps/cnd-abort.md | 8 --- tests/testthat/_snaps/cnd-error.md | 3 - tests/testthat/_snaps/trace.md | 91 ------------------------------------- tests/testthat/helper-rlang.R | 7 ++ tests/testthat/test-env.R | 2 tests/testthat/test-hash.R | 1 tests/testthat/test-trace.R | 1 14 files changed, 40 insertions(+), 131 deletions(-)
Title: JDBC Driver Interface
Description: Provides a database-independent JDBC interface.
Author: TIBCO Software Inc.
Maintainer: Joe Roberts <jorobert@tibco.com>
Diff between sjdbc versions 1.6.0 dated 2016-12-16 and 1.6.1 dated 2021-04-30
DESCRIPTION | 8 ++++---- LICENSE | 2 +- MD5 | 6 +++--- man/jdbcTypeInfo.Rd | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Robust ARIMA Modeling
Description: Functions for fitting a linear regression model with ARIMA
errors using a filtered tau-estimate.
Author: Stephen Kaluzny [aut, cre],
TIBCO Software Inc. [aut, cph]
Maintainer: Stephen Kaluzny <spkaluzny@gmail.com>
Diff between robustarima versions 0.2.5 dated 2017-02-23 and 0.2.6 dated 2021-04-30
DESCRIPTION | 20 +++++++++++++++----- LICENSE | 2 ++ MD5 | 4 ++-- 3 files changed, 19 insertions(+), 7 deletions(-)
Title: Fast and Light-Weight Caching (Memoization) of Objects and
Results to Speed Up Computations
Description: Memoization can be used to speed up repetitive and computational expensive function calls. The first time a function that implements memoization is called the results are stored in a cache memory. The next time the function is called with the same set of parameters, the results are momentarily retrieved from the cache avoiding repeating the calculations. With this package, any R object can be cached in a key-value storage where the key can be an arbitrary set of R objects. The cache memory is persistent (on the file system).
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between R.cache versions 0.14.0 dated 2019-12-06 and 0.15.0 dated 2021-04-30
R.cache-0.14.0/R.cache/R/utils.R |only R.cache-0.15.0/R.cache/DESCRIPTION | 10 +- R.cache-0.15.0/R.cache/MD5 | 13 +- R.cache-0.15.0/R.cache/NAMESPACE | 2 R.cache-0.15.0/R.cache/NEWS | 19 +++ R.cache-0.15.0/R.cache/R/getOSCacheRootPath.R | 124 +++++++++++++++++++++++-- R.cache-0.15.0/R.cache/R/queryRCmdCheck.R |only R.cache-0.15.0/R.cache/R/setupCacheRootPath.R | 7 - R.cache-0.15.0/R.cache/tests/findOSCachePath.R |only 9 files changed, 152 insertions(+), 23 deletions(-)
Title: Operations to Ease Data Analyses Specific to Nigeria
Description: A set of convenience functions as well as geographical/political
data about Nigeria, aimed at simplifying work with data and information that
are specific to the country.
Author: Victor Ordu [aut, cre] (<https://orcid.org/0000-0003-3716-0668>)
Maintainer: Victor Ordu <victorordu@outlook.com>
Diff between naijR versions 0.2.1 dated 2021-04-25 and 0.2.2 dated 2021-04-30
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 1 + NEWS.md | 4 ++++ R/regions.R | 1 + inst/doc/nigeria-maps.html | 20 ++++++++++---------- 6 files changed, 25 insertions(+), 19 deletions(-)
Title: Network Meta-Analysis Using Bayesian Methods
Description: Network meta-analyses (mixed treatment comparisons) in the Bayesian
framework using JAGS. Includes methods to assess heterogeneity and
inconsistency, and a number of standard visualizations.
van Valkenhoef et al. (2012) <doi:10.1002/jrsm.1054>;
van Valkenhoef et al. (2015) <doi:10.1002/jrsm.1167>.
Author: Gert van Valkenhoef, Joel Kuiper
Maintainer: Gert van Valkenhoef <gert@gertvv.nl>
Diff between gemtc versions 0.8-8 dated 2020-11-29 and 1.0-0 dated 2021-04-30
gemtc-0.8-8/gemtc/R/mtc.network.xml.R |only gemtc-0.8-8/gemtc/man/read.mtc.network.Rd |only gemtc-0.8-8/gemtc/tests/data/anohe-breaking.gemtc |only gemtc-0.8-8/gemtc/tests/data/welton-cholesterol.gemtc |only gemtc-0.8-8/gemtc/tests/data/welton-diastolic.gemtc |only gemtc-0.8-8/gemtc/tests/data/welton-systolic.gemtc |only gemtc-0.8-8/gemtc/tests/testthat/test-unit-read.mtc.network.R |only gemtc-1.0-0/gemtc/DESCRIPTION | 14 +- gemtc-1.0-0/gemtc/MD5 | 52 ++++------ gemtc-1.0-0/gemtc/NAMESPACE | 2 gemtc-1.0-0/gemtc/NEWS | 17 +++ gemtc-1.0-0/gemtc/R/mtc.model.R | 6 - gemtc-1.0-0/gemtc/R/mtc.network.R | 10 - gemtc-1.0-0/gemtc/R/plotCovariateEffect.R | 1 gemtc-1.0-0/gemtc/build |only gemtc-1.0-0/gemtc/man/atrialFibrillation.Rd | 2 gemtc-1.0-0/gemtc/man/blocker.Rd | 4 gemtc-1.0-0/gemtc/man/certolizumab.Rd | 2 gemtc-1.0-0/gemtc/man/depression.Rd | 2 gemtc-1.0-0/gemtc/man/dietfat.Rd | 4 gemtc-1.0-0/gemtc/man/gemtc-package.Rd | 19 +-- gemtc-1.0-0/gemtc/man/hfPrevention.Rd | 2 gemtc-1.0-0/gemtc/man/parkinson.Rd | 2 gemtc-1.0-0/gemtc/man/smoking.Rd | 4 gemtc-1.0-0/gemtc/man/thrombolytic.Rd | 4 gemtc-1.0-0/gemtc/tests/data/anohe-breaking.txt |only gemtc-1.0-0/gemtc/tests/data/welton-cholesterol.txt |only gemtc-1.0-0/gemtc/tests/data/welton-diastolic.txt |only gemtc-1.0-0/gemtc/tests/data/welton-systolic.txt |only gemtc-1.0-0/gemtc/tests/testthat/test-regress-anohe.R | 4 gemtc-1.0-0/gemtc/tests/testthat/test-validate-welton-cholesterol.R | 2 gemtc-1.0-0/gemtc/tests/testthat/test-validate-welton-diastolic.R | 2 gemtc-1.0-0/gemtc/tests/testthat/test-validate-welton-systolic.R | 2 33 files changed, 85 insertions(+), 72 deletions(-)
Title: A Double Bootstrap Method for Analyzing Linear Models with
Autoregressive Errors
Description: Computes the double bootstrap as discussed in McKnight, McKean, and Huitema (2000) <doi:10.1037/1082-989X.5.1.87>.
The double bootstrap method provides a better fit for a linear model with autoregressive errors than ARIMA when the sample size is small.
Author: Joseph W. McKean and Shaofeng Zhang
Maintainer: Shaofeng Zhang <shaofeng.zhang@wmich.edu>
Diff between DBfit versions 1.0 dated 2018-10-24 and 2.0 dated 2021-04-30
DBfit-1.0/DBfit/R/DBfit-internal.R |only DBfit-2.0/DBfit/DESCRIPTION | 8 ++--- DBfit-2.0/DBfit/MD5 | 23 ++++++++------- DBfit-2.0/DBfit/R/boot2.R | 2 - DBfit-2.0/DBfit/R/durbin1fit.R | 6 +++- DBfit-2.0/DBfit/R/durbin1xy.R | 4 +- DBfit-2.0/DBfit/R/fullr.R |only DBfit-2.0/DBfit/R/simula.R | 52 +++++++++++++++++++++++------------ DBfit-2.0/DBfit/R/simulacorrection.R | 12 ++++---- DBfit-2.0/DBfit/build/partial.rdb |binary DBfit-2.0/DBfit/man/dbfit.Rd | 12 ++++---- DBfit-2.0/DBfit/man/fullr.Rd |only DBfit-2.0/DBfit/man/hypothmat.Rd | 12 ++++---- DBfit-2.0/DBfit/man/summary.dbfit.Rd | 10 +++--- 14 files changed, 83 insertions(+), 58 deletions(-)
Title: Quantitative Evaluation of the Native Fertility of Tropical
Soils
Description: An implementation of the QUEFTS (Quantitative Evaluation of the Native Fertility of Tropical Soils) model. The model (1) estimates native nutrient (N, P, K) supply of soils from a few soil chemical properties; and (2) computes crop yield given that supply, crop parameters, fertilizer application, and crop attainable yield. See Janssen et al. (1990) <doi:10.1016/0016-7061(90)90021-Z> for the technical details and Sattari et al. (2014) <doi:10.1016/j.fcr.2013.12.005> for a recent evaluation and improvements.
Author: Robert J. Hijmans [cre, aut],
Pieter Pypers [ctb],
Joost Wolff [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between Rquefts versions 1.0-7 dated 2020-03-13 and 1.2-1 dated 2021-04-30
Rquefts-1.0-7/Rquefts/ChangeLog |only Rquefts-1.0-7/Rquefts/man/QueftsModel-class.Rd |only Rquefts-1.0-7/Rquefts/src/SimUtil.h |only Rquefts-1.2-1/Rquefts/DESCRIPTION | 15 ++++--- Rquefts-1.2-1/Rquefts/MD5 | 40 +++++++++++++-------- Rquefts-1.2-1/Rquefts/NAMESPACE | 4 +- Rquefts-1.2-1/Rquefts/NEWS |only Rquefts-1.2-1/Rquefts/R/fcc.R |only Rquefts-1.2-1/Rquefts/R/ferti_funs.R | 38 +++++++++++++++++++ Rquefts-1.2-1/Rquefts/R/rquefts.R | 12 +----- Rquefts-1.2-1/Rquefts/R/spatial.R |only Rquefts-1.2-1/Rquefts/build/partial.rdb |binary Rquefts-1.2-1/Rquefts/inst/extdata/fertilizers.csv | 2 + Rquefts-1.2-1/Rquefts/inst/sp |only Rquefts-1.2-1/Rquefts/man/Rquefts-package.Rd | 8 +++- Rquefts-1.2-1/Rquefts/man/fertApp.Rd |only Rquefts-1.2-1/Rquefts/man/nutSupply.Rd | 4 +- Rquefts-1.2-1/Rquefts/man/predict.Rd |only Rquefts-1.2-1/Rquefts/src/RcppModule.cpp | 1 Rquefts-1.2-1/Rquefts/src/qUtil.h |only Rquefts-1.2-1/Rquefts/src/quefts.cpp | 30 +++++++++++---- Rquefts-1.2-1/Rquefts/src/quefts.h | 2 - Rquefts-1.2-1/Rquefts/src/quefts_R_interface.cpp | 5 +- 23 files changed, 112 insertions(+), 49 deletions(-)
Title: Execute and Control System Processes
Description: Tools to run system processes in the background.
It can check if a background process is running; wait on a background
process to finish; get the exit status of finished processes; kill
background processes. It can read the standard output and error of
the processes, using non-blocking connections. 'processx' can poll
a process for standard output or error, with a timeout. It can also
poll several processes at once.
Author: Gábor Csárdi [aut, cre, cph] (<https://orcid.org/0000-0001-7098-9676>),
Winston Chang [aut],
RStudio [cph, fnd],
Mango Solutions [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between processx versions 3.5.1 dated 2021-04-04 and 3.5.2 dated 2021-04-30
DESCRIPTION | 6 +- MD5 | 33 ++++++------- NAMESPACE | 1 NEWS.md | 15 +++++ R/errors.R | 58 +++++++++++++++------- R/initialize.R | 5 + R/process.R | 17 ++++++ R/run.R | 4 + R/supervisor.R | 21 +++++++- R/utils.R | 12 +++- man/process.Rd | 16 +++++- man/run.Rd | 4 + man/supervisor_kill.Rd |only src/Makevars | 6 +- src/errors.h | 114 +++++++++++++++++++++++++++++++++++++++++++-- tests/testthat/helper.R | 10 --- tests/testthat/test-err.R | 11 ++-- tests/testthat/test-utf8.R | 12 ++++ 18 files changed, 278 insertions(+), 67 deletions(-)
Title: Event History Analysis
Description: Parametric proportional hazards fitting with left truncation and
right censoring for common families of distributions, piecewise constant
hazards, and discrete models. Parametric accelerated failure time models
for left truncated and right censored data. Proportional hazards
models for tabular and register data. Sampling of risk sets in Cox
regression, selections in the Lexis diagram, bootstrapping.
Broström (2012) <doi:10.1201/9781315373942>.
Author: Göran Broström [aut, cre],
Jianming Jin [ctb]
Maintainer: Göran Broström <goran.brostrom@umu.se>
Diff between eha versions 2.8.5 dated 2021-01-12 and 2.9.0 dated 2021-04-30
ChangeLog | 21 +++++ DESCRIPTION | 8 +- MD5 | 64 ++++++++--------- NEWS.md | 16 ++++ R/coxreg.R | 1 R/coxreg.fit.R | 23 +++--- R/hazards.R | 12 ++- R/plot.tpchreg.R | 12 +-- R/plotHaz.R | 29 ++++++- R/regtable.R | 14 ++- R/tpchreg.R | 2 build/vignette.rds |binary data/swedeaths.rda |binary data/swepop.rda |binary inst/doc/eha.html | 13 ++- inst/doc/gompertz.R | 22 +++++ inst/doc/gompertz.Rmd | 101 ++++++++++++++++++++++++++ inst/doc/gompertz.html | 176 ++++++++++++++++++++++++++++++++++++----------- inst/doc/parametric.R | 6 + inst/doc/parametric.Rmd | 20 ++++- inst/doc/parametric.html | 93 ++++++++++-------------- inst/doc/parametric1.pdf |binary inst/doc/tpchreg.html | 138 +++++++++++++++--------------------- man/coxreg.Rd | 1 man/coxreg.fit.Rd | 21 +++-- man/plotHaz.Rd | 6 + man/swedeaths.Rd | 11 +- man/swepop.Rd | 4 - man/tpchreg.Rd | 2 src/eha_fun.c | 6 - src/sup.c | 8 +- vignettes/gompertz.Rmd | 101 ++++++++++++++++++++++++++ vignettes/parametric.Rmd | 20 ++++- 33 files changed, 672 insertions(+), 279 deletions(-)
Title: Enhancing the 'parallel' Package
Description: Utility functions that enhance the 'parallel' package and support the built-in parallel backends of the 'future' package. For example, availableCores() gives the number of CPU cores available to your R process as given by the operating system, 'cgroups' and Linux containers, R options, and environment variables, including those set by job schedulers on high-performance compute clusters. If none is set, it will fall back to parallel::detectCores(). Another example is makeClusterPSOCK(), which is backward compatible with parallel::makePSOCKcluster() while doing a better job in setting up remote cluster workers without the need for configuring the firewall to do port-forwarding to your local computer.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between parallelly versions 1.24.0 dated 2021-03-14 and 1.25.0 dated 2021-04-30
DESCRIPTION | 9 ++- MD5 | 40 ++++++++--------- NEWS | 32 +++++++++++++ R/availableCores.R | 37 ++++++++++++--- R/availableWorkers.R | 2 R/freeCores.R | 3 - R/makeClusterPSOCK.R | 66 ++++++++++++---------------- R/options.R | 107 ++++++++++++++++++++++++++++++++++++++++++++++ R/supportsMulticore.R | 8 +-- R/zzz.R | 64 +-------------------------- README.md | 41 +++++++---------- inst/WORDLIST | 1 man/as.cluster.Rd | 2 man/autoStopCluster.Rd | 2 man/availableCores.Rd | 26 +++++++---- man/availableWorkers.Rd | 2 man/find_rshcmd.Rd | 3 + man/freeCores.Rd | 3 - man/makeClusterPSOCK.Rd | 23 +++------ man/parallelly.options.Rd | 4 + man/supportsMulticore.Rd | 8 +-- 21 files changed, 293 insertions(+), 190 deletions(-)
Title: Toolkit for Encryption, Signatures and Certificates Based on
OpenSSL
Description: Bindings to OpenSSL libssl and libcrypto, plus custom SSH key parsers.
Supports RSA, DSA and EC curves P-256, P-384, P-521, and curve25519. Cryptographic
signatures can either be created and verified manually or via x509 certificates.
AES can be used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric
(public key) encryption or EC for Diffie Hellman. High-level envelope functions
combine RSA and AES for encrypting arbitrary sized data. Other utilities include key
generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure random
number generator, and 'bignum' math methods for manually performing crypto
calculations on large multibyte integers.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>),
Oliver Keyes [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between openssl versions 1.4.3 dated 2020-09-18 and 1.4.4 dated 2021-04-30
openssl-1.4.3/openssl/src/win32 |only openssl-1.4.4/openssl/DESCRIPTION | 8 openssl-1.4.4/openssl/MD5 | 28 - openssl-1.4.4/openssl/NEWS | 5 openssl-1.4.4/openssl/R/cert.R | 2 openssl-1.4.4/openssl/build/vignette.rds |binary openssl-1.4.4/openssl/configure | 24 - openssl-1.4.4/openssl/inst/doc/bignum.html | 305 +++----------------- openssl-1.4.4/openssl/inst/doc/crypto_hashing.html | 285 ++---------------- openssl-1.4.4/openssl/inst/doc/keys.html | 319 +++------------------ openssl-1.4.4/openssl/inst/doc/secure_rng.html | 295 ++----------------- openssl-1.4.4/openssl/man/certificates.Rd | 2 openssl-1.4.4/openssl/src/Makevars.ucrt |only openssl-1.4.4/openssl/src/Makevars.win | 7 openssl-1.4.4/openssl/src/rand.c | 7 openssl-1.4.4/openssl/src/ssl.c | 6 16 files changed, 225 insertions(+), 1068 deletions(-)
Title: Discrete and Global Optimization Routines
Description: The R package 'adagio' will provide methods and algorithms for
discrete optimization, e.g. knapsack and subset sum procedures,
derivative-free Nelder-Mead and Hooke-Jeeves minimization, and
some (evolutionary) global optimization functions.
Author: Hans W. Borchers [aut, cre]
Maintainer: Hans W. Borchers <hwborchers@googlemail.com>
Diff between adagio versions 0.7.1 dated 2018-05-17 and 0.8.4 dated 2021-04-30
adagio-0.7.1/adagio/src |only adagio-0.8.4/adagio/DESCRIPTION | 21 +-- adagio-0.8.4/adagio/MD5 | 44 +++---- adagio-0.8.4/adagio/NAMESPACE | 14 +- adagio-0.8.4/adagio/NEWS | 35 +++++ adagio-0.8.4/adagio/R/assignment.R | 59 ++++++--- adagio-0.8.4/adagio/R/binpacking.R |only adagio-0.8.4/adagio/R/maxsub.R | 188 ++++++++++++++++++------------- adagio-0.8.4/adagio/R/mknapsack.R | 90 +++++++++----- adagio-0.8.4/adagio/R/occurs.R |only adagio-0.8.4/adagio/R/setcover.R |only adagio-0.8.4/adagio/R/subsetsum.R | 21 ++- adagio-0.8.4/adagio/man/assignment.Rd | 45 +++---- adagio-0.8.4/adagio/man/binpacking.Rd |only adagio-0.8.4/adagio/man/cmaes.Rd | 17 -- adagio-0.8.4/adagio/man/hamiltonian.Rd | 2 adagio-0.8.4/adagio/man/knapsack.Rd | 29 ++++ adagio-0.8.4/adagio/man/maxempty.Rd | 1 adagio-0.8.4/adagio/man/maxsub.Rd | 21 +-- adagio-0.8.4/adagio/man/mknapsack.Rd | 114 +++++++++++------- adagio-0.8.4/adagio/man/occurs.Rd |only adagio-0.8.4/adagio/man/setcover.Rd |only adagio-0.8.4/adagio/man/subsetsum.Rd | 55 +++++++-- adagio-0.8.4/adagio/man/testfunctions.Rd | 2 24 files changed, 475 insertions(+), 283 deletions(-)
Title: Delineate Region of Interests (ROI's) and Extract Time-Series
Data from Digital Repeat Photography Images
Description: Digital repeat photography and near-surface remote sensing have been used by environmental scientists to study the environmental change for nearly a decade. However, a user-friendly, reliable, and robust platform to extract color-based statistics and time-series from a large stack of images is still lacking. Here, we present an interactive open-source toolkit, called 'xROI', that facilitate the process time-series extraction and improve the quality of the final data. 'xROI' provides a responsive environment for scientists to interactively a) delineate regions of interest (ROI), b) handle field of view (FOV) shifts, and c) extract and export time series data characterizing image color (i.e. red, green and blue channel digital numbers for the defined ROI). Using 'xROI', user can detect FOV shifts without minimal difficulty. The software gives user the opportunity to readjust the mask files or redraw new ones every time an FOV shift occurs. 'xROI' helps to significantly improve data accuracy and continuity.
Author: Bijan Seyednasrollah, Thomas Milliman, Andrew D. Richardson
Maintainer: Bijan Seyednasrollah <bijan.s.nasr@gmail.com>
Diff between xROI versions 0.9.18 dated 2021-04-20 and 0.9.19 dated 2021-04-30
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/addMask.R | 2 +- R/plotCLArray.R | 2 +- R/plotJPEG.R | 2 +- inst/doc/Launch-xROI.html | 5 +++-- man/plotCLArray.Rd | 2 +- man/plotJPEG.Rd | 2 +- 8 files changed, 19 insertions(+), 18 deletions(-)
Title: Generalized Linear Latent Variable Models
Description: Analysis of multivariate data using generalized linear latent variable models (gllvm).
Estimation is performed using either Laplace approximation method or variational approximation method implemented via TMB (Kristensen et al., (2016), <doi:10.18637/jss.v070.i05>).
For details see Niku et al. (2019a) <doi:10.1371/journal.pone.0216129> and Niku et al. (2019b) <doi:10.1111/2041-210X.13303>.
Author: Jenni Niku [aut, cre],
Wesley Brooks [aut],
Riki Herliansyah [aut],
Francis K.C. Hui [aut],
Sara Taskinen [aut],
David I. Warton [aut],
Bert van der Veen [aut]
Maintainer: Jenni Niku <jenni.m.e.niku@jyu.fi>
Diff between gllvm versions 1.2.3 dated 2020-12-11 and 1.3.0 dated 2021-04-30
gllvm-1.2.3/gllvm/man/microbialdata.Rd |only gllvm-1.3.0/gllvm/DESCRIPTION | 25 gllvm-1.3.0/gllvm/MD5 | 89 +-- gllvm-1.3.0/gllvm/NAMESPACE | 22 gllvm-1.3.0/gllvm/NEWS.md |only gllvm-1.3.0/gllvm/R/TMBtrait.R | 263 +++++++-- gllvm-1.3.0/gllvm/R/aicc.gllvm.R |only gllvm-1.3.0/gllvm/R/anova.gllvm.R | 164 ++++- gllvm-1.3.0/gllvm/R/coefplot.gllvm.R | 2 gllvm-1.3.0/gllvm/R/confint.gllvm.R | 33 + gllvm-1.3.0/gllvm/R/ecoCoefs.gllvm.R |only gllvm-1.3.0/gllvm/R/getResidualCov.gllvm.R | 90 ++- gllvm-1.3.0/gllvm/R/gllvm.R | 176 ++++-- gllvm-1.3.0/gllvm/R/gllvm.TMB.R | 276 ++++++++- gllvm-1.3.0/gllvm/R/gllvm.VA.R | 2 gllvm-1.3.0/gllvm/R/gllvm.auxiliary.R | 138 +++- gllvm-1.3.0/gllvm/R/logLik.gllvm.R | 4 gllvm-1.3.0/gllvm/R/ordiplot.gllvm.R | 17 gllvm-1.3.0/gllvm/R/predict.gllvm.R | 104 ++- gllvm-1.3.0/gllvm/R/predictLVs.gllvm.R | 14 gllvm-1.3.0/gllvm/R/randomCoefplot.R | 1 gllvm-1.3.0/gllvm/R/residuals.gllvm.R | 21 gllvm-1.3.0/gllvm/R/se.gllvm.R | 36 + gllvm-1.3.0/gllvm/R/simulate.gllvm.R | 5 gllvm-1.3.0/gllvm/R/summary.gllvm.R | 10 gllvm-1.3.0/gllvm/R/vcov.gllvm.R |only gllvm-1.3.0/gllvm/README.md |only gllvm-1.3.0/gllvm/build/vignette.rds |binary gllvm-1.3.0/gllvm/inst/CITATION |only gllvm-1.3.0/gllvm/inst/doc/vignette1.Rmd | 10 gllvm-1.3.0/gllvm/inst/doc/vignette1.html | 723 ++++++++------------------ gllvm-1.3.0/gllvm/inst/doc/vignette2.R | 4 gllvm-1.3.0/gllvm/inst/doc/vignette2.html | 542 ++++++------------- gllvm-1.3.0/gllvm/inst/doc/vignette2.rmd | 4 gllvm-1.3.0/gllvm/man/AICc.Rd |only gllvm-1.3.0/gllvm/man/anova.gllvm.Rd | 8 gllvm-1.3.0/gllvm/man/confint.gllvm.Rd | 2 gllvm-1.3.0/gllvm/man/getResidualCov.gllvm.Rd | 20 gllvm-1.3.0/gllvm/man/gllvm.Rd | 47 + gllvm-1.3.0/gllvm/man/microbialdata.rd |only gllvm-1.3.0/gllvm/man/optima.Rd |only gllvm-1.3.0/gllvm/man/predictLVs.gllvm.Rd | 7 gllvm-1.3.0/gllvm/man/vcov.gllvm.Rd |only gllvm-1.3.0/gllvm/src/gllvm.cpp | 458 ++++++++++++---- gllvm-1.3.0/gllvm/vignettes/ftNULL.RData |binary gllvm-1.3.0/gllvm/vignettes/ftNULLpois.RData |binary gllvm-1.3.0/gllvm/vignettes/ftX.RData |binary gllvm-1.3.0/gllvm/vignettes/ftXi.RData |binary gllvm-1.3.0/gllvm/vignettes/ftXph.RData |binary gllvm-1.3.0/gllvm/vignettes/vignette1.Rmd | 10 gllvm-1.3.0/gllvm/vignettes/vignette2.rmd | 4 51 files changed, 1984 insertions(+), 1347 deletions(-)
Title: Benford's Analysis on Large Data Sets
Description: Perform the Benford's Analysis to a data set in order to evaluate if it contains human fabricated data. For more details on the method see Moreau, 2021, Model Assist. Statist. Appl., in press.
Author: Vitor Hugo Moreau
Maintainer: Vitor Hugo Moreau <vitorhmc@ufba.br>
Diff between benford versions 0.1.0 dated 2021-02-07 and 0.2.0 dated 2021-04-30
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/benford.R | 1 + man/benford.Rd | 2 ++ 4 files changed, 9 insertions(+), 6 deletions(-)
Title: Tools for Simulating Direct Behavioral Observation Recording
Procedures Based on Alternating Renewal Processes
Description: Tools for simulating data generated by direct observation
recording. Behavior streams are simulated based on an alternating renewal
process, given specified distributions of event durations and interim
times. Different procedures for recording data can then be applied to the
simulated behavior streams. Functions are provided for the following
recording methods: continuous duration recording, event counting, momentary
time sampling, partial interval recording, whole interval recording, and
augmented interval recording.
Author: James E. Pustejovsky, with contributions from Daniel M. Swan
Maintainer: James E. Pustejovsky <jepusto@gmail.com>
Diff between ARPobservation versions 1.2.0 dated 2019-06-20 and 1.2.1 dated 2021-04-30
DESCRIPTION | 10 MD5 | 48 +-- NEWS | 8 R/ARPsimulator.R | 15 R/effect_size_estimators.R | 538 +++++++++++++++++------------------ build/vignette.rds |binary inst/doc/Observation-algorithms.html | 45 ++ man/ARPobservation.Rd | 5 man/Dunlap.Rd | 11 man/Moes.Rd | 11 man/PIR_MOM.Rd | 54 ++- man/incidence_bounds.Rd | 27 + man/interim_bounds.Rd | 40 +- man/interval_recording.Rd | 9 man/logRespRatio.Rd | 20 - man/plot.behavior_stream.Rd | 9 man/prevalence_bounds.Rd | 26 + man/r_AIR.Rd | 15 man/r_MTS.Rd | 15 man/r_PIR.Rd | 17 - man/r_WIR.Rd | 17 - man/r_behavior_stream.Rd | 13 man/r_continuous_recording.Rd | 13 man/r_event_counting.Rd | 13 man/reported_observations.Rd | 9 25 files changed, 577 insertions(+), 411 deletions(-)
More information about ARPobservation at CRAN
Permanent link
Title: A Calculator for Single-Case Effect Sizes
Description: Provides R functions for calculating basic effect size indices for
single-case designs, including several non-overlap measures and parametric
effect size measures, and for estimating the gradual effects model developed
by Swan and Pustejovsky (2018) <DOI:10.1080/00273171.2018.1466681>.
Standard errors and confidence intervals (based on the assumption that the outcome
measurements are mutually independent) are provided for the subset of effect sizes
indices with known sampling distributions.
Author: James E. Pustejovsky [aut, cre],
Daniel M. Swan [aut]
Maintainer: James E. Pustejovsky <jepusto@gmail.com>
Diff between SingleCaseES versions 0.4.3 dated 2019-08-29 and 0.4.4 dated 2021-04-30
DESCRIPTION | 10 MD5 | 81 - NEWS.md | 6 R/data-documentation.R | 2 R/gradual-effects-model.R | 12 R/non-overlap-measures.R | 37 R/parametric-measures.R | 81 - build/partial.rdb |only build/vignette.rds |binary data/McKissick.RData |binary data/Schmidt2007.RData |binary data/Schmidt2012.RData |binary data/Shogren.RData |binary data/Thorne.RData |binary data/Wright2012.RData |binary inst/doc/Effect-size-definitions.R | 2 inst/doc/Effect-size-definitions.html | 52 inst/doc/Using-SingleCaseES.R | 102 - inst/doc/Using-SingleCaseES.html | 963 ++++++++--------- inst/shiny-examples/SCD-effect-sizes/markdown/About.md | 4 inst/shiny-examples/gem-scd/server.R | 146 +- man/IRD.Rd | 12 man/LOR.Rd | 50 man/LRR.Rd | 70 - man/McKissick.Rd | 4 man/NAP.Rd | 21 man/PAND.Rd | 14 man/PEM.Rd | 12 man/PND.Rd | 12 man/SMD.Rd | 14 man/Schmidt2007.Rd | 4 man/Schmidt2012.Rd | 4 man/Shogren.Rd | 4 man/Tau.Rd | 15 man/Tau_U.Rd | 12 man/Thorne.Rd | 4 man/Wright2012.Rd | 4 man/batch_calc_ES.Rd | 23 man/calc_ES.Rd | 16 man/shine_gem_scd.Rd | 2 tests/testthat/test-short-phase-behavior.R | 16 tests/testthat/test-trunc-constant.R | 86 + 42 files changed, 1106 insertions(+), 791 deletions(-)
Title: Spatially Explicit Capture-Recapture
Description: Functions to estimate the density and size of a spatially distributed animal population sampled with an array of passive detectors, such as traps, or by searching polygons or transects. Models incorporating distance-dependent detection are fitted by maximizing the likelihood. Tools are included for data manipulation and model selection.
Author: Murray Efford
Maintainer: Murray Efford <murray.efford@otago.ac.nz>
Diff between secr versions 4.3.3 dated 2020-12-11 and 4.4.1 dated 2021-04-30
DESCRIPTION | 12 +-- MD5 | 126 ++++++++++++++++----------------- NAMESPACE | 8 +- NEWS | 36 +++++++++ R/CV.R | 6 + R/DENSITY.R | 1 R/Fewstervarn.R | 2 R/RcppExports.R | 24 +++--- R/addCovariates.R | 7 + R/autoini.R | 2 R/confint.secr.R | 6 + R/fastsecrloglik.R | 12 ++- R/generalsecrloglik.R | 20 ++--- R/homerange.R | 13 ++- R/join2.R | 3 R/loglikhelperfn.R | 26 +++--- R/make.capthist.R | 5 - R/make.grid.R | 2 R/methods.R | 12 ++- R/model.average.R | 6 + R/onLoad.R | 13 ++- R/par.secr.fit.R | 5 - R/pdot.R | 4 - R/plot.secr.R | 5 + R/plot.traps.R | 9 +- R/predict.secr.R | 9 +- R/preparedata.R | 77 ++++++++------------ R/read.traps.R | 2 R/reduce.R | 60 ++++++++------- R/regionN.R | 5 - R/secr.design.MS.R | 12 --- R/secr.fit.R | 24 +++--- R/secr.make.newdata.R | 19 +++-- R/sim.capthist.R | 73 +++++++++++-------- R/sim.popn.R | 132 ++++++++++++++++++++++++++-------- R/sim.secr.R | 8 +- R/split.capthist.R | 166 ++++++++++++++++++++++++++++++++------------ R/split.traps.R | 3 R/utility.R | 111 ++++++++++++++++++++++++----- R/verify.R | 5 - inst/doc/secr-datainput.pdf |binary inst/doc/secr-overview.Rmd | 20 ++--- inst/doc/secr-overview.pdf |binary man/OVpossum.Rd | 2 man/detectfn.Rd | 10 ++ man/make.capthist.Rd | 3 man/pdot.Rd | 2 man/plot.traps.Rd | 2 man/predict.secr.Rd | 4 - man/reduce.capthist.Rd | 16 ++-- man/secr-package.Rd | 6 - man/secr.make.newdata.Rd | 17 ++-- man/sim.capthist.Rd | 3 man/sim.popn.Rd | 7 + man/subset.capthist.Rd | 4 - man/turnover.Rd | 10 ++ src/RcppExports.cpp | 58 ++++++++------- src/detectfn.cpp | 19 ++++- src/makegk.cpp | 7 + src/pdot.cpp | 4 - src/trapping.cpp | 29 +++---- src/utils.cpp | 20 +++++ tests |only vignettes/secr-overview.Rmd | 20 ++--- 64 files changed, 869 insertions(+), 465 deletions(-)
Title: Fast and Simple 'MongoDB' Client for R
Description: High-performance MongoDB client based on 'mongo-c-driver' and 'jsonlite'.
Includes support for aggregation, indexing, map-reduce, streaming, encryption,
enterprise authentication, and GridFS. The online user manual provides an overview
of the available methods in the package: <https://jeroen.github.io/mongolite/>.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>),
MongoDB, Inc [cph] (Bundled mongo-c-driver, see AUTHORS file)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between mongolite versions 2.3.0 dated 2021-01-19 and 2.3.1 dated 2021-04-30
mongolite-2.3.0/mongolite/src/win32 |only mongolite-2.3.0/mongolite/tests/testthat/specifications |only mongolite-2.3.1/mongolite/DESCRIPTION | 6 +- mongolite-2.3.1/mongolite/MD5 | 44 +--------------- mongolite-2.3.1/mongolite/NEWS | 3 + mongolite-2.3.1/mongolite/src/Makevars.ucrt |only mongolite-2.3.1/mongolite/src/Makevars.win | 9 +-- mongolite-2.3.1/mongolite/tools/winlibs.R | 2 8 files changed, 15 insertions(+), 49 deletions(-)
Title: Toolbox for Aquatic Ecosystem Modeling
Description: Classes and methods for implementing aquatic ecosystem models,
for running these models, and for visualizing their results.
Author: Peter Reichert
Maintainer: Peter Reichert <peter.reichert@eawag.ch>
Diff between ecosim versions 1.3-1 dated 2019-02-22 and 1.3-2 dated 2021-04-30
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/ecosim.r | 24 +++++++++++++++++------- inst/NEWS | 7 +++++++ man/calcres.Rd | 18 +++++++++--------- man/calcsens.Rd | 14 +++++++------- man/ecosim-package.Rd | 26 +++++++++++++------------- man/plotres.Rd | 14 +++++++------- man/process-class.Rd | 2 +- man/system-class.Rd | 2 +- 10 files changed, 75 insertions(+), 58 deletions(-)
Title: Data Science Labs
Description: Datasets and functions that can be used for data analysis practice, homework and projects in data science courses and workshops. 26 datasets are available for case studies in data visualization, statistical inference, modeling, linear regression, data wrangling and machine learning.
Author: Rafael A. Irizarry, Amy Gill
Maintainer: Rafael A. Irizarry <rafael_irizarry@dfci.harvard.edu>
Diff between dslabs versions 0.7.3 dated 2019-12-13 and 0.7.4 dated 2021-04-30
dslabs-0.7.3/dslabs/data/datalist |only dslabs-0.7.4/dslabs/DESCRIPTION | 8 - dslabs-0.7.4/dslabs/MD5 | 75 ++++++------- dslabs-0.7.4/dslabs/NAMESPACE | 1 dslabs-0.7.4/dslabs/R/brca.R | 2 dslabs-0.7.4/dslabs/R/mnist_27.R | 5 dslabs-0.7.4/dslabs/R/polls_us_election_2016.R | 11 + dslabs-0.7.4/dslabs/R/read_mnist.R | 78 +++++++++++--- dslabs-0.7.4/dslabs/R/research_funding_rates.R | 2 dslabs-0.7.4/dslabs/R/trump_tweets.R | 2 dslabs-0.7.4/dslabs/inst/extdata/2010_bigfive_regents.xls |binary dslabs-0.7.4/dslabs/man/admissions.Rd | 4 dslabs-0.7.4/dslabs/man/brca.Rd | 7 - dslabs-0.7.4/dslabs/man/brexit_polls.Rd | 4 dslabs-0.7.4/dslabs/man/death_prob.Rd | 4 dslabs-0.7.4/dslabs/man/divorce_margarine.Rd | 4 dslabs-0.7.4/dslabs/man/ds_theme_set.Rd | 9 + dslabs-0.7.4/dslabs/man/gapminder.Rd | 4 dslabs-0.7.4/dslabs/man/greenhouse_gases.Rd | 4 dslabs-0.7.4/dslabs/man/heights.Rd | 4 dslabs-0.7.4/dslabs/man/historic_co2.Rd | 4 dslabs-0.7.4/dslabs/man/mnist_27.Rd | 11 + dslabs-0.7.4/dslabs/man/movielens.Rd | 4 dslabs-0.7.4/dslabs/man/murders.Rd | 4 dslabs-0.7.4/dslabs/man/na_example.Rd | 4 dslabs-0.7.4/dslabs/man/nyc_regents_scores.Rd | 4 dslabs-0.7.4/dslabs/man/olive.Rd | 4 dslabs-0.7.4/dslabs/man/outlier_example.Rd | 4 dslabs-0.7.4/dslabs/man/polls_2008.Rd | 4 dslabs-0.7.4/dslabs/man/polls_us_election_2016.Rd | 13 +- dslabs-0.7.4/dslabs/man/read_mnist.Rd | 40 +++++-- dslabs-0.7.4/dslabs/man/reported_heights.Rd | 4 dslabs-0.7.4/dslabs/man/research_funding_rates.Rd | 6 - dslabs-0.7.4/dslabs/man/rfalling_object.Rd | 13 +- dslabs-0.7.4/dslabs/man/stars.Rd | 4 dslabs-0.7.4/dslabs/man/temp_carbon.Rd | 4 dslabs-0.7.4/dslabs/man/tissue_gene_expression.Rd | 5 dslabs-0.7.4/dslabs/man/trump_tweets.Rd | 6 - dslabs-0.7.4/dslabs/man/us_contagious_diseases.Rd | 4 39 files changed, 262 insertions(+), 108 deletions(-)
Title: Simple Animated Plots for R
Description: Simple animated versions of basic R plots, using the 'animation'
package. Includes animated versions of plot, barplot, persp, contour,
filled.contour, hist, curve, points, lines, text, symbols, segments, and
arrows.
Author: David Hugh-Jones <davidhughjones@gmail.com>
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between anim.plots versions 0.2.1 dated 2019-05-16 and 0.2.2 dated 2021-04-30
DESCRIPTION | 15 -- MD5 | 28 +-- NEWS.md | 7 R/anim.plots.R | 10 - build/vignette.rds |binary inst/doc/anim.plots-stub.R | 4 inst/doc/anim.plots-stub.html | 312 ++++++++---------------------------------- man/anim.barplot.Rd | 34 +++- man/anim.contour.Rd | 16 +- man/anim.curve.Rd | 3 man/anim.hist.Rd | 17 +- man/anim.plot.Rd | 39 ++++- man/anim.save.Rd | 9 - man/anim.segments.Rd | 23 ++- man/replay.Rd | 10 + 15 files changed, 218 insertions(+), 309 deletions(-)
Title: Make 'ggplot2' and 'leaflet' Visualisation Easier
Description: Wrapper functions to make 'ggplot2' and 'leaflet' visualisation easier.
Author: David Hodge [aut, cre] (<https://orcid.org/0000-0002-3868-7501>),
Statistics New Zealand [cph]
Maintainer: David Hodge <davidhodge931@gmail.com>
Diff between simplevis versions 2.6.0 dated 2021-04-09 and 3.0.0 dated 2021-04-30
simplevis-2.6.0/simplevis/inst/shiny/template2/data/data1.RDS |only simplevis-2.6.0/simplevis/inst/shiny/template2/data/data2.RDS |only simplevis-2.6.0/simplevis/man/a4_height_mm.Rd |only simplevis-2.6.0/simplevis/man/a4_width_mm.Rd |only simplevis-2.6.0/simplevis/man/colnames_to_snake_to_sentence.Rd |only simplevis-2.6.0/simplevis/man/legend_labels_from_cuts.Rd |only simplevis-2.6.0/simplevis/man/pal_default.Rd |only simplevis-3.0.0/simplevis/DESCRIPTION | 10 simplevis-3.0.0/simplevis/MD5 | 145 simplevis-3.0.0/simplevis/NAMESPACE | 6 simplevis-3.0.0/simplevis/NEWS.md | 105 simplevis-3.0.0/simplevis/R/breaks.R |only simplevis-3.0.0/simplevis/R/ggplot_boxplot.R | 1048 +- simplevis-3.0.0/simplevis/R/ggplot_hbar.R | 781 - simplevis-3.0.0/simplevis/R/ggplot_line.R | 636 - simplevis-3.0.0/simplevis/R/ggplot_point.R | 590 - simplevis-3.0.0/simplevis/R/ggplot_sf.R | 350 simplevis-3.0.0/simplevis/R/ggplot_vbar.R | 635 - simplevis-3.0.0/simplevis/R/internal.R | 100 simplevis-3.0.0/simplevis/R/leaflet_sf.R | 64 simplevis-3.0.0/simplevis/R/logo.R | 18 simplevis-3.0.0/simplevis/R/other.R | 16 simplevis-3.0.0/simplevis/R/theme.R |only simplevis-3.0.0/simplevis/README.md | 16 simplevis-3.0.0/simplevis/build/vignette.rds |binary simplevis-3.0.0/simplevis/inst/doc/simplevis.R | 212 simplevis-3.0.0/simplevis/inst/doc/simplevis.Rmd | 388 simplevis-3.0.0/simplevis/inst/doc/simplevis.html | 4586 +++++++++- simplevis-3.0.0/simplevis/inst/shiny/template1/data/template1.zip |binary simplevis-3.0.0/simplevis/inst/shiny/template1/make_app_vis.R | 8 simplevis-3.0.0/simplevis/inst/shiny/template1/server.R | 17 simplevis-3.0.0/simplevis/inst/shiny/template1/ui.R | 6 simplevis-3.0.0/simplevis/inst/shiny/template1/www/js/mobile.js | 2 simplevis-3.0.0/simplevis/inst/shiny/template2/data/template2.zip |binary simplevis-3.0.0/simplevis/inst/shiny/template2/global.R | 3 simplevis-3.0.0/simplevis/inst/shiny/template2/make_app_vis.R | 27 simplevis-3.0.0/simplevis/inst/shiny/template2/server.R | 35 simplevis-3.0.0/simplevis/inst/shiny/template2/ui.R | 7 simplevis-3.0.0/simplevis/inst/shiny/template2/www/js/mobile.js | 2 simplevis-3.0.0/simplevis/inst/shiny/zip_templates.R |only simplevis-3.0.0/simplevis/man/figures/logo.png |binary simplevis-3.0.0/simplevis/man/ggplot_boxplot.Rd | 42 simplevis-3.0.0/simplevis/man/ggplot_boxplot_col.Rd |only simplevis-3.0.0/simplevis/man/ggplot_boxplot_col_facet.Rd |only simplevis-3.0.0/simplevis/man/ggplot_boxplot_facet.Rd | 34 simplevis-3.0.0/simplevis/man/ggplot_hbar.Rd | 32 simplevis-3.0.0/simplevis/man/ggplot_hbar_col.Rd | 40 simplevis-3.0.0/simplevis/man/ggplot_hbar_col_facet.Rd | 18 simplevis-3.0.0/simplevis/man/ggplot_hbar_facet.Rd | 20 simplevis-3.0.0/simplevis/man/ggplot_line.Rd | 47 simplevis-3.0.0/simplevis/man/ggplot_line_col.Rd | 58 simplevis-3.0.0/simplevis/man/ggplot_line_col_facet.Rd | 48 simplevis-3.0.0/simplevis/man/ggplot_line_facet.Rd | 33 simplevis-3.0.0/simplevis/man/ggplot_point.Rd | 51 simplevis-3.0.0/simplevis/man/ggplot_point_col.Rd | 59 simplevis-3.0.0/simplevis/man/ggplot_point_col_facet.Rd | 41 simplevis-3.0.0/simplevis/man/ggplot_point_facet.Rd | 31 simplevis-3.0.0/simplevis/man/ggplot_sf.Rd | 20 simplevis-3.0.0/simplevis/man/ggplot_sf_col.Rd | 40 simplevis-3.0.0/simplevis/man/ggplot_sf_col_facet.Rd | 32 simplevis-3.0.0/simplevis/man/ggplot_sf_facet.Rd | 18 simplevis-3.0.0/simplevis/man/ggplot_vbar.Rd | 32 simplevis-3.0.0/simplevis/man/ggplot_vbar_col.Rd | 44 simplevis-3.0.0/simplevis/man/ggplot_vbar_col_facet.Rd | 22 simplevis-3.0.0/simplevis/man/ggplot_vbar_facet.Rd | 19 simplevis-3.0.0/simplevis/man/leaflet_sf.Rd | 10 simplevis-3.0.0/simplevis/man/leaflet_sf_col.Rd | 6 simplevis-3.0.0/simplevis/man/sv_colnames_to_present.Rd |only simplevis-3.0.0/simplevis/man/sv_font_size_body.Rd |only simplevis-3.0.0/simplevis/man/sv_font_size_title.Rd |only simplevis-3.0.0/simplevis/man/sv_labels_from_cuts.Rd |only simplevis-3.0.0/simplevis/man/sv_pal.Rd |only simplevis-3.0.0/simplevis/man/sv_x_zero_adjust.Rd |only simplevis-3.0.0/simplevis/man/sv_y_zero_adjust.Rd |only simplevis-3.0.0/simplevis/man/theme_boxplot.Rd | 2 simplevis-3.0.0/simplevis/man/theme_hbar.Rd | 2 simplevis-3.0.0/simplevis/man/theme_line.Rd | 2 simplevis-3.0.0/simplevis/man/theme_mobile_graph.Rd |only simplevis-3.0.0/simplevis/man/theme_mobile_map.Rd |only simplevis-3.0.0/simplevis/man/theme_point.Rd | 2 simplevis-3.0.0/simplevis/man/theme_sf.Rd | 2 simplevis-3.0.0/simplevis/man/theme_vbar.Rd | 2 simplevis-3.0.0/simplevis/man/x_numeric_breaks.Rd |only simplevis-3.0.0/simplevis/man/y_numeric_breaks.Rd |only simplevis-3.0.0/simplevis/vignettes/simplevis.Rmd | 388 85 files changed, 7509 insertions(+), 3501 deletions(-)
Title: A Modern and Flexible Web Client for R
Description: The curl() and curl_download() functions provide highly
configurable drop-in replacements for base url() and download.file() with
better performance, support for encryption (https, ftps), gzip compression,
authentication, and other 'libcurl' goodies. The core of the package implements a
framework for performing fully customized requests where data can be processed
either in memory, on disk, or streaming via the callback or connection
interfaces. Some knowledge of 'libcurl' is recommended; for a more-user-friendly
web client see the 'httr' package which builds on this package with http
specific tools and logic.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>),
Hadley Wickham [ctb],
RStudio [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between curl versions 4.3 dated 2019-12-02 and 4.3.1 dated 2021-04-30
curl-4.3.1/curl/DESCRIPTION | 14 curl-4.3.1/curl/MD5 | 58 curl-4.3.1/curl/NEWS | 4 curl-4.3.1/curl/R/echo.R | 4 curl-4.3.1/curl/R/email.R | 4 curl-4.3.1/curl/R/onload.R | 3 curl-4.3.1/curl/R/upload.R | 2 curl-4.3.1/curl/build/vignette.rds |binary curl-4.3.1/curl/configure | 4 curl-4.3.1/curl/inst/doc/intro.Rmd | 16 curl-4.3.1/curl/inst/doc/intro.html | 1426 +-------------------- curl-4.3.1/curl/inst/doc/windows.Rmd | 8 curl-4.3.1/curl/inst/doc/windows.html | 1353 ------------------- curl-4.3.1/curl/man/curl_echo.Rd | 2 curl-4.3.1/curl/man/curl_upload.Rd | 2 curl-4.3.1/curl/man/send_mail.Rd | 4 curl-4.3.1/curl/src/Makevars.win | 11 curl-4.3.1/curl/src/curl.c | 4 curl-4.3.1/curl/src/escape.c | 30 curl-4.3.1/curl/src/fetch.c | 2 curl-4.3.1/curl/src/handle.c | 4 curl-4.3.1/curl/src/interrupt.c | 2 curl-4.3.1/curl/src/nslookup.c | 33 curl-4.3.1/curl/tests/engine.R |only curl-4.3.1/curl/tests/engine.Rout.save |only curl-4.3.1/curl/tests/testthat/test-certificates.R | 2 curl-4.3.1/curl/tests/testthat/test-echo.R | 1 curl-4.3.1/curl/tests/testthat/test-handle.R | 4 curl-4.3.1/curl/vignettes/intro.Rmd | 16 curl-4.3.1/curl/vignettes/windows.Rmd | 8 curl-4.3/curl/src/winhttp32.def.in |only curl-4.3/curl/src/winhttp64.def.in |only 32 files changed, 232 insertions(+), 2789 deletions(-)
Title: Fake Web Apps for HTTP Testing
Description: Create a web app that makes it easier to test web clients
without using the internet. It includes a web app framework with path
matching, parameters and templates. Can parse various 'HTTP' request
bodies. Can send 'JSON' data or files from the disk. Includes a web app
that implements the <https://httpbin.org> web service.
Author: Gábor Csárdi [aut, cre],
RStudio, Pbc. [cph],
Civetweb contributors [ctb] (see inst/credits/ciwetweb.md),
Redoc contributors [ctb] (see inst/credits/redoc.md),
L. Peter Deutsch [ctb] (src/md5.h),
Martin Purschke [ctb] (src/md5.h),
Aladdin Enterprises [cph] (src/md5.h),
Maëlle Salmon [ctb] (<https://orcid.org/0000-0002-2815-0399>)
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between webfakes versions 1.1.2 dated 2021-04-05 and 1.1.3 dated 2021-04-30
DESCRIPTION | 6 ++--- MD5 | 6 ++--- NEWS.md | 5 ++++ src/rweb.c | 70 +++++++++++++++++++++++++++++++++--------------------------- 4 files changed, 50 insertions(+), 37 deletions(-)
Title: Implementation for the Most Common Gaussian Process Models
Description: Implements the most common Gaussian process (GP) models using Laplace and
expectation propagation (EP) approximations, maximum marginal likelihood
(or posterior) inference for the hyperparameters, and sparse approximations
for larger datasets.
Author: Juho Piironen [cre, aut]
Maintainer: Juho Piironen <juho.t.piironen@gmail.com>
Diff between gplite versions 0.11.1 dated 2021-01-28 and 0.12.0 dated 2021-04-30
DESCRIPTION | 18 ++++++--------- MD5 | 37 ++++++++++++++++--------------- NAMESPACE | 1 NEWS.md |only R/approx.R | 5 ++-- R/gp_fit.R | 8 +++--- R/gp_loo.R | 13 +++++++---- R/gp_optim.R | 55 ++++++++++++++++++++++++++++++++++------------- R/laplace.R | 19 +++------------- R/misc.R | 2 - R/priors.R | 24 +++++++++++++++++--- README.md | 30 +++++++++++++++++++++---- inst/doc/quickstart.R | 25 +++++++++++---------- inst/doc/quickstart.Rmd | 25 +++++++++++---------- inst/doc/quickstart.html | 47 +++++++++++++++++++++------------------- man/approx.Rd | 4 ++- man/gp_loo.Rd | 9 +++++-- man/gp_optim.Rd | 7 +++++ man/priors.Rd | 10 ++++++-- vignettes/quickstart.Rmd | 25 +++++++++++---------- 20 files changed, 226 insertions(+), 138 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with raster and vector data. Raster methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more, is simpler to use, and it is faster.
Author: Robert J. Hijmans [cre, aut] (<https://orcid.org/0000-0001-5872-2872>),
Roger Bivand [ctb] (<https://orcid.org/0000-0003-2392-6140>),
Karl Forner [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Edzer Pebesma [ctb] (<https://orcid.org/0000-0001-8049-7069>)
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.1-17 dated 2021-04-14 and 1.2-5 dated 2021-04-30
terra-1.1-17/terra/NEWS |only terra-1.1-17/terra/R/Adepracated.R |only terra-1.1-17/terra/src/aggregate.cpp |only terra-1.1-17/terra/src/area.cpp |only terra-1.1-17/terra/src/ncdf_util.cpp |only terra-1.1-17/terra/src/pointInPolygon.cpp |only terra-1.1-17/terra/src/rasterize_old.cpp |only terra-1.1-17/terra/src/spatExtent.cpp |only terra-1.1-17/terra/src/spatOptions.cpp |only terra-1.1-17/terra/src/terrain.cpp |only terra-1.1-17/terra/src/time.cpp |only terra-1.1-17/terra/src/time.h |only terra-1.1-17/terra/src/vecmathfun.cpp |only terra-1.1-17/terra/src/vecmathfun.h |only terra-1.2-5/terra/DESCRIPTION | 10 terra-1.2-5/terra/MD5 | 243 +++---- terra-1.2-5/terra/NAMESPACE | 4 terra-1.2-5/terra/NEWS.md |only terra-1.2-5/terra/R/Agenerics.R | 56 - terra-1.2-5/terra/R/Arith_generics.R | 9 terra-1.2-5/terra/R/Zdepracated.R |only terra-1.2-5/terra/R/aggregate.R | 3 terra-1.2-5/terra/R/app.R | 38 - terra-1.2-5/terra/R/autocor.R | 27 terra-1.2-5/terra/R/cells.R | 6 terra-1.2-5/terra/R/click.R | 108 ++- terra-1.2-5/terra/R/coerce.R | 44 - terra-1.2-5/terra/R/crs.R | 11 terra-1.2-5/terra/R/expand.R | 18 terra-1.2-5/terra/R/extract.R | 46 - terra-1.2-5/terra/R/generics.R | 40 - terra-1.2-5/terra/R/geom.R | 14 terra-1.2-5/terra/R/lapp.R | 5 terra-1.2-5/terra/R/levels.R | 6 terra-1.2-5/terra/R/names.R | 12 terra-1.2-5/terra/R/pack.R | 6 terra-1.2-5/terra/R/plot.R | 16 terra-1.2-5/terra/R/plot2rasters.R | 2 terra-1.2-5/terra/R/plotRGB.R | 11 terra-1.2-5/terra/R/plot_legend.R | 11 terra-1.2-5/terra/R/plot_vector.R | 3 terra-1.2-5/terra/R/rapp.R | 16 terra-1.2-5/terra/R/rasterize.R | 79 -- terra-1.2-5/terra/R/relate.R | 69 +- terra-1.2-5/terra/R/sample.R | 52 + terra-1.2-5/terra/R/select.R | 4 terra-1.2-5/terra/R/show.R | 5 terra-1.2-5/terra/R/spatvec.R | 7 terra-1.2-5/terra/R/tapp.R | 2 terra-1.2-5/terra/R/values.R | 5 terra-1.2-5/terra/R/vect.R | 2 terra-1.2-5/terra/R/zoom.R | 6 terra-1.2-5/terra/configure | 15 terra-1.2-5/terra/configure.ac | 16 terra-1.2-5/terra/man/NAflag.Rd | 10 terra-1.2-5/terra/man/RGB.Rd | 6 terra-1.2-5/terra/man/adjacent.Rd | 2 terra-1.2-5/terra/man/area.Rd | 7 terra-1.2-5/terra/man/as.spatvector.Rd | 6 terra-1.2-5/terra/man/buffer.Rd | 9 terra-1.2-5/terra/man/c.Rd | 2 terra-1.2-5/terra/man/cells.Rd | 5 terra-1.2-5/terra/man/classify.Rd | 12 terra-1.2-5/terra/man/click.Rd | 6 terra-1.2-5/terra/man/collapse.Rd | 20 terra-1.2-5/terra/man/expand.Rd | 23 terra-1.2-5/terra/man/extract.Rd | 7 terra-1.2-5/terra/man/fill.Rd | 12 terra-1.2-5/terra/man/flip.Rd | 2 terra-1.2-5/terra/man/lapp.Rd | 20 terra-1.2-5/terra/man/near.Rd | 8 terra-1.2-5/terra/man/pack.Rd | 21 terra-1.2-5/terra/man/patches.Rd | 2 terra-1.2-5/terra/man/rapp.Rd | 9 terra-1.2-5/terra/man/rasterize.Rd | 6 terra-1.2-5/terra/man/readwrite.Rd | 1 terra-1.2-5/terra/man/sample.Rd | 21 terra-1.2-5/terra/man/sapp.Rd |only terra-1.2-5/terra/man/scatter.Rd | 2 terra-1.2-5/terra/man/sds.Rd | 2 terra-1.2-5/terra/man/select.Rd | 16 terra-1.2-5/terra/man/selectRange.Rd | 2 terra-1.2-5/terra/man/separate.Rd | 10 terra-1.2-5/terra/man/summarize-generics.Rd | 9 terra-1.2-5/terra/man/terra-package.Rd | 141 ++-- terra-1.2-5/terra/man/transpose.Rd | 10 terra-1.2-5/terra/man/trim.Rd | 5 terra-1.2-5/terra/man/union.Rd | 2 terra-1.2-5/terra/man/unique.Rd | 2 terra-1.2-5/terra/man/vect.Rd | 20 terra-1.2-5/terra/man/writeRaster.Rd | 4 terra-1.2-5/terra/man/xyCellFrom.Rd | 1 terra-1.2-5/terra/src/RcppModule.cpp | 14 terra-1.2-5/terra/src/arith.cpp | 63 - terra-1.2-5/terra/src/crs.cpp | 2 terra-1.2-5/terra/src/date.h | 1 terra-1.2-5/terra/src/distRaster.cpp | 934 ++++++++++++++++++++++++++-- terra-1.2-5/terra/src/distance.cpp | 199 +++++ terra-1.2-5/terra/src/distance.h | 15 terra-1.2-5/terra/src/extract.cpp | 45 - terra-1.2-5/terra/src/file_utils.cpp | 6 terra-1.2-5/terra/src/file_utils.h | 1 terra-1.2-5/terra/src/focal.cpp | 2 terra-1.2-5/terra/src/gdal_algs.cpp | 155 ++-- terra-1.2-5/terra/src/gdalio.cpp | 7 terra-1.2-5/terra/src/geos_methods.cpp | 140 ++++ terra-1.2-5/terra/src/geos_spat.h | 58 + terra-1.2-5/terra/src/geosphere.cpp | 2 terra-1.2-5/terra/src/memory.cpp | 2 terra-1.2-5/terra/src/ram.cpp | 17 terra-1.2-5/terra/src/raster_methods.cpp | 536 ++++++++++++++-- terra-1.2-5/terra/src/raster_stats.cpp | 4 terra-1.2-5/terra/src/rasterize.cpp | 79 ++ terra-1.2-5/terra/src/read_gdal.cpp | 459 +++++++++++++ terra-1.2-5/terra/src/read_ogr.cpp | 2 terra-1.2-5/terra/src/recycle.h | 18 terra-1.2-5/terra/src/sample.cpp | 2 terra-1.2-5/terra/src/spatBase.cpp |only terra-1.2-5/terra/src/spatBase.h | 9 terra-1.2-5/terra/src/spatDataframe.cpp | 17 terra-1.2-5/terra/src/spatFactor.h | 8 terra-1.2-5/terra/src/spatRaster.cpp | 53 - terra-1.2-5/terra/src/spatRaster.h | 32 terra-1.2-5/terra/src/spatTime.cpp |only terra-1.2-5/terra/src/spatTime.h |only terra-1.2-5/terra/src/spatVector.cpp | 45 + terra-1.2-5/terra/src/spatVector.h | 21 terra-1.2-5/terra/src/string_utils.cpp | 1 terra-1.2-5/terra/src/string_utils.h | 7 terra-1.2-5/terra/src/vecmath.cpp |only terra-1.2-5/terra/src/vecmath.h | 11 terra-1.2-5/terra/src/vector_methods.cpp | 2 terra-1.2-5/terra/src/write_gdal.cpp | 32 133 files changed, 3408 insertions(+), 1063 deletions(-)
Title: Time Series from S-PLUS
Description: A collection of classes and methods for working with time series.
The code was originally available in S-PLUS.
Author: Stephen Kaluzny [aut, cre],
TIBCO Software Inc. [aut, cph]
Maintainer: Stephen Kaluzny <spkaluzny@gmail.com>
Diff between splusTimeSeries versions 1.5.0-75 dated 2018-05-29 and 1.5.2 dated 2021-04-30
DESCRIPTION | 27 ++++++++++++++++++--------- LICENSE | 2 ++ MD5 | 18 +++++++++--------- R/align.R | 4 ++-- man/djia.Rd | 16 +++++++--------- man/exch.rate.Rd | 15 ++++----------- man/fed.rate.Rd | 4 ++-- man/tbauc.Rd | 6 +++--- man/tbond.Rd | 8 ++++---- man/tcm.curve.Rd | 11 +++++------ 10 files changed, 56 insertions(+), 55 deletions(-)
More information about splusTimeSeries at CRAN
Permanent link
Title: A System of Soil Classification for Making and Interpreting Soil
Surveys
Description: Taxonomic dictionaries, formative element lists, and functions related to the maintenance, development and application of U.S. Soil Taxonomy.
Data and functionality are based on official U.S. Department of Agriculture sources including the latest edition of the Keys to Soil Taxonomy. Descriptions and metadata are obtained from the National Soil Information System or Soil Survey Geographic databases. Other sources are referenced in the data documentation.
Provides tools for understanding and interacting with concepts in the U.S. Soil Taxonomic System. Most of the current utilities are for working with taxonomic concepts at the "higher" taxonomic levels: Order, Suborder, Great Group, and Subgroup.
Author: Dylan Beaudette [aut],
Andrew Brown [aut, cre]
Maintainer: Andrew Brown <andrew.g.brown@usda.gov>
Diff between SoilTaxonomy versions 0.1 dated 2021-02-25 and 0.1.2 dated 2021-04-30
DESCRIPTION | 16 +-- MD5 | 86 +++++++++++----- NAMESPACE | 6 + NEWS.md |only R/data-documentation.R | 29 +++++ R/diagnostic-features.R |only R/explainST.R | 123 ++++++++++++++---------- R/formative-elements.R | 46 +++++++- R/getLastChildTaxon.R |only R/getParentTaxa.R | 26 ++++- R/getTaxonAtLevel.R | 97 +++++++++--------- R/higherTaxaCodes.R | 58 +++++++---- R/higherTaxaLevels.R |only R/isValidST.R | 75 +++++++------- R/parseFamily.R |only README.md | 117 +++++++++++++++++----- build |only data/ST.rda |binary data/ST_family_classes.rda |only data/ST_features.rda |only data/ST_formative_elements.rda |binary data/ST_unique_list.rda |binary inst |only man/FormativeElements.Rd | 4 man/ST.Rd | 2 man/ST_family_classes.Rd |only man/ST_features.Rd |only man/decompose_taxon_code.Rd | 2 man/explainST.Rd | 16 ++- man/getLastChildTaxon.Rd |only man/getParentTaxa.Rd | 2 man/getTaxonAtLevel.Rd | 4 man/get_ST_features.Rd |only man/isValidST.Rd | 11 -- man/level_to_taxon.Rd |only man/parse_family.Rd |only man/preceding_taxon_codes.Rd | 2 man/relative_taxon_code_position.Rd | 2 man/taxon_code_to_taxon.Rd | 4 man/taxon_to_level.Rd |only man/taxon_to_taxon_code.Rd | 8 - tests/testthat/test-ST-element-validation.R | 50 ++++----- tests/testthat/test-diagnostic-features.R |only tests/testthat/test-formative-element-parsing.R | 100 ++++++++++++++++--- tests/testthat/test-getLastChildTaxon.R |only tests/testthat/test-getParentTaxa.R | 14 +- tests/testthat/test-getTaxonAtLevel.R | 53 +++++----- tests/testthat/test-higherTaxaCodes.R | 7 + tests/testthat/test-higherTaxaLevels.R |only tests/testthat/test-parseFamily.R |only vignettes |only 51 files changed, 633 insertions(+), 327 deletions(-)
Title: Pivotal Methods for Bayesian Relabelling and k-Means Clustering
Description: Collection of pivotal algorithms
for: relabelling the MCMC chains in order to undo the label
switching problem in Bayesian mixture models,
as proposed in Egidi, Pappadà, Pauli and Torelli (2018a)<doi:10.1007/s11222-017-9774-2>;
initializing the centers of the classical k-means algorithm
in order to obtain a better clustering solution. For further details see
Egidi, Pappadà, Pauli and Torelli (2018b)<ISBN:9788891910233>.
Author: Leonardo Egidi[aut, cre],
Roberta Pappadà[aut],
Francesco Pauli[aut],
Nicola Torelli[aut]
Maintainer: Leonardo Egidi <legidi@units.it>
Diff between pivmet versions 0.3.0 dated 2020-06-03 and 0.4.0 dated 2021-04-30
DESCRIPTION | 14 MD5 | 50 - NAMESPACE | 1 NEWS.md | 8 R/bayes_mcmc.R | 34 - R/mus.R | 290 ---------- R/musk.R | 179 ------ R/pivotal.R | 51 - R/plot.R | 119 ---- R/relab.R | 16 R/sim.R | 2 build/vignette.rds |binary inst/doc/K-means_clustering_using_the_MUS_algorithm.R | 18 inst/doc/K-means_clustering_using_the_MUS_algorithm.Rmd | 12 inst/doc/K-means_clustering_using_the_MUS_algorithm.html | 42 - inst/doc/Relabelling_in_Bayesian_mixtures_by_pivotal_units.R | 24 inst/doc/Relabelling_in_Bayesian_mixtures_by_pivotal_units.Rmd | 4 inst/doc/Relabelling_in_Bayesian_mixtures_by_pivotal_units.html | 117 ++-- man/MUS.Rd | 2 man/piv_KMeans.Rd | 25 man/piv_MCMC.Rd | 20 man/piv_plot.Rd | 9 man/piv_sel.Rd | 2 man/piv_sim.Rd | 11 vignettes/K-means_clustering_using_the_MUS_algorithm.Rmd | 12 vignettes/Relabelling_in_Bayesian_mixtures_by_pivotal_units.Rmd | 4 26 files changed, 248 insertions(+), 818 deletions(-)
Title: Data Analysis for Censored Environmental Data
Description: Contains methods described by Dennis Helsel in
his book "Statistics for Censored Environmental Data
using Minitab and R" (2011) and courses and videos at
<https://practicalstats.com>. This package adds new functions to
the `NADA` Package.
Author: Paul Julian [aut, cre],
Dennis Helsel [aut, cph]
Maintainer: Paul Julian <pauljulianphd@gmail.com>
Diff between NADA2 versions 1.0.0 dated 2021-02-24 and 1.0.1 dated 2021-04-30
DESCRIPTION | 16 ++++++++-------- MD5 | 12 ++++++------ NEWS.md | 10 ++++++++++ R/cboxplot.R | 35 +++++++++++++++++++++++++++++------ R/cenpermanova.R | 14 ++++++-------- build/partial.rdb |binary man/cboxplot.Rd | 7 ++++++- 7 files changed, 65 insertions(+), 29 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Contains functions for the classification and ranking of top candidate features, reconstruction of networks from
adjacency matrices and data frames, analysis of the topology of the network
and calculation of centrality measures, and identification of the most
influential nodes. Also, a function is provided for running SIRIR model, which
is the combination of leave-one-out cross validation technique and the conventional SIR model, on a network to unsupervisedly rank the true influence of vertices. Additionally, some functions have been provided for the assessment
of dependence and correlation of two network centrality measures as well as
the conditional probability of deviation from their corresponding means in opposite direction.
Fred Viole and David Nawrocki (2013, ISBN:1490523995).
Csardi G, Nepusz T (2006). "The igraph software package for complex network research." InterJournal, Complex Systems, 1695.
Adopted algorithms and sources are referenced in function document.
Author: Adrian (Abbas) Salavaty [aut, cre], Mirana Ramialison [ths], Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 2.2.1 dated 2021-04-24 and 2.2.2 dated 2021-04-30
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 10 +++++++++- R/functions.R | 26 +++++++++++++++++--------- inst/doc/Vignettes.html | 13 ++++++++++--- man/influential-package.Rd | 4 ++-- 6 files changed, 46 insertions(+), 23 deletions(-)
Title: 'GitHub' 'API'
Description: Minimal client to access the 'GitHub' 'API'.
Author: Gábor Csárdi [cre, ctb],
Jennifer Bryan [aut],
Hadley Wickham [aut],
RStudio [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between gh versions 1.2.1 dated 2021-04-01 and 1.3.0 dated 2021-04-30
DESCRIPTION | 10 +++++----- MD5 | 21 +++++++++++---------- NEWS.md | 10 ++++++++-- R/errors.R | 4 ++-- R/gh.R | 7 +++++-- R/gh_whoami.R | 33 +++++++++++++-------------------- R/pagination.R | 2 +- build/vignette.rds |binary inst/WORDLIST | 4 ++-- man/gh.Rd | 7 ++++++- man/gh_whoami.Rd | 28 +++++++++++----------------- tests/testthat/test-gh.R |only 12 files changed, 64 insertions(+), 62 deletions(-)
Title: Send Email Messages
Description: A light, simple tool for sending emails with minimal dependencies.
Author: Andrew B. Collier [aut, cre],
Matt Dennis [ctb],
Gerard Walsh [ctb],
Antoine Bichat [ctb] (<https://orcid.org/0000-0001-6599-7081>),
Daniel Fahey [ctb],
Johann R. Kleinbub [ctb],
Panagiotis Moulos [ctb]
Maintainer: Andrew B. Collier <andrew.b.collier@gmail.com>
Diff between emayili versions 0.4.8 dated 2021-03-29 and 0.4.10 dated 2021-04-30
DESCRIPTION | 9 +++++---- MD5 | 14 +++++++------- NAMESPACE | 2 ++ R/emayili.R | 1 + R/server.R | 16 ++++++++++++++-- README.md | 6 +++--- tests/testthat/setup-files.R | 1 + tests/testthat/test-server.R | 3 ++- 8 files changed, 35 insertions(+), 17 deletions(-)
Title: Predictive Models Homologator
Description: Methods to unify the different ways of creating predictive models and their different predictive formats. It includes
methods such as K-Nearest Neighbors, Decision Trees, ADA Boosting, Extreme Gradient Boosting, Random Forest, Neural Networks, Deep Learning,
Support Vector Machines, Bayesian Methods, Linear Discriminant Analysis and Quadratic Discriminant Analysis, Logistic Regression, Penalized Logistic Regression.
Author: Oldemar Rodriguez R. [aut, cre],
Andres Navarro D. [ctb, prg],
Ariel Arroyo S. [ctb, prg]
Maintainer: Oldemar Rodriguez R. <oldemar.rodriguez@ucr.ac.cr>
Diff between traineR versions 1.0.1 dated 2020-10-29 and 1.6.1 dated 2021-04-30
DESCRIPTION | 20 MD5 | 84 +- NAMESPACE | 26 R/Utilities.R | 17 R/confusion.matrix.R | 2 R/general.indexes.R | 2 R/predict.R | 105 ++ R/threshold.R |only R/train.R | 219 +++++ R/variables.R |only inst/doc/traineR.R | 38 inst/doc/traineR.Rmd | 64 + inst/doc/traineR.html | 1373 +++++++++++++++++++----------------- man/ROC.area.Rd |only man/ROC.plot.Rd |only man/boosting.importance.plot.Rd |only man/categorical.predictive.power.Rd |only man/confusion.matrix.Rd | 4 man/general.indexes.Rd | 4 man/get.default.parameters.Rd |only man/gg_color.Rd |only man/numerical.predictive.power.Rd |only man/predict.ada.prmdt.Rd | 4 man/predict.adabag.prmdt.Rd |only man/predict.bayes.prmdt.Rd | 5 man/predict.glm.prmdt.Rd | 4 man/predict.glmnet.prmdt.Rd |only man/predict.knn.prmdt.Rd | 4 man/predict.lda.prmdt.Rd |only man/predict.neuralnet.prmdt.Rd | 4 man/predict.nnet.prmdt.Rd | 3 man/predict.qda.prmdt.Rd |only man/predict.randomForest.prmdt.Rd | 3 man/predict.rpart.prmdt.Rd | 4 man/predict.svm.prmdt.Rd | 5 man/predict.xgb.Booster.prmdt.Rd | 5 man/prediction.variable.balance.Rd |only man/train.ada.Rd | 4 man/train.adabag.Rd |only man/train.bayes.Rd | 5 man/train.glm.Rd | 4 man/train.glmnet.Rd |only man/train.knn.Rd | 4 man/train.lda.Rd |only man/train.neuralnet.Rd | 4 man/train.nnet.Rd | 3 man/train.qda.Rd |only man/train.randomForest.Rd | 3 man/train.rpart.Rd | 4 man/train.svm.Rd | 5 man/train.xgboost.Rd | 5 vignettes/traineR.Rmd | 64 + 52 files changed, 1304 insertions(+), 800 deletions(-)
Title: Flexible Polyline Encoding
Description: Binding to the C++ implementation of the flexible polyline
encoding by HERE <https://github.com/heremaps/flexible-polyline>. The
flexible polyline encoding is a lossy compressed representation of a list of
coordinate pairs or coordinate triples. The encoding is achieved by:
(1) Reducing the decimal digits of each value;
(2) encoding only the offset from the previous point;
(3) using variable length for each coordinate delta; and
(4) using 64 URL-safe characters to display the result.
Author: Merlin Unterfinger [aut, cre] (<https://orcid.org/0000-0003-2020-2366>),
HERE Europe B.V. [aut, cph] (Flexible polyline encoding C++
implementation)
Maintainer: Merlin Unterfinger <info@munterfinger.ch>
Diff between flexpolyline versions 0.2.2 dated 2021-04-20 and 0.2.3 dated 2021-04-30
DESCRIPTION | 6 MD5 | 10 - NEWS.md | 4 README.md | 4 inst/doc/sf-support.html | 60 ++++---- tests/testthat/test-cpp_binding.R | 280 +++++++++++++++++++------------------- 6 files changed, 185 insertions(+), 179 deletions(-)
Title: Multivariate Data Analysis for Chemometrics
Description: Projection based methods for preprocessing,
exploring and analysis of multivariate data used in chemometrics.
S. Kucheryavskiy (2020) <doi: 10.1016/j.chemolab.2020.103937>.
Author: Sergey Kucheryavskiy (<https://orcid.org/0000-0002-3145-7244>)
Maintainer: Sergey Kucheryavskiy <svkucheryavski@gmail.com>
Diff between mdatools versions 0.11.4 dated 2021-04-23 and 0.11.5 dated 2021-04-30
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/pls.R | 2 +- README.md | 6 +++--- 5 files changed, 17 insertions(+), 12 deletions(-)
Title: Functions for Working with Two- And Four-Parameter Beta
Probability Distributions
Description: Package providing a number of functions for working with Two- and
Four-parameter Beta and closely related distributions (i.e., the Gamma and
Binomial distributions), including parameterization in terms of moments,
and fitting of Beta distributions to vectors of values. Also includes
functions for estimating classification accuracy, diagnostic performance,
and consistency, making use of what is generally known as the 'Livingston
and Lewis approach' in the psychometric literature as the foundational
method, which makes extensive use of the Beta distribution. A shiny app is
available, providing a GUI for the Livingston and Lewis approach. For link,
see documentation for the LL.CA() function.
Livingston and Lewis (1995) <doi:10.1111/j.1745-3984.1995.tb00462.x>.
Hanson (1991) <https://files.eric.ed.gov/fulltext/ED344945.pdf>.
Tharwat (2020) <doi:10.1016/j.aci.2018.08.003>.
Author: Haakon Haakstad
Maintainer: Haakon Haakstad <h.t.haakstad@cemo.uio.no>
Diff between betafunctions versions 1.4.4 dated 2021-02-06 and 1.5.0 dated 2021-04-30
DESCRIPTION | 25 +- MD5 | 79 ++++--- NAMESPACE | 7 NEWS.md | 42 ++++ R/betafunctions.R | 484 +++++++++++++++++++++++++++++++++++------------ R/classification.R | 334 +++++++++++++++++++++----------- man/AMS.Rd | 2 man/AUC.Rd | 2 man/BMS.Rd | 4 man/Beta.2p.fit.Rd | 10 man/Beta.4p.fit.Rd | 10 man/Beta.gfx.poly.cdf.Rd | 12 - man/Beta.gfx.poly.pdf.Rd | 14 - man/Beta.gfx.poly.qdf.Rd | 14 - man/Beta.tp.fit.Rd | 18 - man/LABMSU.Rd | 6 man/LL.CA.Rd | 15 - man/LL.ROC.Rd | 56 +++-- man/MLM.Rd | 2 man/UABMSL.Rd | 6 man/afac.Rd | 9 man/betamoments.Rd | 15 - man/binomialmoments.Rd |only man/caStats.Rd | 4 man/cba.Rd | 2 man/ccStats.Rd | 2 man/dBeta.4P.Rd | 11 - man/dBeta.pBeta.Rd | 10 man/dBeta.pBinom.Rd | 13 - man/dBeta.pGammaBinom.Rd |only man/dBetaMS.Rd | 8 man/dGammaBinom.Rd |only man/dfac.Rd | 9 man/gchoose.Rd |only man/observedmoments.Rd | 2 man/pBeta.4P.Rd | 12 - man/pBetaMS.Rd | 6 man/pGammaBinom.Rd |only man/qBeta.4P.Rd | 13 - man/qBetaMS.Rd | 6 man/qGammaBinom.Rd |only man/rBeta.4P.Rd | 14 - man/rGammaBinom.Rd |only man/tsm.Rd | 8 44 files changed, 863 insertions(+), 423 deletions(-)
Title: Area-to-Area Kriging
Description: Point-scale variogram deconvolution from irregular/regular spatial support according to Goovaerts, P., (2008) <doi: 10.1007/s11004-007-9129-1>; ordinary area-to-area (co)Kriging and area-to-point (co)Kriging.
Author: Maogui Hu [aut, cre],
Yanwei Huang [ctb],
Roger Bivand [ctb]
Maintainer: Maogui Hu <humg@lreis.ac.cn>
Diff between atakrig versions 0.9.7 dated 2020-09-28 and 0.9.8 dated 2021-04-30
DESCRIPTION | 7 +++---- MD5 | 12 ++++++------ NAMESPACE | 2 +- R/variogramdeconv.r | 10 ++++++++++ man/ataCoKriging.Rd | 20 -------------------- man/deconvPointVgm.Rd | 4 ++-- src/areaVgm.cpp | 11 +++++++---- 7 files changed, 29 insertions(+), 37 deletions(-)
Title: Data from the 'Access to Opportunities Project (AOP)'
Description: Download data from the 'Access to Opportunities Project (AOP)'. The
'aopdata' package brings annual estimates of access to employment,
health and education services by transport mode, as well as data
on the spatial distribution of population, schools and health-care
facilities at a fine spatial resolution for all cities included in
the study. More info on the 'AOP' website <https://www.ipea.gov.br/acessooportunidades/en/>.
Author: Rafael H. M. Pereira [aut, cre]
(<https://orcid.org/0000-0003-2125-7465>),
Daniel Herszenhut [aut] (<https://orcid.org/0000-0001-8066-1105>),
Marcus Saraiva [aut] (<https://orcid.org/0000-0001-6218-2338>),
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between aopdata versions 0.2.1 dated 2021-04-07 and 0.2.2 dated 2021-04-30
DESCRIPTION | 10 +++---- MD5 | 38 +++++++++++++------------- NEWS.md | 11 +++++++ R/read_grid.R | 2 - R/utils.R | 48 ---------------------------------- inst/doc/access_inequality.R | 2 - inst/doc/access_inequality.Rmd | 2 - inst/doc/access_inequality.html | 10 +++---- inst/doc/access_maps.html | 4 +- inst/doc/intro_to_aopdata.R | 8 ++++- inst/doc/intro_to_aopdata.Rmd | 8 ++++- inst/doc/intro_to_aopdata.html | 6 ++-- inst/doc/landuse_maps.html | 4 +- man/read_grid.Rd | 2 - tests/testthat/test_read_access.R | 30 +++++++++++---------- tests/testthat/test_read_grid.R | 20 +++++++------- tests/testthat/test_read_landuse.R | 12 ++++---- tests/testthat/test_read_population.R | 12 ++++---- vignettes/access_inequality.Rmd | 2 - vignettes/intro_to_aopdata.Rmd | 8 ++++- 20 files changed, 111 insertions(+), 128 deletions(-)
Title: Calculation of Accumulated Cost Surface, Least-Cost Paths, and
Least-Cost Corridors Related to Human Movement Across the
Landscape
Description: Provides the facility to calculate non-isotropic accumulated cost surface, least-cost paths, and least-cost corridors using a number of human-movement-related cost functions that can be selected by the user. It just requires a Digital Terrain Model, a start location and (optionally) destination locations. See Alberti (2019) <doi:10.1016/j.softx.2019.100331>.
Author: Gianmarco Alberti [aut, cre]
Maintainer: Gianmarco Alberti <gianmarcoalberti@gmail.com>
Diff between movecost versions 0.6 dated 2021-04-03 and 0.7 dated 2021-04-30
DESCRIPTION | 13 +++++++------ MD5 | 14 ++++++++------ NAMESPACE | 1 + NEWS.md | 6 ++++++ R/movecorr.R |only R/movecost.R | 55 +++++++++++++++++++++++++++++++++++++++---------------- README.md | 6 +++++- man/movecorr.Rd |only man/movecost.Rd | 28 ++++++++++++++++++++-------- 9 files changed, 86 insertions(+), 37 deletions(-)
Title: The Gaussian Covariate Method for Variable Selection
Description: Given the standard linear model the traditional way of deciding whether to include the jth covariate is to apply the F-test to decide whether the corresponding beta coefficient is zero. The Gaussian covariate method is completely different. The question as to whether the beta coefficient is or is not zero is replaced by the question as to whether the covariate is better or worse than i.i.d. Gaussian noise. The P-value for the covariate is the probability that Gaussian noise is better. Surprisingly this can be given exactly and it is the same a the P-value for the classical model based on the F-distribution. The Gaussian covariate P-value is model free, it is the same for any data set. Using the idea it is possible to do covariate selection for a small number of covariates 25 by considering all subsets. Post selection inference causes no problems as the P-values hold whatever the data. The idea extends to stepwise regression again with exact probabilities. In the simplest version the only parameter is a specified cut-off P-value which can be interpreted as the probability of a false positive being included in the final selection. For more information see the website below and the accompanying papers: L. Davies and L. Duembgen, "Covariate Selection Based on a Model-free Approach to Linear Regression with Exact Probabilities", 2020, <arXiv:1906.01990>. L. Davies, "Lasso, Knockoff and Gaussian covariates: A comparison", 2018, <arXiv:1807.09633>.
Author: Laurie Davies [aut, cre]
Maintainer: Laurie Davies <laurie.davies@uni-due.de>
Diff between gausscov versions 0.1.0 dated 2021-03-28 and 0.1.1 dated 2021-04-30
gausscov-0.1.0/gausscov/data/abcql.rda |only gausscov-0.1.1/gausscov/DESCRIPTION | 8 ++--- gausscov-0.1.1/gausscov/MD5 | 12 ++++---- gausscov-0.1.1/gausscov/R/flag.R |only gausscov-0.1.1/gausscov/R/frst.R | 2 + gausscov-0.1.1/gausscov/data/abcq.rda |only gausscov-0.1.1/gausscov/man/abcql.Rd | 10 +++--- gausscov-0.1.1/gausscov/man/flag.Rd |only gausscov-0.1.1/gausscov/src/gaucov.f | 48 +++++++++++++++++++++++---------- 9 files changed, 52 insertions(+), 28 deletions(-)
Title: Select from a Set of Strings
Description: A backend for the selecting functions of the 'tidyverse'.
It makes it easy to implement select-like functions in your own
packages in a way that is consistent with other 'tidyverse'
interfaces for selection.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between tidyselect versions 1.1.0 dated 2020-05-11 and 1.1.1 dated 2021-04-30
DESCRIPTION | 13 LICENSE |only MD5 | 21 - NEWS.md | 6 R/lifecycle-deprecated.R | 7 R/zzz.R | 19 - build/vignette.rds |binary inst/doc/syntax.html | 686 ++++++++++++++-------------------------- inst/doc/tidyselect.html | 622 +++++++++++++----------------------- man/vars_select.Rd | 5 man/vars_select_helpers.Rd | 20 - tests/testthat/test-eval-walk.R | 2 12 files changed, 508 insertions(+), 893 deletions(-)
Title: Subgroup Discovery with Evolutionary Fuzzy Systems
Description: Implementation of evolutionary fuzzy systems for the data mining task called
"subgroup discovery". In particular, the algorithms presented in this package are:
M. J. del Jesus, P. Gonzalez, F. Herrera, M. Mesonero (2007) <doi:10.1109/TFUZZ.2006.890662>
M. J. del Jesus, P. Gonzalez, F. Herrera (2007) <doi:10.1109/MCDM.2007.369416>
C. J. Carmona, P. Gonzalez, M. J. del Jesus, F. Herrera (2010) <doi:10.1109/TFUZZ.2010.2060200>
C. J. Carmona, V. Ruiz-Rodado, M. J. del Jesus, A. Weber, M. Grootveld, P. González, D. Elizondo (2015) <doi:10.1016/j.ins.2014.11.030>
It also provide a Shiny App to ease the analysis. The algorithms work with data sets provided in
KEEL, ARFF and CSV format and also with data.frame objects.
Author: Angel M. Garcia [aut, cre],
Pedro Gonzalez [aut, cph],
Cristobal J. Carmona [aut, cph],
Francisco Charte [ctb],
Maria J. del Jesus [aut, cph]
Maintainer: Angel M. Garcia <agvico@ujaen.es>
Diff between SDEFSR versions 0.7.21 dated 2020-01-28 and 0.7.22 dated 2021-04-30
DESCRIPTION | 17 +++--- MD5 | 42 +++++++-------- R/datasets.R | 4 - R/readData.R | 100 +++++++++++++++++++++++++++++++++++-- build/vignette.rds |binary inst/doc/SDEFSRpackage.R | 24 ++++---- inst/doc/SDEFSRpackage.Rmd | 15 ----- inst/doc/SDEFSRpackage.pdf |binary man/FUGEPSD.Rd | 28 +++++++--- man/MESDIF.Rd | 24 +++++++- man/NMEEF_SD.Rd | 26 +++++++-- man/SDEFSR.Rd | 1 man/SDEFSR_DatasetFromDataFrame.Rd | 9 ++- man/SDIGA.Rd | 26 +++++++-- man/carTra.Rd | 6 +- man/carTst.Rd | 6 +- man/germanTra.Rd | 8 +- man/germanTst.Rd | 8 +- man/habermanTra.Rd | 6 +- man/habermanTst.Rd | 6 +- man/read.dataset.Rd | 13 ++-- vignettes/SDEFSRpackage.Rmd | 15 ----- 22 files changed, 261 insertions(+), 123 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-22 0.6.5
Title: Fast Covariance Estimation for Multivariate Sparse Functional
Data
Description: Multivariate functional principal component analysis via fast covariance estimation for
multivariate sparse functional data or longitudinal data proposed by Li, Xiao, and Luo (2020) <doi:10.1002/sta4.245>.
Author: Cai Li [aut,cre] and Luo Xiao [aut]
Maintainer: Cai Li <cli9@ncsu.edu>
Diff between mfaces versions 0.1-2 dated 2021-02-26 and 0.1-3 dated 2021-04-30
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- build/partial.rdb |binary 3 files changed, 6 insertions(+), 7 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
(<https://orcid.org/0000-0002-0734-2199>),
Christoph Burow [aut, trl, dtc]
(<https://orcid.org/0000-0002-5023-4046>),
Michael Dietze [aut] (<https://orcid.org/0000-0001-6063-1726>),
Margret C. Fuchs [aut] (<https://orcid.org/0000-0001-7210-1132>),
Christoph Schmidt [aut] (<https://orcid.org/0000-0002-2309-3209>),
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] (<https://orcid.org/0000-0002-0805-9547>),
Norbert Mercier [aut] (<https://orcid.org/0000-0002-6375-9108>),
Rachel K. Smedley [ctb] (<https://orcid.org/0000-0001-7773-5193>),
Claire Christophe [ctb],
Antoine Zink [ctb] (<https://orcid.org/0000-0001-7146-1101>),
Julie Durcan [ctb] (<https://orcid.org/0000-0001-8724-8022>),
Georgina E. King [ctb, dtc] (<https://orcid.org/0000-0003-1059-8192>),
Anne Philippe [ctb],
Guillaume Guerin [ctb] (<https://orcid.org/0000-0001-6298-5579>),
Svenja Riedesel [aut] (<https://orcid.org/0000-0003-2936-8776>),
Martin Autzen [aut] (<https://orcid.org/0000-0001-6249-426X>),
Pierre Guibert [ctb] (<https://orcid.org/0000-0001-8969-8684>),
Dirk Mittelstrass [aut] (<https://orcid.org/0000-0002-9567-8791>),
Harrison J. Gray [aut] (<https://orcid.org/0000-0002-4555-7473>),
Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@aber.ac.uk>
Diff between Luminescence versions 0.9.10 dated 2020-12-10 and 0.9.11 dated 2021-04-30
DESCRIPTION | 38 +- MD5 | 438 +++++++++++++++---------------- NAMESPACE | 2 NEWS.md | 102 +++++-- R/Analyse_SAR.OSLdata.R | 76 ++--- R/CW2pLM.R | 46 +-- R/CW2pLMi.R | 72 ++--- R/Luminescence-package.R | 36 +- R/RLum-class.R | 4 R/RLum.Analysis-class.R | 4 R/RLum.Data.Curve-class.R | 8 R/RLum.Results-class.R | 2 R/Risoe.BINfileData-class.R | 192 ++++++------- R/Risoe.BINfileData2RLum.Analysis.R | 52 +-- R/Second2Gray.R | 46 +-- R/analyse_Al2O3C_CrossTalk.R | 2 R/analyse_Al2O3C_ITC.R | 2 R/analyse_Al2O3C_Measurement.R | 13 R/analyse_FadingMeasurement.R | 12 R/analyse_IRSAR.RF.R | 36 +- R/analyse_SAR.CWOSL.R | 30 +- R/analyse_baSAR.R | 26 - R/analyse_pIRIRSequence.R | 9 R/apply_EfficiencyCorrection.R | 2 R/bin_RLum.Data.R | 7 R/calc_AverageDose.R | 8 R/calc_CobbleDoseRate.R | 48 +-- R/calc_CosmicDoseRate.R | 4 R/calc_FadingCorr.R | 48 +-- R/calc_FiniteMixture.R | 8 R/calc_Huntley2006.R | 18 - R/calc_IEU.R | 2 R/calc_MaxDose.R | 6 R/calc_MinDose.R | 10 R/calc_SourceDoseRate.R | 12 R/calc_ThermalLifetime.R | 16 - R/calc_gSGC.R | 2 R/calc_gSGC_feldspar.R |only R/convert_Activity2Concentration.R | 8 R/convert_Concentration2DoseRate.R | 22 - R/convert_RLum2Risoe.BINfileData.R | 2 R/convert_SG2MG.R |only R/convert_Wavelength2Energy.R | 4 R/extract_IrradiationTimes.R | 48 +-- R/fit_CWCurve.R | 16 - R/fit_LMCurve.R | 54 ++- R/fit_OSLLifeTimes.R | 20 - R/fit_SurfaceExposure.R | 12 R/fit_ThermalQuenching.R | 8 R/get_RLum.R | 6 R/github.R | 126 ++++---- R/internals_RLum.R | 21 - R/length_RLum.R | 10 R/merge_RLum.Data.Curve.R | 4 R/merge_Risoe.BINfileData.R | 2 R/methods_RLum.R | 14 R/plot_AbanicoPlot.R | 72 ++--- R/plot_DRCSummary.R | 6 R/plot_DRTResults.R | 4 R/plot_DetPlot.R | 9 R/plot_FilterCombinations.R | 4 R/plot_GrowthCurve.R | 302 +++++++++++++++++---- R/plot_Histogram.R | 66 ++-- R/plot_KDE.R | 2 R/plot_RLum.Data.Image.R | 2 R/plot_RLum.Data.Spectrum.R | 8 R/plot_ROI.R | 4 R/plot_RadialPlot.R | 6 R/plot_Risoe.BINfileData.R | 78 ++--- R/plot_ViolinPlot.R | 4 R/read_BIN2R.R | 19 - R/read_SPE2R.R | 4 R/scale_GammaDose.R | 2 R/smooth_RLum.R | 2 R/template_DRAC.R | 2 R/tune_Data.R | 16 - R/use_DRAC.R | 4 R/write_R2BIN.R | 2 README.md | 23 - build/partial.rdb |binary inst/WORDLIST | 162 +++++++++++ man/Analyse_SAR.OSLdata.Rd | 10 man/BaseDataSet.CosmicDoseRate.Rd | 4 man/CW2pHMi.Rd | 2 man/CW2pLM.Rd | 4 man/CW2pLMi.Rd | 4 man/CW2pPMi.Rd | 2 man/ExampleData.Al2O3C.Rd | 2 man/ExampleData.BINfileData.Rd | 2 man/ExampleData.CW_OSL_Curve.Rd | 2 man/ExampleData.DeValues.Rd | 2 man/ExampleData.Fading.Rd | 2 man/ExampleData.FittingLM.Rd | 6 man/ExampleData.LxTxOSLData.Rd | 2 man/ExampleData.SurfaceExposure.Rd | 8 man/ExampleData.TR_OSL.Rd | 2 man/ExampleData.XSYG.Rd | 2 man/GitHub-API.Rd | 8 man/PSL2Risoe.BINfileData.Rd | 2 man/RLum-class.Rd | 6 man/RLum.Analysis-class.Rd | 4 man/RLum.Data.Curve-class.Rd | 10 man/RLum.Data.Image-class.Rd | 2 man/RLum.Data.Spectrum-class.Rd | 2 man/RLum.Results-class.Rd | 2 man/Risoe.BINfileData-class.Rd | 194 ++++++------- man/Risoe.BINfileData2RLum.Analysis.Rd | 4 man/Second2Gray.Rd | 16 - man/analyse_Al2O3C_CrossTalk.Rd | 4 man/analyse_Al2O3C_ITC.Rd | 4 man/analyse_Al2O3C_Measurement.Rd | 4 man/analyse_FadingMeasurement.Rd | 8 man/analyse_IRSAR.RF.Rd | 10 man/analyse_SAR.CWOSL.Rd | 8 man/analyse_SAR.TL.Rd | 2 man/analyse_baSAR.Rd | 28 - man/analyse_pIRIRSequence.Rd | 31 +- man/analyse_portableOSL.Rd | 2 man/app_RLum.Rd | 2 man/apply_CosmicRayRemoval.Rd | 2 man/apply_EfficiencyCorrection.Rd | 4 man/as.Rd | 4 man/bin_RLum.Data.Rd | 9 man/calc_AliquotSize.Rd | 2 man/calc_AverageDose.Rd | 10 man/calc_CentralDose.Rd | 2 man/calc_CobbleDoseRate.Rd | 50 +-- man/calc_CommonDose.Rd | 2 man/calc_CosmicDoseRate.Rd | 6 man/calc_FadingCorr.Rd | 10 man/calc_FastRatio.Rd | 2 man/calc_FiniteMixture.Rd | 10 man/calc_FuchsLang2001.Rd | 2 man/calc_HomogeneityTest.Rd | 2 man/calc_Huntley2006.Rd | 20 - man/calc_IEU.Rd | 4 man/calc_Kars2008.Rd | 2 man/calc_Lamothe2003.Rd | 2 man/calc_MaxDose.Rd | 8 man/calc_MinDose.Rd | 12 man/calc_OSLLxTxDecomposed.Rd | 2 man/calc_OSLLxTxRatio.Rd | 2 man/calc_SourceDoseRate.Rd | 14 man/calc_Statistics.Rd | 2 man/calc_TLLxTxRatio.Rd | 2 man/calc_ThermalLifetime.Rd | 18 - man/calc_WodaFuchs2008.Rd | 2 man/calc_gSGC.Rd | 4 man/calc_gSGC_feldspar.Rd |only man/convert_Activity2Concentration.Rd | 10 man/convert_BIN2CSV.Rd | 2 man/convert_Concentration2DoseRate.Rd | 24 - man/convert_Daybreak2CSV.Rd | 2 man/convert_PSL2CSV.Rd | 2 man/convert_RLum2Risoe.BINfileData.Rd | 4 man/convert_SG2MG.Rd |only man/convert_Wavelength2Energy.Rd | 6 man/convert_XSYG2CSV.Rd | 2 man/extdata.Rd | 2 man/extract_IrradiationTimes.Rd | 4 man/fit_CWCurve.Rd | 18 - man/fit_LMCurve.Rd | 27 - man/fit_OSLLifeTimes.Rd | 20 - man/fit_SurfaceExposure.Rd | 14 man/fit_ThermalQuenching.Rd | 10 man/get_Layout.Rd | 2 man/get_Quote.Rd | 2 man/get_RLum.Rd | 8 man/get_Risoe.BINfileData.Rd | 2 man/get_rightAnswer.Rd | 2 man/length_RLum.Rd | 4 man/merge_RLum.Analysis.Rd | 2 man/merge_RLum.Data.Curve.Rd | 6 man/merge_RLum.Rd | 2 man/merge_RLum.Results.Rd | 2 man/merge_Risoe.BINfileData.Rd | 4 man/methods_RLum.Rd | 8 man/names_RLum.Rd | 2 man/plot_AbanicoPlot.Rd | 24 - man/plot_DRCSummary.Rd | 8 man/plot_DRTResults.Rd | 6 man/plot_DetPlot.Rd | 10 man/plot_FilterCombinations.Rd | 6 man/plot_GrowthCurve.Rd | 26 + man/plot_Histogram.Rd | 4 man/plot_KDE.Rd | 4 man/plot_NRt.Rd | 2 man/plot_RLum.Analysis.Rd | 2 man/plot_RLum.Data.Curve.Rd | 2 man/plot_RLum.Data.Image.Rd | 4 man/plot_RLum.Data.Spectrum.Rd | 10 man/plot_RLum.Rd | 2 man/plot_RLum.Results.Rd | 2 man/plot_ROI.Rd | 9 man/plot_RadialPlot.Rd | 6 man/plot_Risoe.BINfileData.Rd | 4 man/plot_ViolinPlot.Rd | 6 man/read_BIN2R.Rd | 8 man/read_Daybreak2R.Rd | 2 man/read_PSL2R.Rd | 2 man/read_RF2R.Rd | 2 man/read_SPE2R.Rd | 6 man/read_XSYG2R.Rd | 2 man/replicate_RLum.Rd | 2 man/report_RLum.Rd | 2 man/sTeve.Rd | 2 man/scale_GammaDose.Rd | 4 man/set_RLum.Rd | 2 man/set_Risoe.BINfileData.Rd | 2 man/smooth_RLum.Rd | 4 man/structure_RLum.Rd | 2 man/template_DRAC.Rd | 4 man/tune_Data.Rd | 4 man/use_DRAC.Rd | 6 man/verify_SingleGrainData.Rd | 2 man/write_R2BIN.Rd | 4 man/write_RLum2CSV.Rd | 2 tests/testthat/test_analyse_SARCWOSL.R | 1 tests/testthat/test_calc_gSGC_feldspar.R |only tests/testthat/test_convert_SG2MG.R |only tests/testthat/test_fit_LMCurve.R | 9 tests/testthat/test_internals.R | 6 tests/testthat/test_plot_GrowthCurve.R | 68 ++++ 223 files changed, 2148 insertions(+), 1569 deletions(-)
Title: Create Tidy Data Frames of Marginal Effects for 'ggplot' from
Model Outputs
Description: Compute marginal effects and adjusted predictions from statistical
models and returns the result as tidy data frames. These data frames are
ready to use with the 'ggplot2'-package. Effects and predictions can be
calculated for many different models. Interaction terms, splines and
polynomial terms are also supported. The main functions are ggpredict(),
ggemmeans() and ggeffect(). There is a generic plot()-method to plot the
results using 'ggplot2'.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>),
Frederik Aust [ctb] (<https://orcid.org/0000-0003-4900-788X>),
Sam Crawley [ctb] (<https://orcid.org/0000-0002-7847-0411>),
Mattan S. Ben-Shachar [ctb] (<https://orcid.org/0000-0002-4287-4801>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between ggeffects versions 1.0.2 dated 2021-03-17 and 1.1.0 dated 2021-04-30
ggeffects-1.0.2/ggeffects/data/lung.rda |only ggeffects-1.0.2/ggeffects/man/lung.Rd |only ggeffects-1.1.0/ggeffects/DESCRIPTION | 34 ggeffects-1.1.0/ggeffects/MD5 | 276 +-- ggeffects-1.1.0/ggeffects/NAMESPACE | 66 ggeffects-1.1.0/ggeffects/NEWS.md | 65 ggeffects-1.1.0/ggeffects/R/collapse_re_data.R |only ggeffects-1.1.0/ggeffects/R/emmeans_prediction_data.R | 9 ggeffects-1.1.0/ggeffects/R/fish.R | 2 ggeffects-1.1.0/ggeffects/R/get_predictions_MCMCglmm.R | 37 ggeffects-1.1.0/ggeffects/R/get_predictions_MixMod.R | 189 +- ggeffects-1.1.0/ggeffects/R/get_predictions_cgam.R | 4 ggeffects-1.1.0/ggeffects/R/get_predictions_clm.R | 1 ggeffects-1.1.0/ggeffects/R/get_predictions_clm2.R | 1 ggeffects-1.1.0/ggeffects/R/get_predictions_clmm.R | 4 ggeffects-1.1.0/ggeffects/R/get_predictions_coxph.R | 4 ggeffects-1.1.0/ggeffects/R/get_predictions_gam2.R | 2 ggeffects-1.1.0/ggeffects/R/get_predictions_gamlss.R | 3 ggeffects-1.1.0/ggeffects/R/get_predictions_gee.R | 1 ggeffects-1.1.0/ggeffects/R/get_predictions_geeglm.R | 10 ggeffects-1.1.0/ggeffects/R/get_predictions_generic.R | 2 ggeffects-1.1.0/ggeffects/R/get_predictions_generic2.R | 3 ggeffects-1.1.0/ggeffects/R/get_predictions_glimML.R | 1 ggeffects-1.1.0/ggeffects/R/get_predictions_glm.R | 36 ggeffects-1.1.0/ggeffects/R/get_predictions_glmmTMB.R | 8 ggeffects-1.1.0/ggeffects/R/get_predictions_lm.R | 14 ggeffects-1.1.0/ggeffects/R/get_predictions_lme.R | 11 ggeffects-1.1.0/ggeffects/R/get_predictions_logistf.R | 1 ggeffects-1.1.0/ggeffects/R/get_predictions_lrm.R | 1 ggeffects-1.1.0/ggeffects/R/get_predictions_mclogit.R | 2 ggeffects-1.1.0/ggeffects/R/get_predictions_merMod.R | 16 ggeffects-1.1.0/ggeffects/R/get_predictions_mixor.R | 2 ggeffects-1.1.0/ggeffects/R/get_predictions_mlogit.R | 2 ggeffects-1.1.0/ggeffects/R/get_predictions_polr.R | 2 ggeffects-1.1.0/ggeffects/R/get_predictions_stan.R | 9 ggeffects-1.1.0/ggeffects/R/get_predictions_survival.R | 21 ggeffects-1.1.0/ggeffects/R/get_predictions_vglm.R | 3 ggeffects-1.1.0/ggeffects/R/get_predictions_wbm.R | 12 ggeffects-1.1.0/ggeffects/R/get_predictions_zeroinfl.R | 5 ggeffects-1.1.0/ggeffects/R/getter.R | 62 ggeffects-1.1.0/ggeffects/R/ggeffect.R | 9 ggeffects-1.1.0/ggeffects/R/ggemmeans.R | 17 ggeffects-1.1.0/ggeffects/R/ggemmeans_add_confint.R | 1 ggeffects-1.1.0/ggeffects/R/ggemmeans_zi_predictions.R | 2 ggeffects-1.1.0/ggeffects/R/ggpredict.R | 47 ggeffects-1.1.0/ggeffects/R/moderator_pattern.R | 3 ggeffects-1.1.0/ggeffects/R/new_data.R | 4 ggeffects-1.1.0/ggeffects/R/plot.R | 144 + ggeffects-1.1.0/ggeffects/R/pool_predictions.R | 1 ggeffects-1.1.0/ggeffects/R/post_processing_labels.R | 3 ggeffects-1.1.0/ggeffects/R/predict_zero_inflation.R | 14 ggeffects-1.1.0/ggeffects/R/predictions.R | 17 ggeffects-1.1.0/ggeffects/R/pretty_range.R | 9 ggeffects-1.1.0/ggeffects/R/print.R | 14 ggeffects-1.1.0/ggeffects/R/residualize_over_grid.R | 2 ggeffects-1.1.0/ggeffects/R/simulate_predictions.R | 25 ggeffects-1.1.0/ggeffects/R/standard_error_predictions.R | 72 ggeffects-1.1.0/ggeffects/R/themes.R | 1 ggeffects-1.1.0/ggeffects/R/utils.R | 68 ggeffects-1.1.0/ggeffects/R/utils_check_transformations.R | 2 ggeffects-1.1.0/ggeffects/R/utils_get_data_grid.R | 36 ggeffects-1.1.0/ggeffects/R/utils_get_representative_values.R | 7 ggeffects-1.1.0/ggeffects/R/utils_ggpredict.R | 1 ggeffects-1.1.0/ggeffects/R/utils_handle_labels.R | 4 ggeffects-1.1.0/ggeffects/R/utils_model_function.R | 2 ggeffects-1.1.0/ggeffects/R/utils_reshape.R | 2 ggeffects-1.1.0/ggeffects/R/utils_set_attr.R | 5 ggeffects-1.1.0/ggeffects/R/utils_typical_value.R | 1 ggeffects-1.1.0/ggeffects/R/vcov.R | 73 ggeffects-1.1.0/ggeffects/README.md | 195 +- ggeffects-1.1.0/ggeffects/build/partial.rdb |binary ggeffects-1.1.0/ggeffects/build/vignette.rds |binary ggeffects-1.1.0/ggeffects/data/lung2.rda |only ggeffects-1.1.0/ggeffects/inst/doc/ggeffects.R | 5 ggeffects-1.1.0/ggeffects/inst/doc/ggeffects.Rmd | 13 ggeffects-1.1.0/ggeffects/inst/doc/ggeffects.html | 797 +++++----- ggeffects-1.1.0/ggeffects/inst/doc/introduction_effectsatvalues.html | 454 ++--- ggeffects-1.1.0/ggeffects/inst/doc/introduction_marginal_effects.R |only ggeffects-1.1.0/ggeffects/inst/doc/introduction_marginal_effects.Rmd |only ggeffects-1.1.0/ggeffects/inst/doc/introduction_marginal_effects.html |only ggeffects-1.1.0/ggeffects/inst/doc/introduction_partial_residuals.html | 146 + ggeffects-1.1.0/ggeffects/inst/doc/introduction_plotcustomize.html | 132 + ggeffects-1.1.0/ggeffects/inst/doc/introduction_plotmethod.R | 4 ggeffects-1.1.0/ggeffects/inst/doc/introduction_plotmethod.Rmd | 8 ggeffects-1.1.0/ggeffects/inst/doc/introduction_plotmethod.html | 206 +- ggeffects-1.1.0/ggeffects/inst/doc/introduction_randomeffects.R | 105 - ggeffects-1.1.0/ggeffects/inst/doc/introduction_randomeffects.Rmd | 24 ggeffects-1.1.0/ggeffects/inst/doc/introduction_randomeffects.html | 322 +--- ggeffects-1.1.0/ggeffects/inst/doc/practical_logisticmixedmodel.Rmd | 2 ggeffects-1.1.0/ggeffects/inst/doc/practical_logisticmixedmodel.html | 242 +-- ggeffects-1.1.0/ggeffects/inst/doc/practical_robustestimation.html | 221 +- ggeffects-1.1.0/ggeffects/inst/doc/technical_differencepredictemmeans.html | 304 ++- ggeffects-1.1.0/ggeffects/inst/doc/technical_stata.Rmd | 4 ggeffects-1.1.0/ggeffects/inst/doc/technical_stata.html | 106 - ggeffects-1.1.0/ggeffects/man/collapse_by_group.Rd |only ggeffects-1.1.0/ggeffects/man/get_title.Rd | 157 - ggeffects-1.1.0/ggeffects/man/ggpredict.Rd | 22 ggeffects-1.1.0/ggeffects/man/lung2.Rd |only ggeffects-1.1.0/ggeffects/man/new_data.Rd | 3 ggeffects-1.1.0/ggeffects/man/plot.Rd | 9 ggeffects-1.1.0/ggeffects/man/pretty_range.Rd | 9 ggeffects-1.1.0/ggeffects/man/values_at.Rd | 1 ggeffects-1.1.0/ggeffects/man/vcov.Rd | 1 ggeffects-1.1.0/ggeffects/tests/testthat.R | 17 ggeffects-1.1.0/ggeffects/tests/testthat/test-Gam2.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-MCMCglmm.R | 55 ggeffects-1.1.0/ggeffects/tests/testthat/test-MixMod.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-betareg.R | 32 ggeffects-1.1.0/ggeffects/tests/testthat/test-brms-categ-cum.R | 47 ggeffects-1.1.0/ggeffects/tests/testthat/test-brms-trial.R | 21 ggeffects-1.1.0/ggeffects/tests/testthat/test-clean_vars.R | 6 ggeffects-1.1.0/ggeffects/tests/testthat/test-clm.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-clm2.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-clmm.R | 43 ggeffects-1.1.0/ggeffects/tests/testthat/test-condition.R | 14 ggeffects-1.1.0/ggeffects/tests/testthat/test-correct_se_sorting.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-coxph.R | 28 ggeffects-1.1.0/ggeffects/tests/testthat/test-decimals.R | 187 +- ggeffects-1.1.0/ggeffects/tests/testthat/test-gamlss.R |only ggeffects-1.1.0/ggeffects/tests/testthat/test-gamm.R | 44 ggeffects-1.1.0/ggeffects/tests/testthat/test-gamm4.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-gee.R | 5 ggeffects-1.1.0/ggeffects/tests/testthat/test-geeglm.R | 17 ggeffects-1.1.0/ggeffects/tests/testthat/test-get_titles.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-gls.R | 6 ggeffects-1.1.0/ggeffects/tests/testthat/test-ivreg.R | 26 ggeffects-1.1.0/ggeffects/tests/testthat/test-linear-models.R | 106 - ggeffects-1.1.0/ggeffects/tests/testthat/test-lmer.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-logistf.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-lrm.R | 5 ggeffects-1.1.0/ggeffects/tests/testthat/test-offset_zeroinfl.R | 4 ggeffects-1.1.0/ggeffects/tests/testthat/test-orm.R |only ggeffects-1.1.0/ggeffects/tests/testthat/test-poisson.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-polr.R | 2 ggeffects-1.1.0/ggeffects/tests/testthat/test-print.R | 195 +- ggeffects-1.1.0/ggeffects/tests/testthat/test-rq.R | 3 ggeffects-1.1.0/ggeffects/tests/testthat/test-survreg.R | 5 ggeffects-1.1.0/ggeffects/tests/testthat/test-vglm.R | 92 - ggeffects-1.1.0/ggeffects/tests/testthat/test-zi_prob.R | 113 - ggeffects-1.1.0/ggeffects/vignettes/ggeffects.Rmd | 13 ggeffects-1.1.0/ggeffects/vignettes/introduction_marginal_effects.Rmd |only ggeffects-1.1.0/ggeffects/vignettes/introduction_plotmethod.Rmd | 8 ggeffects-1.1.0/ggeffects/vignettes/introduction_randomeffects.Rmd | 24 ggeffects-1.1.0/ggeffects/vignettes/practical_logisticmixedmodel.Rmd | 2 ggeffects-1.1.0/ggeffects/vignettes/technical_stata.Rmd | 4 145 files changed, 3327 insertions(+), 2816 deletions(-)
Title: Bayesian Inference for Directed Acyclic Graphs
Description: Implementation of a collection of MCMC methods for Bayesian structure learning
of directed acyclic graphs (DAGs), both from continuous and discrete data. For efficient
inference on larger DAGs, the space of DAGs is pruned according to the data. To filter
the search space, the algorithm employs a hybrid approach, combining constraint-based
learning with search and score. A reduced search space is initially defined on the basis
of a skeleton obtained by means of the PC-algorithm, and then iteratively improved with
search and score. Search and score is then performed following two approaches:
Order MCMC, or Partition MCMC.
The BGe score is implemented for continuous data and the BDe score is implemented
for binary data or categorical data. The algorithms may provide the maximum a posteriori
(MAP) graph or a sample (a collection of DAGs) from the posterior distribution given the data.
All algorithms are also applicable for structure learning and sampling for dynamic Bayesian networks.
References:
J. Kuipers, P. Suter and G. Moffa (2018) <arXiv:1803.07859v2>,
N. Friedman and D. Koller (2003) <doi:10.1023/A:1020249912095>,
D. Geiger and D. Heckerman (2002) <doi:10.1214/aos/1035844981>,
J. Kuipers and G. Moffa (2017) <doi:10.1080/01621459.2015.1133426>,
M. Kalisch et al.(2012) <doi:10.18637/jss.v047.i11>.
Author: Polina Suter [aut, cre], Jack Kuipers [aut]
Maintainer: Polina Suter <polina.suter@bsse.ethz.ch>
Diff between BiDAG versions 2.0.1 dated 2021-04-28 and 2.0.2 dated 2021-04-30
DESCRIPTION | 6 +-- MD5 | 34 +++++++++---------- R/graphhelpfns.R | 13 +++++-- R/initpar.R | 38 ++++++++++----------- R/performanceassess.R | 28 +++++++++++++-- R/plotS3.R | 13 ++----- R/plotfns.R | 82 ++++++++++++++++++++++++---------------------- R/plotusingrgraphviz.R | 2 - R/printmethods.R | 4 +- R/spacefns.R | 13 +++---- R/summary.R | 6 +-- man/iterativeMCMCclass.Rd | 2 - man/itercomp.Rd | 9 ++--- man/plot2in1.Rd | 2 - man/plotpcor.Rd | 20 ++++++----- man/samplecomp.Rd | 2 - man/scoreparameters.Rd | 10 ++--- man/string2mat.Rd | 8 ++-- 18 files changed, 160 insertions(+), 132 deletions(-)
Title: Response Probability Functions
Description: The purpose of this package is to factor out logic
and math common to Item Factor Analysis fitting, diagnostics, and
analysis. It is envisioned as core support code suitable for more
specialized IRT packages to build upon. Complete access to optimized C
functions are made available with R_RegisterCCallable().
This software is described in Pritikin & Falk (2020) <doi:10.1177/0146621620929431>.
Author: Joshua Pritikin [cre, aut],
Jonathan Weeks [ctb],
Li Cai [ctb],
Carrie Houts [ctb],
Phil Chalmers [ctb],
Michael D. Hunter [ctb],
Carl F. Falk [ctb]
Maintainer: Joshua Pritikin <jpritikin@pobox.com>
Diff between rpf versions 1.0.5 dated 2020-09-16 and 1.0.7 dated 2021-04-29
DESCRIPTION | 10 +++++----- MD5 | 21 +++++++++++---------- R/gpcmp.R | 2 +- R/lmp.R | 2 +- build/partial.rdb |only build/rpf.pdf |binary build/vignette.rds |binary inst/doc/diagnostics.html | 42 +++++++++++++++++++++--------------------- man/rpf.gpcmp.Rd | 2 +- man/rpf.lmp.Rd | 2 +- src/ba81quad.cpp | 14 +++++++------- tools/rox | 2 +- 12 files changed, 49 insertions(+), 48 deletions(-)
Title: Magnetic Resonance Binning, Integration and Normalization
Description: Nuclear Magnetic Resonance is widely used in Life Science
research. The package (<doi:10.1021/acs.jproteome.0c00684>) converts 1D
or 2D data into a matrix of values suitable for further data analysis and
performs basic processing steps in a reproducible way. Negative values, a
common issue in such data, are replaced by positive values. All used
parameters are stored in a readable text file and can be restored from that
file to enable exact reproduction of the data at a later time.
Author: Matthias Klein [aut, cre] (<https://orcid.org/0000-0001-7455-5381>)
Maintainer: Matthias Klein <klein.663@osu.edu>
Diff between mrbin versions 1.5.1 dated 2021-04-22 and 1.5.2 dated 2021-04-29
DESCRIPTION | 9 +- MD5 | 19 +++--- NAMESPACE | 1 NEWS.md | 10 +++ R/mrbin.R | 162 +++++++++++++++++++++++++++++++++++++++++++--------- README.md | 6 + inst/doc/mrbin.R | 8 +- inst/doc/mrbin.Rnw | 18 +++++ inst/doc/mrbin.pdf |binary man/mrbinrun.Rd |only vignettes/mrbin.Rnw | 18 +++++ 11 files changed, 202 insertions(+), 49 deletions(-)
Title: Tools for Survival Analysis and Data Science
Description: Collection of functions to improve work-flow in survival analysis and data science.
The package features include: the generation of balanced datasets, live retrieval of
protein coding genes from two public databases, generation of random
matrix based on covariance matrix, cache function to store function results.
This work was supported by two grants from the Portuguese Foundation for Science
and technology, and the EU Commission under SOUND project.
Author: André Veríssimo [aut, cre],
Susana Vinga [aut]
Maintainer: André Veríssimo <andre.verissimo@tecnico.ulisboa.pt>
Diff between loose.rock versions 1.1.1 dated 2021-03-11 and 1.2.0 dated 2021-04-29
DESCRIPTION | 7 - MD5 | 27 ++-- NAMESPACE | 2 NEWS.md | 12 + R/balanced_data.R | 102 ++++++++++++++++ R/coding.genes.R | 6 README.md |only build/vignette.rds |binary inst/doc/Overview.Rmd | 2 inst/doc/Overview.html | 89 ++++++-------- man/balanced.cv.folds.from.vector.Rd |only man/balanced.train.and.test.from.vector.Rd |only tests/testthat/test-coding.genes.R | 109 ++++++++++++++---- tests/testthat/test_balanced_data.R | 11 + tests/testthat/test_balanced_data_from_vector.R |only tests/testthat/test_balanced_train_data_from_vector.R |only vignettes/Overview.Rmd | 2 17 files changed, 282 insertions(+), 87 deletions(-)
Title: Plot a Correlogram
Description: Calculates correlation of variables and displays the results
graphically. Included panel functions can display points, shading, ellipses, and
correlation values with confidence intervals. See Friendly (2002) <doi:10.1198/000313002533>.
Author: Kevin Wright [aut, cre] (<https://orcid.org/0000-0002-0617-8673>)
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between corrgram versions 1.13 dated 2018-07-09 and 1.14 dated 2021-04-29
DESCRIPTION | 17 - MD5 | 42 +-- NAMESPACE | 2 NEWS.md |only R/corrgram.R | 96 ++++--- build/vignette.rds |binary inst/doc/corrgram_cov2cor.R | 17 - inst/doc/corrgram_cov2cor.Rmd | 40 +-- inst/doc/corrgram_cov2cor.html | 237 ++++++++++++------- inst/doc/corrgram_examples.Rmd | 10 inst/doc/corrgram_examples.html | 463 ++++++++++++++++++++++---------------- man/auto.Rd | 6 man/baseball.Rd | 6 man/corrgram.Rd | 51 +++- man/figures |only man/vote.Rd | 4 tests/testthat/test_bounds.R | 4 tests/testthat/test_misc.R | 6 tests/testthat/test_order.R | 2 tests/testthat/test_outerlabels.R | 20 - vignettes/corrgram_cov2cor.Rmd | 40 +-- vignettes/corrgram_examples.Rmd | 10 22 files changed, 631 insertions(+), 442 deletions(-)
Title: Data Validation Infrastructure
Description: Declare data validation rules and data quality indicators;
confront data with them and analyze or visualize the results.
The package supports rules that are per-field, in-record,
cross-record or cross-dataset. Rules can be automatically
analyzed for rule type and connectivity. See also Van der Loo
and De Jonge (2018) <doi:10.1002/9781118897126>, Chapter 6
and the JSS paper (2021) <doi:10.18637/jss.v097.i10>.
Author: Mark van der Loo [cre, aut] (<https://orcid.org/0000-0002-9807-4686>),
Edwin de Jonge [aut] (<https://orcid.org/0000-0002-6580-4718>),
Paul Hsieh [ctb]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between validate versions 1.0.2 dated 2021-03-30 and 1.0.4 dated 2021-04-29
validate-1.0.2/validate/man/occurs.Rd |only validate-1.0.4/validate/DESCRIPTION | 8 - validate-1.0.4/validate/MD5 | 23 +--- validate-1.0.4/validate/NAMESPACE | 1 validate-1.0.4/validate/NEWS | 4 validate-1.0.4/validate/R/parse.R | 2 validate-1.0.4/validate/R/syntax.R | 78 +++++++------- validate-1.0.4/validate/build/vignette.rds |binary validate-1.0.4/validate/inst/doc/JSS_3483.pdf |binary validate-1.0.4/validate/inst/doc/cookbook.html | 34 +++--- validate-1.0.4/validate/inst/tinytest/test_genericrules.R | 23 ++-- validate-1.0.4/validate/inst/tinytest/test_syntax.R | 6 - validate-1.0.4/validate/man/voptions.Rd | 2 13 files changed, 92 insertions(+), 89 deletions(-)
Title: 'Opal' Data Repository Client and 'DataSHIELD' Utils
Description: Data integration Web application for biobanks by 'OBiBa'. 'Opal' is
the core database application for biobanks. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is typically used in a research center to analyze the data acquired at
assessment centres. Its ultimate purpose is to achieve seamless
data-sharing among biobanks. This 'Opal' client allows to interact with 'Opal'
web services and to perform operations on the R server side. 'DataSHIELD'
administration tools are also provided.
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>),
Amadou Gaye [ctb] (<https://orcid.org/0000-0002-1180-2792>),
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between opalr versions 2.0.0 dated 2021-03-09 and 2.1.0 dated 2021-04-29
opalr-2.0.0/opalr/R/datashield.admin.r |only opalr-2.0.0/opalr/R/opal.admin.r |only opalr-2.0.0/opalr/R/opal.annotations.r |only opalr-2.0.0/opalr/R/opal.assign.r |only opalr-2.0.0/opalr/R/opal.command.r |only opalr-2.0.0/opalr/R/opal.datasource.r |only opalr-2.0.0/opalr/R/opal.execute.r |only opalr-2.0.0/opalr/R/opal.file.r |only opalr-2.0.0/opalr/R/opal.project.r |only opalr-2.0.0/opalr/R/opal.r |only opalr-2.0.0/opalr/R/opal.report.r |only opalr-2.0.0/opalr/R/opal.resource.r |only opalr-2.0.0/opalr/R/opal.symbol.r |only opalr-2.0.0/opalr/R/opal.task.r |only opalr-2.0.0/opalr/R/opal.taxonomy.r |only opalr-2.0.0/opalr/R/opal.workspace.r |only opalr-2.0.0/opalr/R/utils.r |only opalr-2.1.0/opalr/DESCRIPTION | 13 opalr-2.1.0/opalr/MD5 | 363 +++++------ opalr-2.1.0/opalr/NAMESPACE | 9 opalr-2.1.0/opalr/R/datashield.admin.R |only opalr-2.1.0/opalr/R/dictionary.R | 6 opalr-2.1.0/opalr/R/opal.R |only opalr-2.1.0/opalr/R/opal.admin.R |only opalr-2.1.0/opalr/R/opal.annotations.R |only opalr-2.1.0/opalr/R/opal.assign.R |only opalr-2.1.0/opalr/R/opal.command.R |only opalr-2.1.0/opalr/R/opal.datasource.R |only opalr-2.1.0/opalr/R/opal.execute.R |only opalr-2.1.0/opalr/R/opal.file.R |only opalr-2.1.0/opalr/R/opal.project.R |only opalr-2.1.0/opalr/R/opal.report.R |only opalr-2.1.0/opalr/R/opal.resource.R |only opalr-2.1.0/opalr/R/opal.sql.R |only opalr-2.1.0/opalr/R/opal.symbol.R |only opalr-2.1.0/opalr/R/opal.task.R |only opalr-2.1.0/opalr/R/opal.taxonomy.R |only opalr-2.1.0/opalr/R/opal.token.R |only opalr-2.1.0/opalr/R/opal.workspace.R |only opalr-2.1.0/opalr/R/utils.R |only opalr-2.1.0/opalr/inst/doc/opal-files.html | 13 opalr-2.1.0/opalr/inst/doc/opal-projects.html | 13 opalr-2.1.0/opalr/inst/doc/opal-rsession.html | 13 opalr-2.1.0/opalr/man/dot-aclsToDataFrame.Rd | 2 opalr-2.1.0/opalr/man/dot-as.zeroOne.Rd | 2 opalr-2.1.0/opalr/man/dot-authorizationHeader.Rd | 2 opalr-2.1.0/opalr/man/dot-deparse.Rd | 2 opalr-2.1.0/opalr/man/dot-extractJsonField.Rd | 2 opalr-2.1.0/opalr/man/dot-extractLabel.Rd | 2 opalr-2.1.0/opalr/man/dot-extractOpalSessionId.Rd | 2 opalr-2.1.0/opalr/man/dot-getContent.Rd | 2 opalr-2.1.0/opalr/man/dot-getPEMFilePath.Rd | 2 opalr-2.1.0/opalr/man/dot-getRSessionId.Rd | 2 opalr-2.1.0/opalr/man/dot-getSessions.Rd | 2 opalr-2.1.0/opalr/man/dot-handleError.Rd | 2 opalr-2.1.0/opalr/man/dot-handleResponse.Rd | 2 opalr-2.1.0/opalr/man/dot-handleResponseLocation.Rd | 2 opalr-2.1.0/opalr/man/dot-handleResponseOrCallback.Rd | 2 opalr-2.1.0/opalr/man/dot-is.verbose.Rd | 2 opalr-2.1.0/opalr/man/dot-isContentEmpty.Rd | 2 opalr-2.1.0/opalr/man/dot-listToJson.Rd | 2 opalr-2.1.0/opalr/man/dot-newProgress.Rd | 2 opalr-2.1.0/opalr/man/dot-newSession.Rd | 2 opalr-2.1.0/opalr/man/dot-opal.login.Rd | 2 opalr-2.1.0/opalr/man/dot-rmOpalSession.Rd | 2 opalr-2.1.0/opalr/man/dot-rmRSession.Rd | 2 opalr-2.1.0/opalr/man/dot-select.Rd | 2 opalr-2.1.0/opalr/man/dot-tickProgress.Rd | 2 opalr-2.1.0/opalr/man/dot-tokenHeader.Rd | 2 opalr-2.1.0/opalr/man/dot-url.Rd | 2 opalr-2.1.0/opalr/man/dot-verbose.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.get_method.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.get_methods.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.get_options.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.install_github_package.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.install_local_package.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.install_package.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.installed_package.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.package_description.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.package_descriptions.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.perm.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.perm_add.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.perm_delete.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.remove_package.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.rm_method.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.rm_methods.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.rm_option.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.rm_package_methods.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.set_method.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.set_option.Rd | 2 opalr-2.1.0/opalr/man/dsadmin.set_package_methods.Rd | 2 opalr-2.1.0/opalr/man/oadmin.install_bioconductor_package.Rd | 2 opalr-2.1.0/opalr/man/oadmin.install_devtools.Rd | 2 opalr-2.1.0/opalr/man/oadmin.install_github_package.Rd | 2 opalr-2.1.0/opalr/man/oadmin.install_local_package.Rd | 2 opalr-2.1.0/opalr/man/oadmin.install_package.Rd | 2 opalr-2.1.0/opalr/man/oadmin.installed_devtools.Rd | 2 opalr-2.1.0/opalr/man/oadmin.installed_package.Rd | 2 opalr-2.1.0/opalr/man/oadmin.installed_packages.Rd | 2 opalr-2.1.0/opalr/man/oadmin.package_description.Rd | 2 opalr-2.1.0/opalr/man/oadmin.perm.Rd | 2 opalr-2.1.0/opalr/man/oadmin.perm_add.Rd | 2 opalr-2.1.0/opalr/man/oadmin.perm_delete.Rd | 2 opalr-2.1.0/opalr/man/oadmin.remove_package.Rd | 2 opalr-2.1.0/opalr/man/opal.annotate.Rd | 2 opalr-2.1.0/opalr/man/opal.annotations.Rd | 2 opalr-2.1.0/opalr/man/opal.as_md_table.Rd | 2 opalr-2.1.0/opalr/man/opal.assign.Rd | 2 opalr-2.1.0/opalr/man/opal.assign.data.Rd | 2 opalr-2.1.0/opalr/man/opal.assign.resource.Rd | 2 opalr-2.1.0/opalr/man/opal.assign.script.Rd | 2 opalr-2.1.0/opalr/man/opal.assign.table.Rd | 2 opalr-2.1.0/opalr/man/opal.assign.table.tibble.Rd | 2 opalr-2.1.0/opalr/man/opal.attribute_values.Rd | 2 opalr-2.1.0/opalr/man/opal.command.Rd | 2 opalr-2.1.0/opalr/man/opal.command_result.Rd | 2 opalr-2.1.0/opalr/man/opal.command_rm.Rd | 2 opalr-2.1.0/opalr/man/opal.commands.Rd | 2 opalr-2.1.0/opalr/man/opal.commands_rm.Rd | 2 opalr-2.1.0/opalr/man/opal.datasource.Rd | 2 opalr-2.1.0/opalr/man/opal.datasources.Rd | 2 opalr-2.1.0/opalr/man/opal.delete.Rd | 2 opalr-2.1.0/opalr/man/opal.execute.Rd | 2 opalr-2.1.0/opalr/man/opal.execute.source.Rd | 2 opalr-2.1.0/opalr/man/opal.file.Rd | 2 opalr-2.1.0/opalr/man/opal.file_cp.Rd | 2 opalr-2.1.0/opalr/man/opal.file_download.Rd | 2 opalr-2.1.0/opalr/man/opal.file_ls.Rd | 2 opalr-2.1.0/opalr/man/opal.file_mkdir.Rd | 2 opalr-2.1.0/opalr/man/opal.file_mkdir_tmp.Rd | 2 opalr-2.1.0/opalr/man/opal.file_mv.Rd | 2 opalr-2.1.0/opalr/man/opal.file_read.Rd | 2 opalr-2.1.0/opalr/man/opal.file_rm.Rd | 2 opalr-2.1.0/opalr/man/opal.file_upload.Rd | 2 opalr-2.1.0/opalr/man/opal.file_write.Rd | 2 opalr-2.1.0/opalr/man/opal.get.Rd | 2 opalr-2.1.0/opalr/man/opal.load_package.Rd | 2 opalr-2.1.0/opalr/man/opal.login.Rd | 2 opalr-2.1.0/opalr/man/opal.logout.Rd | 2 opalr-2.1.0/opalr/man/opal.post.Rd | 2 opalr-2.1.0/opalr/man/opal.project.Rd | 3 opalr-2.1.0/opalr/man/opal.project_create.Rd | 3 opalr-2.1.0/opalr/man/opal.project_delete.Rd | 3 opalr-2.1.0/opalr/man/opal.project_exists.Rd | 3 opalr-2.1.0/opalr/man/opal.project_perm.Rd | 2 opalr-2.1.0/opalr/man/opal.project_perm_add.Rd | 2 opalr-2.1.0/opalr/man/opal.project_perm_delete.Rd | 2 opalr-2.1.0/opalr/man/opal.projects.Rd | 3 opalr-2.1.0/opalr/man/opal.put.Rd | 2 opalr-2.1.0/opalr/man/opal.report.Rd | 2 opalr-2.1.0/opalr/man/opal.report_md.Rd | 2 opalr-2.1.0/opalr/man/opal.resource.Rd | 3 opalr-2.1.0/opalr/man/opal.resource_create.Rd | 3 opalr-2.1.0/opalr/man/opal.resource_delete.Rd | 2 opalr-2.1.0/opalr/man/opal.resource_exists.Rd | 3 opalr-2.1.0/opalr/man/opal.resource_extension_create.Rd |only opalr-2.1.0/opalr/man/opal.resource_get.Rd | 3 opalr-2.1.0/opalr/man/opal.resource_perm.Rd | 2 opalr-2.1.0/opalr/man/opal.resource_perm_add.Rd | 2 opalr-2.1.0/opalr/man/opal.resource_perm_delete.Rd | 2 opalr-2.1.0/opalr/man/opal.resources.Rd | 3 opalr-2.1.0/opalr/man/opal.resources_perm.Rd | 2 opalr-2.1.0/opalr/man/opal.resources_perm_add.Rd | 2 opalr-2.1.0/opalr/man/opal.resources_perm_delete.Rd | 2 opalr-2.1.0/opalr/man/opal.rm.Rd | 2 opalr-2.1.0/opalr/man/opal.sql.Rd |only opalr-2.1.0/opalr/man/opal.sql_history.Rd |only opalr-2.1.0/opalr/man/opal.symbol_import.Rd | 2 opalr-2.1.0/opalr/man/opal.symbol_rm.Rd | 2 opalr-2.1.0/opalr/man/opal.symbol_save.Rd | 2 opalr-2.1.0/opalr/man/opal.symbols.Rd | 2 opalr-2.1.0/opalr/man/opal.table.Rd | 2 opalr-2.1.0/opalr/man/opal.tables.Rd | 2 opalr-2.1.0/opalr/man/opal.tables_perm.Rd | 2 opalr-2.1.0/opalr/man/opal.tables_perm_add.Rd | 2 opalr-2.1.0/opalr/man/opal.tables_perm_delete.Rd | 2 opalr-2.1.0/opalr/man/opal.task.Rd | 2 opalr-2.1.0/opalr/man/opal.task_cancel.Rd | 2 opalr-2.1.0/opalr/man/opal.task_wait.Rd | 2 opalr-2.1.0/opalr/man/opal.tasks.Rd | 2 opalr-2.1.0/opalr/man/opal.taxonomies.Rd | 2 opalr-2.1.0/opalr/man/opal.taxonomy.Rd | 2 opalr-2.1.0/opalr/man/opal.taxonomy_delete.Rd | 2 opalr-2.1.0/opalr/man/opal.taxonomy_download.Rd | 2 opalr-2.1.0/opalr/man/opal.taxonomy_upload.Rd | 2 opalr-2.1.0/opalr/man/opal.terms.Rd | 2 opalr-2.1.0/opalr/man/opal.token.Rd |only opalr-2.1.0/opalr/man/opal.token_datashield_create.Rd |only opalr-2.1.0/opalr/man/opal.token_delete.Rd |only opalr-2.1.0/opalr/man/opal.token_r_create.Rd |only opalr-2.1.0/opalr/man/opal.token_sql_create.Rd |only opalr-2.1.0/opalr/man/opal.tokens.Rd |only opalr-2.1.0/opalr/man/opal.unload_package.Rd | 2 opalr-2.1.0/opalr/man/opal.valueset.Rd | 2 opalr-2.1.0/opalr/man/opal.variable.Rd | 2 opalr-2.1.0/opalr/man/opal.variables.Rd | 2 opalr-2.1.0/opalr/man/opal.version_compare.Rd | 2 opalr-2.1.0/opalr/man/opal.vocabularies.Rd | 2 opalr-2.1.0/opalr/man/opal.vocabulary.Rd | 2 opalr-2.1.0/opalr/man/opal.workspace_rm.Rd | 2 opalr-2.1.0/opalr/man/opal.workspace_save.Rd | 8 opalr-2.1.0/opalr/man/opal.workspaces.Rd | 2 opalr-2.1.0/opalr/tests/testthat/helper-setup.R | 2 opalr-2.1.0/opalr/tests/testthat/test-dictionary.R | 53 + opalr-2.1.0/opalr/tests/testthat/test-sql.R |only opalr-2.1.0/opalr/tests/testthat/test-token.R |only 206 files changed, 457 insertions(+), 344 deletions(-)
Title: Algorithm to Compute Monitor Independent Movement Summary Unit
(MIMS-Unit)
Description: The MIMS-unit algorithm is developed to compute Monitor Independent
Movement Summary Unit, a measurement to summarize raw accelerometer data
while ensuring harmonized results across different devices. It also includes
scripts to reproduce results in the related publication
(John, D., Tang. Q., Albinali, F. and Intille, S. (2019) <doi:10.1123/jmpb.2018-0068>).
Author: Qu Tang [aut, cre] (<https://orcid.org/0000-0001-5415-0205>),
Dinesh John [aut],
Stephen Intille [aut],
mHealth Research Group [cph] (https://www.mhealthgroup.org)
Maintainer: Qu Tang <tang.q@northeastern.edu>
Diff between MIMSunit versions 0.9.2 dated 2020-07-31 and 0.10.0 dated 2021-04-29
MIMSunit-0.10.0/MIMSunit/DESCRIPTION | 24 ++--- MIMSunit-0.10.0/MIMSunit/MD5 | 42 +++++----- MIMSunit-0.10.0/MIMSunit/NEWS.md | 26 +++++- MIMSunit-0.10.0/MIMSunit/R/data.R | 12 +- MIMSunit-0.10.0/MIMSunit/R/export_data.R | 4 MIMSunit-0.10.0/MIMSunit/R/extrapolate.R | 2 MIMSunit-0.10.0/MIMSunit/R/helper.R | 7 - MIMSunit-0.10.0/MIMSunit/R/import_data.R | 40 +++------ MIMSunit-0.10.0/MIMSunit/R/mims_unit.R | 5 - MIMSunit-0.10.0/MIMSunit/README.md | 34 ++++---- MIMSunit-0.10.0/MIMSunit/inst/app/server.R | 2 MIMSunit-0.10.0/MIMSunit/inst/pkgdown |only MIMSunit-0.10.0/MIMSunit/man/conceptual_diagram_data.Rd | 2 MIMSunit-0.10.0/MIMSunit/man/cv_different_algorithms.Rd | 2 MIMSunit-0.10.0/MIMSunit/man/edge_case.Rd | 2 MIMSunit-0.10.0/MIMSunit/man/import_actigraph_csv.Rd | 25 +---- MIMSunit-0.10.0/MIMSunit/man/import_actigraph_csv_chunked.Rd | 12 +- MIMSunit-0.10.0/MIMSunit/man/import_actigraph_meta.Rd | 2 MIMSunit-0.10.0/MIMSunit/man/measurements_different_devices.Rd | 2 MIMSunit-0.10.0/MIMSunit/man/mims_unit.Rd | 5 - MIMSunit-0.10.0/MIMSunit/man/rest_on_table.Rd | 2 MIMSunit-0.10.0/MIMSunit/man/sample_raw_accel_data.Rd | 2 MIMSunit-0.9.2/MIMSunit/inst/extdata/actigraph.csv |only 23 files changed, 130 insertions(+), 124 deletions(-)
Title: Create Complex UpSet Plots Using 'ggplot2' Components
Description: UpSet plots are an improvement over Venn Diagram for set overlap visualizations.
Striving to bring the best of the 'UpSetR' and 'ggplot2', this package offers a way to create
complex overlap visualisations, using simple and familiar tools, i.e. geoms of 'ggplot2'.
For introduction to UpSet concept, see Lex et al. (2014) <doi:10.1109/TVCG.2014.2346248>.
Author: Michał Krassowski [aut, cre] (<https://orcid.org/0000-0002-9638-7785>)
Maintainer: Michał Krassowski <krassowski.michal+r@gmail.com>
Diff between ComplexUpset versions 1.2.0 dated 2021-04-04 and 1.2.1 dated 2021-04-29
ComplexUpset-1.2.0/ComplexUpset/vignettes/Examples_R_files |only ComplexUpset-1.2.1/ComplexUpset/DESCRIPTION | 6 ComplexUpset-1.2.1/ComplexUpset/LICENSE | 2 ComplexUpset-1.2.1/ComplexUpset/MD5 | 142 ComplexUpset-1.2.1/ComplexUpset/R/venn.R | 10 ComplexUpset-1.2.1/ComplexUpset/README.md | 9 ComplexUpset-1.2.1/ComplexUpset/inst/doc/Examples_R.Rmd | 144 ComplexUpset-1.2.1/ComplexUpset/inst/doc/Examples_R.html | 2818 +++++++--- ComplexUpset-1.2.1/ComplexUpset/vignettes/Examples_R.Rmd | 144 ComplexUpset-1.2.1/ComplexUpset/vignettes/Files_for_Examples_R |only 10 files changed, 2215 insertions(+), 1060 deletions(-)
Title: Vector Helpers
Description: Defines new notions of prototype and size that are
used to provide tools for consistent and well-founded type-coercion
and size-recycling, and are in turn connected to ideas of type- and
size-stability useful for analysing function interfaces.
Author: Hadley Wickham [aut],
Lionel Henry [aut, cre],
Davis Vaughan [aut],
data.table team [cph] (Radix sort based on data.table's forder() and
their contribution to R's order()),
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between vctrs versions 0.3.7 dated 2021-03-29 and 0.3.8 dated 2021-04-29
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 5 +++++ R/aaa.R | 28 ++++++++++++++++++++++++++++ R/register-s3.R | 47 ++++++++++++++++++++++++++--------------------- R/zzz.R | 2 ++ inst/doc/s3-vector.html | 2 +- inst/doc/stability.html | 4 ++-- inst/doc/type-size.html | 8 +++++--- man/s3_register.Rd | 3 --- src/version.c | 2 +- 11 files changed, 83 insertions(+), 44 deletions(-)
Title: Pedigree Inference from SNPs
Description: Multi-generational pedigree inference from incomplete data on
hundreds of SNPs, including parentage assignment and sibship clustering.
See Huisman (2017) (<DOI:10.1111/1755-0998.12665>) for more information.
Author: Jisca Huisman [aut, cre]
Maintainer: Jisca Huisman <jisca.huisman@gmail.com>
Diff between sequoia versions 2.0.7 dated 2020-05-18 and 2.3.2 dated 2021-04-29
sequoia-2.0.7/sequoia/NEWS |only sequoia-2.0.7/sequoia/R/PairRelation.R |only sequoia-2.0.7/sequoia/R/Utils_hermaphrodites.R |only sequoia-2.0.7/sequoia/inst/Fortran |only sequoia-2.0.7/sequoia/inst/doc/AgePriors.R |only sequoia-2.0.7/sequoia/inst/doc/AgePriors.Rmd |only sequoia-2.0.7/sequoia/inst/doc/AgePriors.html |only sequoia-2.0.7/sequoia/inst/doc/sequoia.R |only sequoia-2.0.7/sequoia/inst/doc/sequoia.Rnw |only sequoia-2.0.7/sequoia/inst/doc/sequoia.pdf |only sequoia-2.0.7/sequoia/man/CalcSnpdBoth.Rd |only sequoia-2.0.7/sequoia/man/GetRelCat.Rd |only sequoia-2.0.7/sequoia/man/SeqPrep.Rd |only sequoia-2.0.7/sequoia/vignettes/AgePriors.Rmd |only sequoia-2.0.7/sequoia/vignettes/figs |only sequoia-2.0.7/sequoia/vignettes/sequoia.Rnw |only sequoia-2.3.2/sequoia/DESCRIPTION | 20 sequoia-2.3.2/sequoia/MD5 | 263 sequoia-2.3.2/sequoia/NAMESPACE | 13 sequoia-2.3.2/sequoia/NEWS.md |only sequoia-2.3.2/sequoia/R/CalcBYprobs.R |only sequoia-2.3.2/sequoia/R/CalcMaxMismatch.R | 58 sequoia-2.3.2/sequoia/R/CalcOHLLR.R | 388 sequoia-2.3.2/sequoia/R/CalcPairLL.R |only sequoia-2.3.2/sequoia/R/CalcRped.R |only sequoia-2.3.2/sequoia/R/CheckGeno.R | 98 sequoia-2.3.2/sequoia/R/CheckLifeHist.R |only sequoia-2.3.2/sequoia/R/ComparePairs.R | 405 sequoia-2.3.2/sequoia/R/ComparePeds.R | 150 sequoia-2.3.2/sequoia/R/ConfProb.R | 334 sequoia-2.3.2/sequoia/R/CountGenerations.R |only sequoia-2.3.2/sequoia/R/Data_documentation.R | 90 sequoia-2.3.2/sequoia/R/DuplicateCheck.R |only sequoia-2.3.2/sequoia/R/ErrToM.R | 24 sequoia-2.3.2/sequoia/R/FindFamilies.R | 16 sequoia-2.3.2/sequoia/R/GenoConvert.R | 142 sequoia-2.3.2/sequoia/R/GetMaybeRel.R | 440 sequoia-2.3.2/sequoia/R/MkAgePrior.R | 812 sequoia-2.3.2/sequoia/R/PedPolish.R | 94 sequoia-2.3.2/sequoia/R/PedToNum.R |only sequoia-2.3.2/sequoia/R/PlotAgePrior.R |only sequoia-2.3.2/sequoia/R/PlotPairLL.R |only sequoia-2.3.2/sequoia/R/PlotPedComp.R |only sequoia-2.3.2/sequoia/R/Prepare.R | 531 sequoia-2.3.2/sequoia/R/RelPlot.R |only sequoia-2.3.2/sequoia/R/SNPstats.R | 121 sequoia-2.3.2/sequoia/R/SeqListSummary.R | 346 sequoia-2.3.2/sequoia/R/Sequoia_F90wrappers.R | 457 sequoia-2.3.2/sequoia/R/Sequoia_Main.R | 613 sequoia-2.3.2/sequoia/R/Simulate.R | 213 sequoia-2.3.2/sequoia/R/Utils.R | 341 sequoia-2.3.2/sequoia/R/WriteToFiles.R | 106 sequoia-2.3.2/sequoia/R/getAssignable.R | 128 sequoia-2.3.2/sequoia/R/getRelM.R |only sequoia-2.3.2/sequoia/build/vignette.rds |binary sequoia-2.3.2/sequoia/data/FieldMums_griffin.txt |only sequoia-2.3.2/sequoia/data/LH_griffin.txt |only sequoia-2.3.2/sequoia/data/SeqOUT_griffin.RData |binary sequoia-2.3.2/sequoia/inst/doc/PedComp.R |only sequoia-2.3.2/sequoia/inst/doc/PedComp.Rmd |only sequoia-2.3.2/sequoia/inst/doc/PedComp.html |only sequoia-2.3.2/sequoia/inst/doc/flowchart.pdf |only sequoia-2.3.2/sequoia/inst/doc/flowchart.pdf.asis |only sequoia-2.3.2/sequoia/inst/doc/quick_start_example1.R |only sequoia-2.3.2/sequoia/inst/doc/quick_start_example1.html |only sequoia-2.3.2/sequoia/inst/doc/quick_start_example1.rmd |only sequoia-2.3.2/sequoia/inst/doc/vignette-age.R |only sequoia-2.3.2/sequoia/inst/doc/vignette-age.Rmd |only sequoia-2.3.2/sequoia/inst/doc/vignette-age.pdf |only sequoia-2.3.2/sequoia/inst/doc/vignette-main.R |only sequoia-2.3.2/sequoia/inst/doc/vignette-main.Rmd |only sequoia-2.3.2/sequoia/inst/doc/vignette-main.pdf |only sequoia-2.3.2/sequoia/inst/extdata/Inherit.csv |only sequoia-2.3.2/sequoia/man/CalcBYprobs.Rd |only sequoia-2.3.2/sequoia/man/CalcChi2.Rd | 10 sequoia-2.3.2/sequoia/man/CalcCorners.Rd |only sequoia-2.3.2/sequoia/man/CalcMaxMismatch.Rd | 23 sequoia-2.3.2/sequoia/man/CalcOHLLR.Rd | 189 sequoia-2.3.2/sequoia/man/CalcPairLL.Rd |only sequoia-2.3.2/sequoia/man/CalcRped.Rd |only sequoia-2.3.2/sequoia/man/CheckAP.Rd |only sequoia-2.3.2/sequoia/man/CheckGeno.Rd | 46 sequoia-2.3.2/sequoia/man/CheckLH.Rd | 28 sequoia-2.3.2/sequoia/man/CheckParams.Rd |only sequoia-2.3.2/sequoia/man/ComparePairs.Rd | 241 sequoia-2.3.2/sequoia/man/CountAgeDif.Rd |only sequoia-2.3.2/sequoia/man/DoErrors.Rd | 8 sequoia-2.3.2/sequoia/man/DuplicateCheck.Rd | 43 sequoia-2.3.2/sequoia/man/DyadCompare.Rd | 17 sequoia-2.3.2/sequoia/man/ErrToM.Rd | 9 sequoia-2.3.2/sequoia/man/EstConf.Rd | 351 sequoia-2.3.2/sequoia/man/EstErr.Rd | 10 sequoia-2.3.2/sequoia/man/FieldMums_griffin.Rd |only sequoia-2.3.2/sequoia/man/FindFamilies.Rd | 2 sequoia-2.3.2/sequoia/man/FoldSibGPs.Rd |only sequoia-2.3.2/sequoia/man/FortifyPairs.Rd |only sequoia-2.3.2/sequoia/man/GenoConvert.Rd | 91 sequoia-2.3.2/sequoia/man/GetDummifiable.Rd |only sequoia-2.3.2/sequoia/man/GetLLRAge.Rd |only sequoia-2.3.2/sequoia/man/GetMaybeRel.Rd | 151 sequoia-2.3.2/sequoia/man/GetRelA.Rd |only sequoia-2.3.2/sequoia/man/GetRelM.Rd |only sequoia-2.3.2/sequoia/man/LHConvert.Rd | 18 sequoia-2.3.2/sequoia/man/LH_HSg5.Rd | 13 sequoia-2.3.2/sequoia/man/LH_griffin.Rd |only sequoia-2.3.2/sequoia/man/LLRplot.Rd |only sequoia-2.3.2/sequoia/man/MakeAgePrior.Rd | 200 sequoia-2.3.2/sequoia/man/MergeFill.Rd | 8 sequoia-2.3.2/sequoia/man/MkFortParams.Rd |only sequoia-2.3.2/sequoia/man/MkGenoErrors.Rd | 10 sequoia-2.3.2/sequoia/man/NumToID.Rd |only sequoia-2.3.2/sequoia/man/ParamToSpecs.Rd |only sequoia-2.3.2/sequoia/man/PedCompare.Rd | 81 sequoia-2.3.2/sequoia/man/PedPolish.Rd | 51 sequoia-2.3.2/sequoia/man/PedStripFID.Rd | 10 sequoia-2.3.2/sequoia/man/PedToNum.Rd |only sequoia-2.3.2/sequoia/man/Ped_HSg5.Rd | 4 sequoia-2.3.2/sequoia/man/Ped_griffin.Rd | 8 sequoia-2.3.2/sequoia/man/PlotAgePrior.Rd | 32 sequoia-2.3.2/sequoia/man/PlotPairLL.Rd |only sequoia-2.3.2/sequoia/man/PlotPedComp.Rd |only sequoia-2.3.2/sequoia/man/PlotRelPairs.Rd |only sequoia-2.3.2/sequoia/man/SeqOUT_griffin.Rd | 15 sequoia-2.3.2/sequoia/man/SeqParSib.Rd | 42 sequoia-2.3.2/sequoia/man/SimGeno.Rd | 67 sequoia-2.3.2/sequoia/man/SnpStats.Rd | 40 sequoia-2.3.2/sequoia/man/SpecsToParam.Rd |only sequoia-2.3.2/sequoia/man/SummarySeq.Rd | 48 sequoia-2.3.2/sequoia/man/VennSquares.Rd |only sequoia-2.3.2/sequoia/man/getAssignCat.Rd | 52 sequoia-2.3.2/sequoia/man/getGDO.Rd |only sequoia-2.3.2/sequoia/man/getGenerations.Rd | 20 sequoia-2.3.2/sequoia/man/orderLH.Rd | 11 sequoia-2.3.2/sequoia/man/plot.seq.Rd | 7 sequoia-2.3.2/sequoia/man/sequoia.Rd | 206 sequoia-2.3.2/sequoia/man/tryCatch.W.E.Rd |only sequoia-2.3.2/sequoia/man/writeColumns.Rd | 8 sequoia-2.3.2/sequoia/man/writeSeq.Rd | 20 sequoia-2.3.2/sequoia/src/Sequoia.f90 |10306 ++++++----- sequoia-2.3.2/sequoia/src/SimGenoErrors.f90 | 7 sequoia-2.3.2/sequoia/src/init.c | 77 sequoia-2.3.2/sequoia/vignettes/ARER-cats.pdf |only sequoia-2.3.2/sequoia/vignettes/ARER-cats.png |only sequoia-2.3.2/sequoia/vignettes/Deer-AgePriorExtra.png |only sequoia-2.3.2/sequoia/vignettes/Errs-effect.pdf |only sequoia-2.3.2/sequoia/vignettes/Errs-effect.png |only sequoia-2.3.2/sequoia/vignettes/Errs-time-HSg5.pdf |only sequoia-2.3.2/sequoia/vignettes/Errs-time-HSg5.png |only sequoia-2.3.2/sequoia/vignettes/Errs-time-deer.pdf |only sequoia-2.3.2/sequoia/vignettes/Errs-time-deer.png |only sequoia-2.3.2/sequoia/vignettes/PedComp.Rmd |only sequoia-2.3.2/sequoia/vignettes/RelPlot-griffin.pdf |only sequoia-2.3.2/sequoia/vignettes/RelPlot-griffin.png |only sequoia-2.3.2/sequoia/vignettes/Rped_scatter.png |only sequoia-2.3.2/sequoia/vignettes/SummarySeq_deer.png |only sequoia-2.3.2/sequoia/vignettes/SummarySeq_deer_sibships.png |only sequoia-2.3.2/sequoia/vignettes/agedif-AU.png |only sequoia-2.3.2/sequoia/vignettes/agepriors-pipeline.pdf |only sequoia-2.3.2/sequoia/vignettes/agepriors-pipeline.png |only sequoia-2.3.2/sequoia/vignettes/clustering_mat_helps_pat.pdf |only sequoia-2.3.2/sequoia/vignettes/clustering_mat_helps_pat.png |only sequoia-2.3.2/sequoia/vignettes/flowchart.pdf.asis |only sequoia-2.3.2/sequoia/vignettes/hexbin.pdf |only sequoia-2.3.2/sequoia/vignettes/hexbin.png |only sequoia-2.3.2/sequoia/vignettes/quick_start_example1.rmd |only sequoia-2.3.2/sequoia/vignettes/selfed_parent.png |only sequoia-2.3.2/sequoia/vignettes/sequoia_refs.bib |only sequoia-2.3.2/sequoia/vignettes/vignette-age.Rmd |only sequoia-2.3.2/sequoia/vignettes/vignette-main.Rmd |only sequoia-2.3.2/sequoia/vignettes/vignette-main.html |only 170 files changed, 11257 insertions(+), 7526 deletions(-)
Title: Get Facts and Data from Wikipedia and Wikidata
Description: Query Wikidata and get facts from current and historic Wikipedia main pages.
Author: Keith McNulty [aut, cre] (<https://orcid.org/0000-0002-2332-1654>),
Petr Kajzar [ctb]
Maintainer: Keith McNulty <keith.mcnulty@gmail.com>
Diff between wikifacts versions 0.4.1 dated 2020-11-24 and 0.4.2 dated 2021-04-29
DESCRIPTION | 9 +-- MD5 | 14 +++--- NEWS.md | 7 +++ R/wiki_define.R |only R/wiki_search.R | 2 README.md | 72 +++++++++++++++++++++---------- man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary man/wiki_define.Rd |only 9 files changed, 69 insertions(+), 35 deletions(-)
Title: Visualization of Spatial and Spatio-Temporal Objects in Google
Earth
Description: Writes sp-class, spacetime-class, raster-class and similar spatial and spatio-temporal objects to KML following some basic cartographic rules.
Author: Tomislav Hengl [cre, aut],
Andrea Gilardi [ctb],
Pierre Roudier [ctb],
Dylan Beaudette [ctb],
Edzer Pebesma [ctb],
Michael Blaschek [ctb]
Maintainer: Tomislav Hengl <tom.hengl@opengeohub.org>
Diff between plotKML versions 0.8-0 dated 2021-04-12 and 0.8-1 dated 2021-04-29
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/AAAA.R | 2 +- build/partial.rdb |binary inst/doc/jss1079.pdf |binary 5 files changed, 8 insertions(+), 8 deletions(-)
Title: Thematic Cartography
Description: Create and integrate thematic maps in your workflow. This package
helps to design various cartographic representations such as proportional
symbols, choropleth or typology maps. It also offers several functions to
display layout elements that improve the graphic presentation of maps
(e.g. scale bar, north arrow, title, labels). 'mapsf' maps 'sf' objects on
'base' graphics.
Author: Timothée Giraud [cre, aut] (<https://orcid.org/0000-0002-1932-3323>),
Diego Hernangómez [ctb] (<https://orcid.org/0000-0001-8457-4658>),
Hugues Pecout [ctb],
Ian Fellows [cph] (No overlap algorithm for labels, from wordcloud
package),
Jim Lemon [cph] (Arc drawing algorithm for annotations, from plotrix
package),
Florian Zenoni [cph] (Orthographic projection visualisation)
Maintainer: Timothée Giraud <timothee.giraud@cnrs.fr>
Diff between mapsf versions 0.1.1 dated 2021-03-01 and 0.2.0 dated 2021-04-29
mapsf-0.1.1/mapsf/inst/img |only mapsf-0.1.1/mapsf/inst/tinytest/test_leg.R |only mapsf-0.1.1/mapsf/man/figures/logox.png |only mapsf-0.1.1/mapsf/man/figures/mtq.svg |only mapsf-0.1.1/mapsf/vignettes/fig/mf_grad-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/mf_init-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/mf_label-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/mf_map_c-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/mf_map_pc-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/mf_map_pt-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/mf_map_t-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/mf_prop-1.png |only mapsf-0.1.1/mapsf/vignettes/fig/poly_d.svg |only mapsf-0.1.1/mapsf/vignettes/fig/poly_dd.svg |only mapsf-0.2.0/mapsf/DESCRIPTION | 9 - mapsf-0.2.0/mapsf/MD5 | 131 +++++++++----------- mapsf-0.2.0/mapsf/NAMESPACE | 1 mapsf-0.2.0/mapsf/NEWS.md |only mapsf-0.2.0/mapsf/R/compassboard.R |only mapsf-0.2.0/mapsf/R/mf_credits.R | 58 +++++++- mapsf-0.2.0/mapsf/R/mf_doc_utils.R | 12 + mapsf-0.2.0/mapsf/R/mf_export.R |only mapsf-0.2.0/mapsf/R/mf_init.R | 104 ++------------- mapsf-0.2.0/mapsf/R/mf_inset.R | 1 mapsf-0.2.0/mapsf/R/mf_layout.R | 4 mapsf-0.2.0/mapsf/R/mf_leg_c.R | 1 mapsf-0.2.0/mapsf/R/mf_leg_p_utils.R | 3 mapsf-0.2.0/mapsf/R/mf_leg_s.R | 1 mapsf-0.2.0/mapsf/R/mf_leg_t.R | 2 mapsf-0.2.0/mapsf/R/mf_legend.R | 6 mapsf-0.2.0/mapsf/R/mf_map.R | 21 +-- mapsf-0.2.0/mapsf/R/mf_map_b.R | 21 +-- mapsf-0.2.0/mapsf/R/mf_map_c.R | 20 +-- mapsf-0.2.0/mapsf/R/mf_map_g.R | 16 +- mapsf-0.2.0/mapsf/R/mf_map_p.R | 19 +- mapsf-0.2.0/mapsf/R/mf_map_pc.R | 27 ++-- mapsf-0.2.0/mapsf/R/mf_map_pt.R | 27 ++-- mapsf-0.2.0/mapsf/R/mf_map_r.R | 21 +-- mapsf-0.2.0/mapsf/R/mf_map_s.R | 15 +- mapsf-0.2.0/mapsf/R/mf_map_sc.R | 19 +- mapsf-0.2.0/mapsf/R/mf_map_t.R | 20 +-- mapsf-0.2.0/mapsf/R/mf_map_utils.R | 62 ++++++++- mapsf-0.2.0/mapsf/R/mf_pkg_utils.R | 8 - mapsf-0.2.0/mapsf/R/mf_shadow.R | 2 mapsf-0.2.0/mapsf/R/mf_theme.R | 50 +++---- mapsf-0.2.0/mapsf/R/mf_title.R | 2 mapsf-0.2.0/mapsf/R/mf_worldmap.R | 7 - mapsf-0.2.0/mapsf/README.md | 33 ++--- mapsf-0.2.0/mapsf/build/vignette.rds |binary mapsf-0.2.0/mapsf/inst/doc/mapsf.R | 1 mapsf-0.2.0/mapsf/inst/doc/mapsf.Rmd | 3 mapsf-0.2.0/mapsf/inst/doc/mapsf.html | 22 +-- mapsf-0.2.0/mapsf/inst/gpkg/world.gpkg |binary mapsf-0.2.0/mapsf/inst/tinytest/test_export.R |only mapsf-0.2.0/mapsf/inst/tinytest/test_init.R | 19 -- mapsf-0.2.0/mapsf/inst/tinytest/test_map_pc.R | 12 + mapsf-0.2.0/mapsf/inst/tinytest/test_map_s.R |only mapsf-0.2.0/mapsf/inst/tinytest/test_raster.R | 2 mapsf-0.2.0/mapsf/inst/tinytest/test_theme.R | 5 mapsf-0.2.0/mapsf/man/figures/README-example1-1.png |binary mapsf-0.2.0/mapsf/man/figures/README-example4-1.png |binary mapsf-0.2.0/mapsf/man/figures/mtq.png |only mapsf-0.2.0/mapsf/man/mf_choro.Rd | 5 mapsf-0.2.0/mapsf/man/mf_credits.Rd | 11 + mapsf-0.2.0/mapsf/man/mf_export.Rd |only mapsf-0.2.0/mapsf/man/mf_grad.Rd | 2 mapsf-0.2.0/mapsf/man/mf_init.Rd | 27 ---- mapsf-0.2.0/mapsf/man/mf_legend.Rd | 2 mapsf-0.2.0/mapsf/man/mf_map.Rd | 6 mapsf-0.2.0/mapsf/man/mf_prop.Rd | 2 mapsf-0.2.0/mapsf/man/mf_prop_choro.Rd | 7 - mapsf-0.2.0/mapsf/man/mf_prop_typo.Rd | 7 - mapsf-0.2.0/mapsf/man/mf_symb.Rd | 5 mapsf-0.2.0/mapsf/man/mf_symb_choro.Rd | 7 - mapsf-0.2.0/mapsf/man/mf_theme.Rd | 14 -- mapsf-0.2.0/mapsf/man/mf_typo.Rd | 5 mapsf-0.2.0/mapsf/vignettes/mapsf.Rmd | 3 77 files changed, 484 insertions(+), 406 deletions(-)
Title: Tools for Working with ...
Description: The ellipsis is a powerful tool for extending functions. Unfortunately
this power comes at a cost: misspelled arguments will be silently ignored.
The ellipsis package provides a collection of functions to catch problems
and alert the user.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between ellipsis versions 0.3.1 dated 2020-05-15 and 0.3.2 dated 2021-04-29
DESCRIPTION | 11 +++++------ LICENSE |only MD5 | 18 ++++++++++-------- NEWS.md | 6 ++++++ R/aaa.R |only R/check.R | 12 ++++++++++++ R/ellipsis-package.R | 4 ++++ README.md | 6 +++--- man/check_dots_empty.Rd | 5 +---- man/check_dots_unnamed.Rd | 5 +---- man/check_dots_used.Rd | 5 +---- 11 files changed, 43 insertions(+), 29 deletions(-)
Title: Groupwise Statistics, LSmeans, Linear Contrasts, Utilities
Description: Contains:
1) Facilities for working with grouped data: 'do' something to data
stratified 'by' some variables.
2) LSmeans (least-squares means), general linear contrasts.
3) Miscellaneous other utilities.
Author: Søren Højsgaard <sorenh@math.aau.dk> and Ulrich Halekoh
<uhalekoh@health.sdu.dk>
Maintainer: Søren Højsgaard <sorenh@math.aau.dk>
Diff between doBy versions 4.6.9 dated 2021-03-09 and 4.6.10 dated 2021-04-29
doBy-4.6.10/doBy/DESCRIPTION | 12 doBy-4.6.10/doBy/MD5 | 55 + doBy-4.6.10/doBy/NAMESPACE | 10 doBy-4.6.10/doBy/NEWS.md |only doBy-4.6.10/doBy/R/NAMESPACE.R | 14 doBy-4.6.10/doBy/R/by-lmBy.R | 3 doBy-4.6.10/doBy/R/dobyxtabs.R | 120 ++-- doBy-4.6.10/doBy/R/restrict_env.R |only doBy-4.6.10/doBy/R/taylor.R | 2 doBy-4.6.10/doBy/build/vignette.rds |binary doBy-4.6.10/doBy/inst/doc/doby.R | 150 +++-- doBy-4.6.10/doBy/inst/doc/doby.Rnw | 293 +++++++--- doBy-4.6.10/doBy/inst/doc/doby.pdf |binary doBy-4.6.10/doBy/man/doBy-internal.Rd | 1 doBy-4.6.10/doBy/man/restrict.Rd |only doBy-4.6.10/doBy/tests |only doBy-4.6.10/doBy/vignettes/doby.Rnw | 293 +++++++--- doBy-4.6.10/doBy/vignettes/doby.bib | 754 +++++++++++++-------------- doBy-4.6.10/doBy/vignettes/figures |only doBy-4.6.9/doBy/NEWS |only doBy-4.6.9/doBy/R/specialize.R |only doBy-4.6.9/doBy/inst/doc/linest-lsmeans.R |only doBy-4.6.9/doBy/inst/doc/linest-lsmeans.Rnw |only doBy-4.6.9/doBy/inst/doc/linest-lsmeans.pdf |only doBy-4.6.9/doBy/vignettes/linest-lsmeans.Rnw |only 25 files changed, 1029 insertions(+), 678 deletions(-)
Title: Manipulation of Linear Systems of (in)Equalities
Description: Variable elimination (Gaussian elimination, Fourier-Motzkin elimination),
Moore-Penrose pseudoinverse, reduction to reduced row echelon form, value substitution,
projecting a vector on the convex polytope described by a system of (in)equations,
simplify systems by removing spurious columns and rows and collapse implied equalities,
test if a matrix is totally unimodular, compute variable ranges implied by linear
(in)equalities.
Author: Mark van der Loo [aut, cre],
Edwin de Jonge [aut]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between lintools versions 0.1.3 dated 2019-12-05 and 0.1.5 dated 2021-04-29
DESCRIPTION | 10 - MD5 | 32 ++-- NEWS | 4 R/compact.R | 19 +- R/eliminate.R | 17 +- R/lintools-pkg.R | 7 build/vignette.rds |binary inst/doc/project.R | 14 - inst/doc/project.html | 333 +++++++++++++++++++++++++++++++++++-------- inst/tinytest/test_compact.R | 79 +++++++--- man/compact.Rd | 15 + man/eliminate.Rd | 12 + man/is_feasible.Rd | 3 man/lintools.Rd | 17 -- man/project.Rd | 11 + man/sparse_constraints.Rd | 3 man/sparse_project.Rd | 12 + 17 files changed, 439 insertions(+), 149 deletions(-)
Title: Modify Data Using Externally Defined Modification Rules
Description: Data cleaning scripts typically contain a lot of 'if this change that'
type of statements. Such statements are typically condensed expert knowledge.
With this package, such 'data modifying rules' are taken out of the code and
become in stead parameters to the work flow. This allows one to maintain, document,
and reason about data modification rules as separate entities.
Author: Mark van der Loo [cre, aut],
Edwin de Jonge [aut]
Maintainer: Mark van der Loo <mark.vanderloo@gmail.com>
Diff between dcmodify versions 0.1.2 dated 2018-07-30 and 0.1.5 dated 2021-04-29
dcmodify-0.1.2/dcmodify/tests/testthat |only dcmodify-0.1.2/dcmodify/tests/testthat.R |only dcmodify-0.1.2/dcmodify/vignettes/simple_log.csv |only dcmodify-0.1.5/dcmodify/DESCRIPTION | 10 dcmodify-0.1.5/dcmodify/MD5 | 23 - dcmodify-0.1.5/dcmodify/NEWS | 10 dcmodify-0.1.5/dcmodify/R/modify.R | 8 dcmodify-0.1.5/dcmodify/build/vignette.rds |binary dcmodify-0.1.5/dcmodify/inst/doc/introduction.R | 14 dcmodify-0.1.5/dcmodify/inst/doc/introduction.html | 426 ++++++++++++++++----- dcmodify-0.1.5/dcmodify/inst/tinytest |only dcmodify-0.1.5/dcmodify/man/dcmodify.Rd | 6 dcmodify-0.1.5/dcmodify/man/modify.Rd | 1 dcmodify-0.1.5/dcmodify/tests/tinytest.R |only 14 files changed, 368 insertions(+), 130 deletions(-)
Title: Simultaneous Inference in General Parametric Models
Description: Simultaneous tests and confidence intervals
for general linear hypotheses in parametric models, including
linear, generalized linear, linear mixed effects, and survival models.
The package includes demos reproducing analyzes presented
in the book "Multiple Comparisons Using R" (Bretz, Hothorn,
Westfall, 2010, CRC Press).
Author: Torsten Hothorn [aut, cre] (<https://orcid.org/0000-0001-8301-0471>),
Frank Bretz [aut],
Peter Westfall [aut],
Richard M. Heiberger [ctb],
Andre Schuetzenmeister [ctb],
Susan Scheibe [ctb]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between multcomp versions 1.4-16 dated 2021-02-08 and 1.4-17 dated 2021-04-29
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/helpers.R | 2 +- R/print.R | 4 ++-- build/vignette.rds |binary data/cholesterol.rda |binary data/litter.rda |binary inst/NEWS | 8 +++++++- inst/doc/chfls1.pdf |binary inst/doc/generalsiminf.pdf |binary inst/doc/multcomp-examples.pdf |binary man/mmm.Rd | 3 ++- tests/Examples/multcomp-Ex.Rout.save | 11 ++++++----- 13 files changed, 34 insertions(+), 26 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-08 1.9.4
2021-04-03 1.9.1
2020-09-01 1.8.3
2019-02-07 1.1.11
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-26 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-08 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-06 0.2.12
2020-05-13 0.2.10
2020-03-06 0.2.9
2019-12-17 0.2.8
2019-03-15 0.2.7
2018-08-15 0.2.6
2018-06-23 0.2.5
2018-03-28 0.2.4
2018-03-03 0.2.3
2017-09-27 0.2.2
2017-09-22 0.2.1
2017-09-17 0.2.0
2017-07-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-24 0.2.1
2020-11-17 0.2.0
2020-04-22 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-22 1.0.1
2017-06-20 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-12-07 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-19 1.4.12
2020-11-13 1.4.11
2020-05-12 1.4.10
2020-03-02 1.4.9
2019-03-27 1.4.8
2019-03-16 1.4.7
2019-01-27 1.4.6
2017-11-24 1.4.5
2017-09-01 1.4.4
2017-06-08 1.4.3
2017-04-09 1.4.2
2017-04-06 1.4.1
2017-04-03 1.4.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-08-25 1.0.1
2012-09-04 0.9.5
2012-08-30 0.9.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-07 0.1.6
2019-03-16 0.1.5
2018-04-19 0.1.4
2017-07-31 0.1.3
2017-04-06 0.1.2
2016-11-19 0.1.1
2016-04-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-10-29 1.3.3
2014-06-27 1.3.2
2014-01-03 1.3
2012-11-10 1.2-1
2012-09-12 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-04-04 1.4
2016-02-10 1.3
2015-09-28 1.2
2015-09-25 1.1
2015-09-24 1.0
Title: The hse Distribution
Description: Deprecated.
Author: Rolf Turner <r.turner@auckland.ac.nz>
Maintainer: Rolf Turner <r.turner@auckland.ac.nz>
Diff between hse versions 0.0-26 dated 2021-01-06 and 0.0-28 dated 2021-04-29
hse-0.0-26/hse/R/aHess.R |only hse-0.0-26/hse/R/dhse.R |only hse-0.0-26/hse/R/expValHse.R |only hse-0.0-26/hse/R/expValHse.default.R |only hse-0.0-26/hse/R/expValHse.mleHse.R |only hse-0.0-26/hse/R/finfo.R |only hse-0.0-26/hse/R/gof.R |only hse-0.0-26/hse/R/gradHess.R |only hse-0.0-26/hse/R/llPlot.R |only hse-0.0-26/hse/R/logLik.mleHse.R |only hse-0.0-26/hse/R/mcCovMat.R |only hse-0.0-26/hse/R/meHse.R |only hse-0.0-26/hse/R/mleHse.R |only hse-0.0-26/hse/R/nHess.R |only hse-0.0-26/hse/R/ndata.R |only hse-0.0-26/hse/R/phse.R |only hse-0.0-26/hse/R/plot.mleHse.R |only hse-0.0-26/hse/R/plotHse.R |only hse-0.0-26/hse/R/qhse.R |only hse-0.0-26/hse/R/rhse.R |only hse-0.0-26/hse/R/simulate.mleHse.R |only hse-0.0-26/hse/R/varHse.R |only hse-0.0-26/hse/R/varHse.default.R |only hse-0.0-26/hse/R/varHse.mleHse.R |only hse-0.0-26/hse/R/vcov.mleHse.R |only hse-0.0-26/hse/man |only hse-0.0-28/hse/ChangeLog | 23 ++++++++++++++++ hse-0.0-28/hse/DESCRIPTION | 20 +++----------- hse-0.0-28/hse/MD5 | 50 ++--------------------------------- hse-0.0-28/hse/NAMESPACE | 15 ---------- hse-0.0-28/hse/R/First.R |only 31 files changed, 32 insertions(+), 76 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-04-01 0.10.2
2015-07-10 0.10.0
2015-06-09 0.9.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-03 0.0.5
2021-02-24 0.0.4
2020-11-26 0.0.1
Title: Low-Level R to Java Interface
Description: Low-level interface to Java VM very much like .C/.Call and friends. Allows creation of objects, calling methods and accessing fields.
Author: Simon Urbanek <simon.urbanek@r-project.org>
Maintainer: Simon Urbanek <simon.urbanek@r-project.org>
Diff between rJava versions 0.9-13 dated 2020-07-06 and 1.0-4 dated 2021-04-29
DESCRIPTION | 10 MD5 | 193 ++++--- NEWS | 171 ++++--- R/0classes.R | 11 R/J.R | 19 R/call.R | 13 R/loader.R | 101 ++-- R/reflection.R | 61 +- inst/java/boot/RJavaClassLoader$RJavaObjectInputStream.class |binary inst/java/boot/RJavaClassLoader.class |binary inst/java/boot/RJavaClassLoader.java | 25 - inst/javadoc/ArrayDimensionException.html | 4 inst/javadoc/ArrayWrapper.html | 4 inst/javadoc/ArrayWrapper_Test.html | 4 inst/javadoc/DummyPoint.html | 4 inst/javadoc/FlatException.html | 4 inst/javadoc/NotAnArrayException.html | 4 inst/javadoc/NotComparableException.html | 4 inst/javadoc/ObjectArrayException.html | 4 inst/javadoc/PrimitiveArrayException.html | 4 inst/javadoc/RJavaArrayIterator.html | 4 inst/javadoc/RJavaArrayTools.ArrayDimensionMismatchException.html | 4 inst/javadoc/RJavaArrayTools.html | 4 inst/javadoc/RJavaArrayTools_Test.html | 4 inst/javadoc/RJavaClassLoader.html | 38 + inst/javadoc/RJavaComparator.html | 4 inst/javadoc/RJavaImport.html | 4 inst/javadoc/RJavaTools.html | 4 inst/javadoc/RJavaTools_Test.DummyNonStaticClass.html | 4 inst/javadoc/RJavaTools_Test.TestException.html | 4 inst/javadoc/RJavaTools_Test.html | 4 inst/javadoc/RectangularArrayBuilder.html | 4 inst/javadoc/RectangularArrayBuilder_Test.html | 4 inst/javadoc/RectangularArrayExamples.html | 4 inst/javadoc/RectangularArraySummary.html | 4 inst/javadoc/TestException.html | 4 inst/javadoc/allclasses-frame.html | 4 inst/javadoc/allclasses-noframe.html | 4 inst/javadoc/constant-values.html | 4 inst/javadoc/deprecated-list.html | 4 inst/javadoc/help-doc.html | 4 inst/javadoc/index-all.html | 11 inst/javadoc/index.html | 2 inst/javadoc/overview-tree.html | 4 inst/javadoc/package-frame.html | 4 inst/javadoc/package-summary.html | 4 inst/javadoc/package-tree.html | 4 inst/javadoc/serialized-form.html | 4 inst/jri/JRIEngine.jar |binary inst/jri/REngine.jar |binary jri/REngine/Makefile | 2 jri/REngine/README.md |only jri/REngine/Rserve/RConnection.java | 54 +- jri/REngine/Rserve/pom.xml | 57 +- jri/REngine/Rserve/src/test/java/org/rosuda/rserve/RserveTest.java | 6 jri/REngine/Rserve/test/test.java | 17 jri/REngine/pom.xml | 33 + jri/Rengine.java | 84 +-- jri/configure | 17 jri/configure.ac | 22 jri/configure.win | 10 jri/src/Rcallbacks.c | 2 jri/src/Rcallbacks.h | 7 jri/src/Rinit.c | 2 jri/src/rjava.c | 19 jri/src/rjava.h | 3 jri/tools/getsp.class |binary jri/tools/getsp.java | 19 man/J.Rd | 4 man/accessOp.Rd | 10 man/jarray.Rd | 8 man/jcall.Rd | 20 man/jcastToArray.Rd | 6 man/jcheck.Rd | 8 man/jfield.Rd | 4 man/jfloat.Rd | 23 man/jmemprof.Rd | 4 man/jnew.Rd | 6 man/jnull.Rd | 2 man/jpackage.Rd | 44 + man/jrectRef-class.Rd | 28 - man/jreflection.Rd | 14 man/jserialize.Rd | 2 man/loader.Rd | 49 +- man/toJava.Rd | 2 man/with.Rd | 2 src/Rglue.c | 242 ++++++++-- src/callJNI.c | 6 src/fields.c | 178 ++++--- src/init.c | 89 +-- src/java/RJavaClassLoader$RJavaObjectInputStream.class |binary src/java/RJavaClassLoader.class |binary src/java/RJavaClassLoader.java | 25 - src/jri_glue.c | 8 src/otables.c | 109 ++-- src/rJava.c | 103 ---- src/rJava.h | 9 src/tools.c | 4 98 files changed, 1309 insertions(+), 845 deletions(-)
Title: Convert Data among QTL Mapping Packages
Description: Functions to convert data structures among the 'qtl2', 'qtl', and 'DOQTL' packages for mapping quantitative trait loci (QTL).
Author: Karl W Broman [aut, cre] (<https://orcid.org/0000-0002-4914-6671>)
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtl2convert versions 0.22-7 dated 2020-07-01 and 0.24 dated 2021-04-29
DESCRIPTION | 11 +++++------ MD5 | 15 +++++++++------ NAMESPACE | 2 ++ NEWS.md | 18 +++++++++++++++++- R/cross2_do_to_genail8.R |only R/encode_geno.R | 2 +- README.md | 5 +++-- man/cross2_do_to_genail8.Rd |only man/qtl2convert-package.Rd | 2 +- tests/testthat/test-cross2_do_to_genail8.R |only 10 files changed, 38 insertions(+), 17 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-14 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-23 0.1.1
2021-04-15 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-16 1.2.5
2020-07-21 1.2.4
2020-06-02 1.2.3
2020-04-13 1.2.2
2020-03-19 1.2.1
2020-03-16 1.2.0
2019-10-30 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-22 1.2.4
Title: Versatile Curation of Table Metadata
Description: A YAML-based
mechanism for working with table metadata. Supports
compact syntax for creating, modifying, viewing, exporting,
importing, displaying, and plotting metadata coded as column
attributes. The 'yamlet' dialect is valid 'YAML' with
defaults and conventions chosen to improve readability.
See ?yamlet, ?decorate.data.frame and ?modify.default.
See ?read_yamlet ?write_yamlet, ?io_csv, and ?ggplot.decorated.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between yamlet versions 0.7.2 dated 2021-03-07 and 0.7.5 dated 2021-04-28
DESCRIPTION | 13 ++-- MD5 | 30 +++++------ NAMESPACE | 5 + R/ggplot.R | 2 R/ggplot_ggready.R | 3 + R/io_csv.R | 7 +- R/yamlet.R | 15 ++++- build/vignette.rds |binary inst/doc/yamlet-introduction.html | 36 ++++++------- man/ggplot_build.decorated_ggplot.Rd | 2 man/ggplot_build.ggready_ggplot.Rd | 2 man/io_csv.data.frame.Rd | 3 - man/to_yamlet.character.Rd | 5 + man/to_yamlet.list.Rd | 3 + tests/figs |only tests/testthat/Rplots.pdf |only tests/testthat/test-yamlet.R | 94 ++++++++++++++++++++++------------- 17 files changed, 135 insertions(+), 85 deletions(-)
Title: Recursive Partitioning for Structural Equation Models
Description: SEM Trees and SEM Forests -- an extension of model-based decision
trees and forests to Structural Equation Models (SEM). SEM trees hierarchically
split empirical data into homogeneous groups sharing similar data patterns
with respect to a SEM by recursively selecting optimal predictors of these
differences. SEM forests are an extension of SEM trees. They are ensembles of
SEM trees each built on a random sample of the original data. By aggregating
over a forest, we obtain measures of variable importance that are more robust
than measures from single trees.
Author: Andreas M. Brandmaier [aut, cre],
John J. Prindle [aut],
Manuel Arnold [aut]
Maintainer: Andreas M. Brandmaier <andy@brandmaier.de>
Diff between semtree versions 0.9.14 dated 2020-01-07 and 0.9.15 dated 2021-04-28
semtree-0.9.14/semtree/R/print.semtreeControl.R |only semtree-0.9.14/semtree/R/scoreTest.R |only semtree-0.9.14/semtree/R/scoreTestcensored.R |only semtree-0.9.14/semtree/man/distances.Rd |only semtree-0.9.14/semtree/man/merge.Rd |only semtree-0.9.14/semtree/man/prune.semtree.Rd |only semtree-0.9.15/semtree/DESCRIPTION | 19 semtree-0.9.15/semtree/MD5 | 263 +- semtree-0.9.15/semtree/NAMESPACE | 226 -- semtree-0.9.15/semtree/NEWS.md | 18 semtree-0.9.15/semtree/R/OpenMx_scores_input.R |only semtree-0.9.15/semtree/R/aggregateVarimp.R |only semtree-0.9.15/semtree/R/biodiversity.R | 13 semtree-0.9.15/semtree/R/bootstrap.R | 2 semtree-0.9.15/semtree/R/checkBinSize.R |only semtree-0.9.15/semtree/R/checkControl.R | 30 semtree-0.9.15/semtree/R/checkLevelOfMeasurement.R |only semtree-0.9.15/semtree/R/coef.R | 23 semtree-0.9.15/semtree/R/colmap.R | 1 semtree-0.9.15/semtree/R/computePval_maxLR.R |only semtree-0.9.15/semtree/R/diversityMatrix.R | 9 semtree-0.9.15/semtree/R/evaluate.semforest.R | 19 semtree-0.9.15/semtree/R/evaluateDataLikelihood.R | 194 + semtree-0.9.15/semtree/R/evaluateTree.R | 96 semtree-0.9.15/semtree/R/evaluateTreeConditional.R | 11 semtree-0.9.15/semtree/R/evaluateTreeFocus.R |only semtree-0.9.15/semtree/R/fairSplit.R | 1196 ++++++------ semtree-0.9.15/semtree/R/findOtherSplits.R | 17 semtree-0.9.15/semtree/R/fitSubmodels.R | 497 +++- semtree-0.9.15/semtree/R/gefp_semtree.R |only semtree-0.9.15/semtree/R/getHeight.R | 25 semtree-0.9.15/semtree/R/getLeafs.R | 17 semtree-0.9.15/semtree/R/getNodeById.R | 12 semtree-0.9.15/semtree/R/getNumNodes.R | 10 semtree-0.9.15/semtree/R/getTerminalNodes.R | 15 semtree-0.9.15/semtree/R/growTree.R | 226 +- semtree-0.9.15/semtree/R/hellinger.R | 2 semtree-0.9.15/semtree/R/indexing.R | 3 semtree-0.9.15/semtree/R/isLeaf.R | 11 semtree-0.9.15/semtree/R/kl.R | 14 semtree-0.9.15/semtree/R/logLik.R | 1 semtree-0.9.15/semtree/R/mergeForests.R | 16 semtree-0.9.15/semtree/R/modelEstimates.R | 21 semtree-0.9.15/semtree/R/mxAddNewModelData.R | 1 semtree-0.9.15/semtree/R/mxScores.R |only semtree-0.9.15/semtree/R/naiveSplit.R | 34 semtree-0.9.15/semtree/R/naiveSplitScoreTest.R | 283 +- semtree-0.9.15/semtree/R/nobs.MxRAMModel.R |only semtree-0.9.15/semtree/R/nobs.R | 1 semtree-0.9.15/semtree/R/outliers.R | 14 semtree-0.9.15/semtree/R/parameters.R | 22 semtree-0.9.15/semtree/R/partialDependencePlot.R | 23 semtree-0.9.15/semtree/R/plot.diversityMatrix.R | 1 semtree-0.9.15/semtree/R/plot.proximity.R | 1 semtree-0.9.15/semtree/R/plot.semforest.varimp.R | 2 semtree-0.9.15/semtree/R/plot.semtree.R | 295 +- semtree-0.9.15/semtree/R/plot.varimpConvergence.R | 2 semtree-0.9.15/semtree/R/postprocess.R | 5 semtree-0.9.15/semtree/R/print.semforest.R | 1 semtree-0.9.15/semtree/R/print.semforest.control.R | 1 semtree-0.9.15/semtree/R/print.semforest.varimp.R | 2 semtree-0.9.15/semtree/R/print.semtree.control.R | 44 semtree-0.9.15/semtree/R/print.summary.semtree.R | 1 semtree-0.9.15/semtree/R/proximity.R | 26 semtree-0.9.15/semtree/R/prune.R | 25 semtree-0.9.15/semtree/R/prune.semforest.R | 1 semtree-0.9.15/semtree/R/prune.semtree.R | 1 semtree-0.9.15/semtree/R/replaceParametersInMxConstraints.R |only semtree-0.9.15/semtree/R/scaled_cutpoint.R |only semtree-0.9.15/semtree/R/sctest_info.R |only semtree-0.9.15/semtree/R/se.R | 89 semtree-0.9.15/semtree/R/semforest.R | 274 +- semtree-0.9.15/semtree/R/semforest.control.R | 22 semtree-0.9.15/semtree/R/semtree-package.R |only semtree-0.9.15/semtree/R/semtree.R | 384 ++- semtree-0.9.15/semtree/R/semtree.apply.wrapper.R | 7 semtree-0.9.15/semtree/R/semtree.control.R | 259 ++ semtree-0.9.15/semtree/R/semtreeApplyWrapper.R | 87 semtree-0.9.15/semtree/R/subforest.R | 19 semtree-0.9.15/semtree/R/subtree.R | 22 semtree-0.9.15/semtree/R/summary.semforest.R | 1 semtree-0.9.15/semtree/R/summary.semtree.R | 1 semtree-0.9.15/semtree/R/toTable.R | 24 semtree-0.9.15/semtree/R/traverse.R | 13 semtree-0.9.15/semtree/R/tree.constraints.R | 34 semtree-0.9.15/semtree/R/ui.R |only semtree-0.9.15/semtree/R/varimp-convergence-plot.R | 3 semtree-0.9.15/semtree/R/varimp.R | 196 - semtree-0.9.15/semtree/R/varimpFocus.R |only semtree-0.9.15/semtree/R/varimpTree.R |only semtree-0.9.15/semtree/R/vcov_semtree.R |only semtree-0.9.15/semtree/README.md | 63 semtree-0.9.15/semtree/build/vignette.rds |binary semtree-0.9.15/semtree/inst/doc/constraints.R | 9 semtree-0.9.15/semtree/inst/doc/constraints.Rmd | 15 semtree-0.9.15/semtree/inst/doc/constraints.html | 900 +++++---- semtree-0.9.15/semtree/inst/doc/forests.R |only semtree-0.9.15/semtree/inst/doc/forests.Rmd |only semtree-0.9.15/semtree/inst/doc/forests.html |only semtree-0.9.15/semtree/inst/doc/getting-started.Rmd | 2 semtree-0.9.15/semtree/inst/doc/getting-started.html | 643 +++--- semtree-0.9.15/semtree/inst/doc/score-based-tests.R |only semtree-0.9.15/semtree/inst/doc/score-based-tests.Rmd |only semtree-0.9.15/semtree/inst/doc/score-based-tests.html |only semtree-0.9.15/semtree/inst/doc/semforest-focus.R |only semtree-0.9.15/semtree/inst/doc/semforest-focus.Rmd |only semtree-0.9.15/semtree/inst/doc/semforest-focus.html |only semtree-0.9.15/semtree/man/biodiversity.Rd | 36 semtree-0.9.15/semtree/man/coef.semtree.Rd |only semtree-0.9.15/semtree/man/computePval_maxLR.Rd |only semtree-0.9.15/semtree/man/diversityMatrix.Rd | 12 semtree-0.9.15/semtree/man/evaluate.Rd | 49 semtree-0.9.15/semtree/man/evaluateDataLikelihood.Rd | 78 semtree-0.9.15/semtree/man/evaluateTree.Rd | 65 semtree-0.9.15/semtree/man/findOtherSplits.Rd | 43 semtree-0.9.15/semtree/man/fitSubmodels.Rd |only semtree-0.9.15/semtree/man/getDepth.Rd | 29 semtree-0.9.15/semtree/man/getHeight.Rd | 29 semtree-0.9.15/semtree/man/getLeafs.Rd | 37 semtree-0.9.15/semtree/man/getNodeById.Rd | 30 semtree-0.9.15/semtree/man/getNumNodes.Rd | 23 semtree-0.9.15/semtree/man/getTerminalNodes.Rd | 22 semtree-0.9.15/semtree/man/isLeaf.Rd | 29 semtree-0.9.15/semtree/man/kl.Rd |only semtree-0.9.15/semtree/man/lgcm.Rd | 30 semtree-0.9.15/semtree/man/merge.semforest.Rd |only semtree-0.9.15/semtree/man/modelEstimates.Rd | 37 semtree-0.9.15/semtree/man/outliers.Rd | 30 semtree-0.9.15/semtree/man/parameters.Rd | 61 semtree-0.9.15/semtree/man/partialDependence.Rd | 41 semtree-0.9.15/semtree/man/proximity.Rd | 64 semtree-0.9.15/semtree/man/prune.Rd |only semtree-0.9.15/semtree/man/se.Rd | 60 semtree-0.9.15/semtree/man/semforest.Rd | 85 semtree-0.9.15/semtree/man/semforest.control.Rd | 52 semtree-0.9.15/semtree/man/semtree.Rd | 182 - semtree-0.9.15/semtree/man/semtree.constraints.Rd | 62 semtree-0.9.15/semtree/man/semtree.control.Rd | 230 +- semtree-0.9.15/semtree/man/subforest.Rd | 41 semtree-0.9.15/semtree/man/subtree.Rd | 73 semtree-0.9.15/semtree/man/toTable.Rd | 26 semtree-0.9.15/semtree/man/varimp.Rd | 76 semtree-0.9.15/semtree/tests/invariance.R | 13 semtree-0.9.15/semtree/tests/lavaan.R | 6 semtree-0.9.15/semtree/tests/scores.R |only semtree-0.9.15/semtree/tests/testthat |only semtree-0.9.15/semtree/tests/tree.R | 4 semtree-0.9.15/semtree/tests/vim.R | 7 semtree-0.9.15/semtree/vignettes/constraints.Rmd | 15 semtree-0.9.15/semtree/vignettes/forests.Rmd |only semtree-0.9.15/semtree/vignettes/getting-started.Rmd | 2 semtree-0.9.15/semtree/vignettes/score-based-tests.Rmd |only semtree-0.9.15/semtree/vignettes/semforest-focus.Rmd |only 153 files changed, 5021 insertions(+), 3518 deletions(-)
Title: Database Storage of Genotype Probabilities for QTL Mapping
Description: Uses the 'fst' package to store genotype probabilities on disk for the 'qtl2' package. These genotype probabilities are a central data object for mapping quantitative trait loci (QTL), but they can be quite large. The facilities in this package enable the genotype probabilities to be stored on disk, leading to reduced memory usage with only a modest increase in computation time.
Author: Karl W Broman [aut, cre] (<https://orcid.org/0000-0002-4914-6671>),
Brian S Yandell [aut] (<https://orcid.org/0000-0002-8774-9377>),
Petr Simecek [aut] (<https://orcid.org/0000-0002-2922-7183>)
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtl2fst versions 0.22-7 dated 2020-07-30 and 0.24 dated 2021-04-28
DESCRIPTION | 11 - MD5 | 18 + NEWS.md | 17 + README.md | 15 + build/vignette.rds |binary inst/doc/qtl2fst.Rmd | 8 inst/doc/qtl2fst.html | 344 ++++++++------------------------- tests/testthat/test-calc_entropy.R |only tests/testthat/test-calc_geno_freq.R |only tests/testthat/test-calc_het.R |only tests/testthat/test-compare_genoprob.R |only vignettes/qtl2fst.Rmd | 8 12 files changed, 145 insertions(+), 276 deletions(-)
Title: Depth Importance in Precision Medicine (DIPM) Method
Description: An implementation of the Depth Importance in Precision Medicine (DIPM) method
in Chen and Zhang (2020) <doi:10.1093/biostatistics/kxaa021> and Chen and
Zhang (2020) <doi:10.1007/978-3-030-46161-4_16>. The DIPM method is a classification
tree that searches for subgroups with especially poor or strong performance in a given treatment group.
Author: Cai Li [aut, cre],
Victoria Chen [aut],
Heping Zhang [aut]
Maintainer: Cai Li <cai.li@yale.edu>
Diff between dipm versions 1.1 dated 2021-03-06 and 1.2 dated 2021-04-28
dipm-1.1/dipm/man/coxph_R_to_C.Rd |only dipm-1.1/dipm/man/coxph_R_to_C_multi.Rd |only dipm-1.1/dipm/man/lm_R_to_C.Rd |only dipm-1.1/dipm/man/predict_dipm.Rd |only dipm-1.2/dipm/DESCRIPTION | 9 - dipm-1.2/dipm/MD5 | 30 ++-- dipm-1.2/dipm/NAMESPACE | 2 dipm-1.2/dipm/R/coxph_R_to_C.R | 2 dipm-1.2/dipm/R/coxph_R_to_C_multi.R | 6 dipm-1.2/dipm/R/dipm.R | 10 + dipm-1.2/dipm/R/ini_node.R | 90 ------------- dipm-1.2/dipm/R/lm_R_to_C.R | 6 dipm-1.2/dipm/R/print.dipm.R | 24 +-- dipm-1.2/dipm/R/spmtree.R | 10 + dipm-1.2/dipm/man/dipm.Rd | 3 dipm-1.2/dipm/man/spmtree.Rd | 3 dipm-1.2/dipm/src/dipm.c | 207 ++++++++++++++++++-------------- dipm-1.2/dipm/src/dipm_init.c | 4 18 files changed, 181 insertions(+), 225 deletions(-)
Title: Concordance Correlation Coefficient for Repeated (and
Non-Repeated) Measures
Description: Estimates the Concordance Correlation Coefficient to assess agreement. The scenarios considered are non-repeated measures, non-longitudinal repeated measures (replicates) and longitudinal repeated measures. It also includes the estimation of the one-way intraclass correlation coefficient also known as reliability index. The estimation approaches implemented are variance components and U-statistics approaches. Description of methods can be found in Fleiss (1986) <doi:10.1002/9781118032923.ch1> and Carrasco et al. (2013) <doi:10.1016/j.cmpb.2012.09.002>.
Author: Josep Lluis Carrasco <jlcarrasco@ub.edu>, Josep Puig Martinez
<j.puig04@gmail.com>
Maintainer: Josep Lluis Carrasco <jlcarrasco@ub.edu>
Diff between cccrm versions 2.0.2 dated 2021-04-16 and 2.0.3 dated 2021-04-28
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/extra_func.R | 2 +- R/icc.R | 9 ++++++--- man/icc.Rd | 12 +++++++++--- 5 files changed, 25 insertions(+), 16 deletions(-)
Title: API Client and Dataset Management for the Demographic and Health
Survey (DHS) Data
Description: Provides a client for (1) querying the DHS API for survey indicators
and metadata (<https://api.dhsprogram.com/#/index.html>), (2) identifying surveys
and datasets for analysis, (3) downloading survey datasets from the DHS website,
(4) loading datasets and associate metadata into R, and (5) extracting variables
and combining datasets for pooled analysis.
Author: OJ Watson [aut, cre] (<https://orcid.org/0000-0003-2374-0741>),
Jeff Eaton [aut] (<https://orcid.org/0000-0001-7728-728X>),
Lucy D'Agostino McGowan [rev] (<https://orcid.org/0000-0001-7297-9359>),
Duncan Gillespie [rev]
Maintainer: OJ Watson <oj.watson@hotmail.co.uk>
Diff between rdhs versions 0.7.1 dated 2020-12-01 and 0.7.2 dated 2021-04-28
rdhs-0.7.1/rdhs/tests/testthat/demo |only rdhs-0.7.2/rdhs/DESCRIPTION | 8 - rdhs-0.7.2/rdhs/MD5 | 88 +------------------- rdhs-0.7.2/rdhs/NEWS.md | 4 rdhs-0.7.2/rdhs/R/authentication.R | 13 ++ rdhs-0.7.2/rdhs/build/vignette.rds |binary rdhs-0.7.2/rdhs/inst/doc/toolkit.Rmd | 2 rdhs-0.7.2/rdhs/inst/doc/toolkit.html | 2 rdhs-0.7.2/rdhs/tests/testthat/test_miscellaneous.R | 1 rdhs-0.7.2/rdhs/vignettes/toolkit.Rmd | 2 10 files changed, 33 insertions(+), 87 deletions(-)
Title: Analysis of Single-Cell Chromatin Data
Description: A framework for the analysis and exploration of single-cell chromatin data.
The 'Signac' package contains functions for quantifying single-cell chromatin data,
computing per-cell quality control metrics, dimension reduction
and normalization, visualization, and DNA sequence motif analysis.
Reference: Stuart et al. (2020) <doi:10.1101/2020.11.09.373613>.
Author: Tim Stuart [aut, cre] (<https://orcid.org/0000-0002-3044-0897>),
Avi Srivastava [aut] (<https://orcid.org/0000-0001-9798-2079>),
Paul Hoffman [ctb] (<https://orcid.org/0000-0002-7693-8957>),
Rahul Satija [ctb] (<https://orcid.org/0000-0001-9448-8833>)
Maintainer: Tim Stuart <tstuart@nygenome.org>
Diff between Signac versions 1.1.1 dated 2021-02-03 and 1.2.0 dated 2021-04-28
DESCRIPTION | 24 +- MD5 | 45 ++-- NAMESPACE | 18 + NEWS.md | 37 +++ R/footprinting.R | 23 +- R/fragments.R | 2 R/links.R | 76 ++++++- R/mito.R | 1 R/motifs.R | 4 R/objects.R | 92 +++++---- R/peaks.R | 7 R/preprocessing.R | 154 +++++++++------ R/quantification.R | 34 ++- R/utilities.R | 252 ++++++++++++++++--------- R/visualization.R | 477 +++++++++++++++++++++++++++++++++++++++++++++--- README.md | 4 build/partial.rdb |binary man/BigwigTrack.Rd |only man/CoveragePlot.Rd | 33 +++ man/GeneActivity.Rd | 13 + man/GetCellsInRegion.Rd | 6 man/GetTSSPositions.Rd | 5 man/LinkPeaks.Rd | 19 + man/NucleosomeSignal.Rd | 2 24 files changed, 1037 insertions(+), 291 deletions(-)
Title: R Analyzer for Large-Scale Assessments
Description: Prepare and analyze data from large-scale assessments and surveys with
complex sampling and assessment design (see 'Rutkowski', 2010
<doi:10.3102/0013189X10363170>). Such studies are, for example,
international assessments like 'TIMSS', 'PIRLS' and 'PISA'. A graphical
interface is available for the non-technical user.The package includes
functions to covert the original data from 'SPSS' into 'R' data sets
keeping the user-defined missing values, merge data from different
respondents and/or countries, generate variable dictionaries, modify
data, produce descriptive statistics (percentages, means, percentiles,
benchmarks) and multivariate statistics (correlations, linear
regression, binary logistic regression). The number of supported
studies and analysis types will increase in future.
Author: Plamen V. Mirazchiyski [aut, cre],
INERI [aut]
Maintainer: Plamen V. Mirazchiyski <plamen.mirazchiyski@ineri.org>
Diff between RALSA versions 0.90.3 dated 2021-03-15 and 1.0.0 dated 2021-04-28
DESCRIPTION | 9 MD5 | 40 +- NAMESPACE | 3 NEWS.md | 42 ++ R/RALSA.r | 7 R/common.r | 451 +++++++++++++++++++++--- R/lsa.bench.r | 38 +- R/lsa.bin.log.reg.r | 21 + R/lsa.convert.data.r | 4 R/lsa.corr.r | 8 R/lsa.data.diag.r |only R/lsa.lin.reg.r | 10 R/lsa.merge.data.r | 6 R/lsa.pcts.means.r | 11 R/lsa.prctls.r | 26 + R/lsa.recode.vars.r | 7 R/lsa.vars.dict.r | 3 inst/shiny/GUI/server.r | 873 +++++++++++++++++++++++++++++++++++++++--------- inst/shiny/GUI/ui.r | 449 +++++++++++++++++------- man/RALSA.Rd | 3 man/lsa.data.diag.Rd |only man/lsa.pcts.means.Rd | 6 22 files changed, 1624 insertions(+), 393 deletions(-)
Title: Continuous Analog of a Binomial Distribution
Description: Implementation of the d/p/q/r family of functions for a continuous analog to the standard discrete binomial with continuous size parameter and continuous support with x in [0, size + 1], following Ilienko (2013) <arXiv:1303.5990>.
Author: Dan Dalthorp
Maintainer: Dan Dalthorp <ddalthorp@protonmail.com>
Diff between cbinom versions 1.5 dated 2020-11-22 and 1.6 dated 2021-04-28
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- R/RcppExports.R | 30 +++++++++++++++--------------- man/cbinom-package.Rd | 3 +-- src/cbinom.cpp | 3 +++ 5 files changed, 28 insertions(+), 26 deletions(-)
Title: Create Maps and Visualize Data in 2D and 3D
Description: Uses a combination of raytracing and multiple hill shading methods to produce 2D and 3D data visualizations and maps. Includes water detection and layering functions, programmable color palette generation, several built-in textures for hill shading, 2D and 3D plotting options, a built-in path tracer, 'Wavefront' OBJ file export, and the ability to save 3D visualizations to a 3D printable format.
Author: Tyler Morgan-Wall
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayshader versions 0.24.5 dated 2021-04-11 and 0.24.10 dated 2021-04-28
DESCRIPTION | 8 +- MD5 | 120 +++++++++++++++++++------------------- R/add_overlay.R | 7 +- R/data.R | 6 - R/generate_altitude_overlay.R | 3 R/generate_compass_overlay.R | 3 R/generate_contour_overlay.R | 3 R/generate_label_overlay.R | 3 R/generate_line_overlay.R | 3 R/generate_point_overlay.R | 2 R/generate_polygon_overlay.R | 3 R/generate_scalebar_overlay.R | 3 R/generate_waterline_overlay.R | 5 + R/make_base.R | 3 R/plot_3d.R | 2 R/plot_gg.R | 37 +++++------ R/raster_to_matrix.R | 2 R/render_camera.R | 3 R/render_compass.R | 3 R/render_depth.R | 7 ++ R/render_highquality.R | 14 ++-- R/render_label.R | 2 R/render_movie.R | 2 R/render_path.R | 2 R/render_points.R | 2 R/render_polygons.R | 2 R/render_scalebar.R | 2 R/render_snapshot.R | 14 ++-- R/render_water.R | 2 R/save_3dprint.R | 2 R/save_obj.R | 31 ++++----- man/add_overlay.Rd | 7 +- man/generate_altitude_overlay.Rd | 3 man/generate_compass_overlay.Rd | 3 man/generate_contour_overlay.Rd | 3 man/generate_label_overlay.Rd | 3 man/generate_line_overlay.Rd | 3 man/generate_point_overlay.Rd | 2 man/generate_polygon_overlay.Rd | 3 man/generate_scalebar_overlay.Rd | 3 man/generate_waterline_overlay.Rd | 5 + man/monterey_counties_sf.Rd | 2 man/monterey_roads_sf.Rd | 2 man/montereybay.Rd | 2 man/plot_3d.Rd | 2 man/plot_gg.Rd | 37 +++++------ man/raster_to_matrix.Rd | 2 man/render_camera.Rd | 3 man/render_compass.Rd | 3 man/render_depth.Rd | 3 man/render_highquality.Rd | 2 man/render_label.Rd | 2 man/render_movie.Rd | 2 man/render_path.Rd | 2 man/render_points.Rd | 2 man/render_polygons.Rd | 2 man/render_scalebar.Rd | 2 man/render_snapshot.Rd | 11 +-- man/render_water.Rd | 2 man/save_3dprint.Rd | 2 man/save_obj.Rd | 2 61 files changed, 267 insertions(+), 156 deletions(-)
Title: Various Tools and Data for Quantitative Peace Science
Description: These are useful tools and data sets for the study of quantitative
peace science. The goal for this package is to include tools and data sets
for doing original research that mimics well what a user would have to previously
get from a software package that may not be well-sourced or well-supported.
Those software bundles were useful the extent to which they encourage replications
of long-standing analyses by starting the data-generating process from scratch. However,
a lot of the functionality can be done relatively quickly and more transparently
in the R programming language.
Author: Steve Miller [aut, cre] (<https://orcid.org/0000-0003-4072-6263>)
Maintainer: Steve Miller <steven.v.miller@gmail.com>
Diff between peacesciencer versions 0.2.0 dated 2021-03-05 and 0.3.0 dated 2021-04-28
DESCRIPTION | 8 - MD5 | 104 +++++++++++------- NEWS.md | 18 +++ R/add_archigos.R |only R/add_atop_alliance.R |only R/add_capital_distance.R | 27 +++- R/add_contiguity.R | 21 +++ R/add_cow_alliance.R | 17 ++- R/add_cow_majors.R | 28 ++++ R/add_cow_trade.R | 27 ++++ R/add_democracy.R | 26 ++++ R/add_gwcode_to_cow.R | 30 ++++- R/add_igos.R | 27 ++++ R/add_mids.R | 17 ++- R/add_minimum_distance.R |only R/add_nmc.R | 28 ++++ R/add_sdp_gdp.R |only R/add_ucdp_onsets.R |only R/create_dyadyears.R | 2 R/create_statedays.R | 4 R/create_stateyears.R | 4 R/data.R | 186 +++++++++++++++++++++++++++++++-- R/filter_prd.R | 24 +++- R/zzz.R | 4 README.md | 94 ++++++++++++---- build/partial.rdb |binary data/archigos.rda |only data/atop_alliance.rda |only data/ccode_democracy.rda |binary data/citations.rda |binary data/cow_alliance.rda |binary data/cow_sdp_gdp.rda |only data/gw_sdp_gdp.rda |only data/ucdp_acd.rda |only data/ucdp_onsets.rda |only man/add_archigos.Rd |only man/add_atop_alliance.Rd |only man/add_capital_distance.Rd | 5 man/add_contiguity.Rd | 4 man/add_cow_alliance.Rd | 5 man/add_cow_majors.Rd | 5 man/add_cow_trade.Rd | 5 man/add_democracy.Rd | 5 man/add_gwcode_to_cow.Rd | 6 - man/add_igos.Rd | 5 man/add_mids.Rd | 3 man/add_minimum_distance.Rd |only man/add_nmc.Rd | 5 man/add_sdp_gdp.Rd |only man/add_ucdp_onsets.Rd |only man/archigos.Rd |only man/atop_alliance.Rd |only man/ccode_democracy.Rd | 2 man/cow_alliance.Rd | 8 - man/cow_sdp_gdp.Rd |only man/cow_trade_sy.Rd | 2 man/create_dyadyears.Rd | 2 man/create_statedays.Rd | 4 man/create_stateyears.Rd | 4 man/filter_prd.Rd | 5 man/gw_sdp_gdp.Rd |only man/ucdp_acd.Rd |only man/ucdp_onsets.Rd |only tests/testthat/test_nodamnduplicates.R | 9 + 64 files changed, 617 insertions(+), 163 deletions(-)
Title: Access the System Credential Store from R
Description: Platform independent 'API' to access the operating system's
credential store. Currently supports: 'Keychain' on 'macOS', Credential
Store on 'Windows', the Secret Service 'API' on 'Linux', and a simple,
platform independent store implemented with environment variables.
Additional storage back-ends can be added easily.
Author: Gábor Csárdi [aut, cre],
Alec Wong [ctb],
RStudio [cph]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between keyring versions 1.1.0 dated 2018-07-16 and 1.2.0 dated 2021-04-28
keyring-1.1.0/keyring/man/keyring.Rd |only keyring-1.1.0/keyring/tests/testthat/RkeyringtestAInJgFhN.lck |only keyring-1.1.0/keyring/tests/testthat/RkeyringtestJjqIoCFx |only keyring-1.1.0/keyring/tests/testthat/RkeyringtestJjqIoCFx.lck |only keyring-1.1.0/keyring/tests/testthat/RkeyringtestUStFddkA.lck |only keyring-1.1.0/keyring/tests/testthat/RkeyringtestoOrHMNgB.lck |only keyring-1.1.0/keyring/tests/testthat/RkeyringtestqEwLpisK.lck |only keyring-1.2.0/keyring/DESCRIPTION | 16 - keyring-1.2.0/keyring/MD5 | 84 +++--- keyring-1.2.0/keyring/NAMESPACE | 2 keyring-1.2.0/keyring/NEWS.md | 19 + keyring-1.2.0/keyring/R/api.R | 40 +++ keyring-1.2.0/keyring/R/backend-class.R | 5 keyring-1.2.0/keyring/R/backend-env.R | 12 keyring-1.2.0/keyring/R/backend-file.R | 86 +++++- keyring-1.2.0/keyring/R/backend-macos.R | 34 +- keyring-1.2.0/keyring/R/backend-secret-service.R | 42 ++- keyring-1.2.0/keyring/R/backend-wincred.R | 97 ++++++- keyring-1.2.0/keyring/R/default_backend.R | 4 keyring-1.2.0/keyring/R/package.R | 8 keyring-1.2.0/keyring/R/pass.R | 9 keyring-1.2.0/keyring/R/utils.R | 40 +++ keyring-1.2.0/keyring/README.md | 126 +++++----- keyring-1.2.0/keyring/cleanup | 2 keyring-1.2.0/keyring/configure | 8 keyring-1.2.0/keyring/inst/development-notes.md | 2 keyring-1.2.0/keyring/man/b_wincred_decode.Rd |only keyring-1.2.0/keyring/man/b_wincred_decode_auto.Rd |only keyring-1.2.0/keyring/man/b_wincred_get.Rd | 6 keyring-1.2.0/keyring/man/b_wincred_set_with_raw_value.Rd | 21 + keyring-1.2.0/keyring/man/backend.Rd | 7 keyring-1.2.0/keyring/man/backend_env.Rd | 18 - keyring-1.2.0/keyring/man/backend_file.Rd | 18 - keyring-1.2.0/keyring/man/backend_keyrings.Rd | 6 keyring-1.2.0/keyring/man/backend_macos.Rd | 20 - keyring-1.2.0/keyring/man/backend_secret_service.Rd | 19 - keyring-1.2.0/keyring/man/backend_wincred.Rd | 19 - keyring-1.2.0/keyring/man/backends.Rd | 1 keyring-1.2.0/keyring/man/has_keyring_support.Rd | 2 keyring-1.2.0/keyring/man/key_get.Rd | 49 +++ keyring-1.2.0/keyring/man/keyring-package.Rd |only keyring-1.2.0/keyring/src/init.c |only keyring-1.2.0/keyring/src/keyring_macos.c | 81 ++++-- keyring-1.2.0/keyring/src/keyring_secret_service.c | 111 ++++---- keyring-1.2.0/keyring/src/keyring_wincred.c | 43 ++- keyring-1.2.0/keyring/tests/testthat/test-common.R | 16 + keyring-1.2.0/keyring/tests/testthat/test-default-backend.R | 4 keyring-1.2.0/keyring/tests/testthat/test-encoding.R |only keyring-1.2.0/keyring/tests/testthat/test-file.R | 14 - 49 files changed, 714 insertions(+), 377 deletions(-)
Title: Tool for Diagnosis of Tables Joins and Complementary Join
Features
Description: Tool for diagnosing table joins. It combines the speed
`data.table`, the flexibility of `dplyr`, and the diagnosis and features of
the `merge` command in `Stata`.
Author: R.Andres Castaneda [aut, cre]
Maintainer: R.Andres Castaneda <acastanedaa@worldbank.org>
Diff between joyn versions 0.0.1 dated 2021-04-02 and 0.1.3 dated 2021-04-28
joyn-0.0.1/joyn/R/join_consistency.R |only joyn-0.0.1/joyn/data |only joyn-0.1.3/joyn/DESCRIPTION | 13 - joyn-0.1.3/joyn/MD5 | 53 ++-- joyn-0.1.3/joyn/NAMESPACE | 19 + joyn-0.1.3/joyn/NEWS.md | 22 + joyn-0.1.3/joyn/R/data.R | 17 + joyn-0.1.3/joyn/R/freq_table.R |only joyn-0.1.3/joyn/R/is_id.R |only joyn-0.1.3/joyn/R/merge.R | 113 +++++---- joyn-0.1.3/joyn/R/possible_ids.R |only joyn-0.1.3/joyn/R/sysdata.rda |only joyn-0.1.3/joyn/R/zzz.R | 3 joyn-0.1.3/joyn/README.md | 167 +++++++------- joyn-0.1.3/joyn/build/vignette.rds |binary joyn-0.1.3/joyn/inst/doc/advanced-use.R | 2 joyn-0.1.3/joyn/inst/doc/advanced-use.Rmd | 11 joyn-0.1.3/joyn/inst/doc/advanced-use.html | 92 ++++---- joyn-0.1.3/joyn/inst/doc/general-use.R | 2 joyn-0.1.3/joyn/inst/doc/general-use.Rmd | 32 +- joyn-0.1.3/joyn/inst/doc/general-use.html | 238 ++++++++++++--------- joyn-0.1.3/joyn/man/freq_table.Rd |only joyn-0.1.3/joyn/man/is_id.Rd |only joyn-0.1.3/joyn/man/possible_ids.Rd |only joyn-0.1.3/joyn/tests/testthat/test-freq_table.R |only joyn-0.1.3/joyn/tests/testthat/test-is_id.R |only joyn-0.1.3/joyn/tests/testthat/test-merge.R | 68 +++++- joyn-0.1.3/joyn/tests/testthat/test-possible_ids.R |only joyn-0.1.3/joyn/vignettes/advanced-use.Rmd | 11 joyn-0.1.3/joyn/vignettes/general-use.Rmd | 32 +- 30 files changed, 540 insertions(+), 355 deletions(-)
Title: Statistical Tests and Graphics for Hardy-Weinberg Equilibrium
Description: Contains tools for exploring Hardy-Weinberg equilibrium (Hardy, 1908; Weinberg, 1908) <doi:10.1126/science.28.706.49> for bi and multi-allelic genetic marker data. All classical tests (chi-square, exact, likelihood-ratio and permutation tests) with bi-allelic variants are included in the package, as well as functions for power computation and for the simulation of marker data under equilibrium and disequilibrium. Routines for dealing with markers on the X-chromosome are included (Graffelman & Weir, 2016) <doi: 10.1038/hdy.2016.20>, including Bayesian procedures. Some exact and permutation procedures also work with multi-allelic variants. Special test procedures that jointly address Hardy-Weinberg equilibrium and equality of allele frequencies in both sexes are supplied, for the bi and multi-allelic case. Functions for testing equilibrium in the presence of missing data by using multiple imputation are also provided. Implements several graphics for exploring the equilibrium status of a large set of bi-allelic markers: ternary plots with acceptance regions, log-ratio plots and Q-Q plots.
Author: Jan Graffelman [aut, cre],
Christopher Chang [ctb],
Xavi Puig [ctb],
Jan Wigginton [ctb],
Leonardo Ortoleva [ctb],
William R. Engels [ctb]
Maintainer: Jan Graffelman <jan.graffelman@upc.edu>
Diff between HardyWeinberg versions 1.7.1 dated 2021-01-04 and 1.7.2 dated 2021-04-28
DESCRIPTION | 8 MD5 | 30 +- NAMESPACE | 3 R/AllelesToTriangular.R |only R/HWPerm.mult.R | 458 ++++++++++--------------------------------- build/partial.rdb |binary build/vignette.rds |binary data/NistSTRs.rda |only data/TSIXTriAllelics.rda |binary inst/doc/HardyWeinberg.R | 12 + inst/doc/HardyWeinberg.Rnw | 18 + inst/doc/HardyWeinberg.pdf |binary man/AllelesToTriangular.Rd |only man/HWPerm.mult.Rd | 12 + man/HardyWeinberg-package.Rd | 4 man/NistSTRs.Rd |only man/TSIXTriAllelics.Rd | 20 - vignettes/HardyWeinberg.Rnw | 18 + 18 files changed, 196 insertions(+), 387 deletions(-)
Title: Access the 'Windsor.ai' API
Description: Collect multichannel marketing data from sources such as Google analytics, Facebook Ads, and many others using the 'Windsor.ai' API <https://www.windsor.ai/api-fields/>.
Author: Novica Nakov [aut, cre],
Windsor.ai [cph]
Maintainer: Novica Nakov <nnovica@gmail.com>
Diff between windsoraiR versions 0.1.0 dated 2021-04-21 and 0.1.1 dated 2021-04-28
windsoraiR-0.1.0/windsoraiR/inst/doc/windsoraiR.R |only windsoraiR-0.1.0/windsoraiR/inst/doc/windsoraiR.Rmd |only windsoraiR-0.1.0/windsoraiR/inst/doc/windsoraiR.html |only windsoraiR-0.1.0/windsoraiR/vignettes/windsoraiR.Rmd |only windsoraiR-0.1.1/windsoraiR/DESCRIPTION | 10 +++++----- windsoraiR-0.1.1/windsoraiR/MD5 | 14 +++++++------- windsoraiR-0.1.1/windsoraiR/NEWS.md | 6 ++++++ windsoraiR-0.1.1/windsoraiR/build/vignette.rds |binary windsoraiR-0.1.1/windsoraiR/inst/doc/basics.R |only windsoraiR-0.1.1/windsoraiR/inst/doc/basics.Rmd |only windsoraiR-0.1.1/windsoraiR/inst/doc/basics.html |only windsoraiR-0.1.1/windsoraiR/vignettes/basics.Rmd |only 12 files changed, 18 insertions(+), 12 deletions(-)
Title: A 'ggplot2' Implement of Venn Diagram
Description: Easy-to-use functions to generate 2-7 sets Venn plot in publication quality.
Author: Chun-Hui Gao [aut, cre] (<https://orcid.org/0000-0002-1445-7939>),
Guangchuang Yu [ctb] (<https://orcid.org/0000-0002-6485-8781>)
Maintainer: Chun-Hui Gao <gaospecial@gmail.com>
Diff between ggVennDiagram versions 0.5.0 dated 2021-02-28 and 1.0.7 dated 2021-04-28
ggVennDiagram-0.5.0/ggVennDiagram/R/draw_2d_venn.R |only ggVennDiagram-0.5.0/ggVennDiagram/R/draw_3d_venn.R |only ggVennDiagram-0.5.0/ggVennDiagram/R/draw_4d_venn.R |only ggVennDiagram-0.5.0/ggVennDiagram/R/multi_implement.R |only ggVennDiagram-0.5.0/ggVennDiagram/man/draw_venn.Rd |only ggVennDiagram-0.5.0/ggVennDiagram/man/get_region_items.Rd |only ggVennDiagram-0.5.0/ggVennDiagram/man/multi.Rd |only ggVennDiagram-0.5.0/ggVennDiagram/man/multi_st_fun.Rd |only ggVennDiagram-0.5.0/ggVennDiagram/man/region_item.Rd |only ggVennDiagram-0.5.0/ggVennDiagram/man/region_polygon.Rd |only ggVennDiagram-0.5.0/ggVennDiagram/man/region_value.Rd |only ggVennDiagram-0.5.0/ggVennDiagram/tests/testthat/test-multi_implement.R |only ggVennDiagram-1.0.7/ggVennDiagram/DESCRIPTION | 13 ggVennDiagram-1.0.7/ggVennDiagram/MD5 | 83 ++- ggVennDiagram-1.0.7/ggVennDiagram/NAMESPACE | 45 + ggVennDiagram-1.0.7/ggVennDiagram/NEWS.md | 13 ggVennDiagram-1.0.7/ggVennDiagram/R/Construct.R |only ggVennDiagram-1.0.7/ggVennDiagram/R/SetOperations.R |only ggVennDiagram-1.0.7/ggVennDiagram/R/build_shape.R |only ggVennDiagram-1.0.7/ggVennDiagram/R/ggVennDiagram.R | 176 +++--- ggVennDiagram-1.0.7/ggVennDiagram/R/plot_shapes.R |only ggVennDiagram-1.0.7/ggVennDiagram/R/process_data.R |only ggVennDiagram-1.0.7/ggVennDiagram/R/regions.R |only ggVennDiagram-1.0.7/ggVennDiagram/R/shape_generator.R |only ggVennDiagram-1.0.7/ggVennDiagram/R/sysdata.rda |only ggVennDiagram-1.0.7/ggVennDiagram/R/utils-pipe.R |only ggVennDiagram-1.0.7/ggVennDiagram/README.md | 268 ++++++---- ggVennDiagram-1.0.7/ggVennDiagram/man/Polygon-class.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/Venn-class.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/VennPlotData-class.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/VennPlotData.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/build_shape.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/circle.Rd | 46 - ggVennDiagram-1.0.7/ggVennDiagram/man/combinations.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/discern-Polygon-method.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/discern_overlap.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/ellipse.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/fancy_4d_ellipse.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-example-1.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-example-2.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-example-3.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-10-1.png |only ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-12-1.png |only ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-2-1.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-2-2.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-3-1.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-3-2.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-4-1.png |binary ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-4-2.png |only ggVennDiagram-1.0.7/ggVennDiagram/man/figures/README-unnamed-chunk-5-1.png |only ggVennDiagram-1.0.7/ggVennDiagram/man/get_shape_data.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/ggVennDiagram-package.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/ggVennDiagram.Rd | 25 ggVennDiagram-1.0.7/ggVennDiagram/man/label_position.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/overlap-Polygon-method.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/pipe.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/plot_shapes.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/plot_venn.Rd | 33 - ggVennDiagram-1.0.7/ggVennDiagram/man/polygon-methods.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/process_data.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/shape_generator.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/triangle.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/man/venn_data.Rd |only ggVennDiagram-1.0.7/ggVennDiagram/tests/testthat/test-4d-venn.R |only ggVennDiagram-1.0.7/ggVennDiagram/tests/testthat/test-class-Polygon.R |only ggVennDiagram-1.0.7/ggVennDiagram/tests/testthat/test-class-Venn.R |only ggVennDiagram-1.0.7/ggVennDiagram/tests/testthat/test-discern_overlap.R |only ggVennDiagram-1.0.7/ggVennDiagram/tests/testthat/test-memory_usage.R |only 68 files changed, 405 insertions(+), 297 deletions(-)
Title: Tensors and Neural Networks with 'GPU' Acceleration
Description: Provides functionality to define and train neural networks similar to
'PyTorch' by Paszke et al (2019) <arXiv:1912.01703> but written entirely in R
using the 'libtorch' library. Also supports low-level tensor operations and
'GPU' acceleration.
Author: Daniel Falbel [aut, cre, cph],
Javier Luraschi [aut],
Dmitriy Selivanov [ctb],
Athos Damiani [ctb],
Christophe Regouby [ctb],
Krzysztof Joachimiak [ctb],
RStudio [cph]
Maintainer: Daniel Falbel <daniel@rstudio.com>
Diff between torch versions 0.2.1 dated 2021-01-05 and 0.3.0 dated 2021-04-28
torch-0.2.1/torch/R/tensor_list.R |only torch-0.2.1/torch/man/figures/torch-full.png |only torch-0.2.1/torch/man/torch_fft.Rd |only torch-0.2.1/torch/man/torch_ifft.Rd |only torch-0.2.1/torch/man/torch_irfft.Rd |only torch-0.2.1/torch/man/torch_rfft.Rd |only torch-0.2.1/torch/tests/testthat/test-tensor_list.R |only torch-0.2.1/torch/tools/torchgen/inst/declaration/Declarations-1.3.0.yaml |only torch-0.2.1/torch/tools/torchgen/inst/declaration/Declarations-1.4.0.yaml |only torch-0.2.1/torch/tools/torchgen/inst/declaration/Declarations-1.5.0.yaml |only torch-0.2.1/torch/tools/torchgen/inst/declaration/Declarations-1.7.1.yaml |only torch-0.3.0/torch/DESCRIPTION | 51 torch-0.3.0/torch/MD5 | 354 torch-0.3.0/torch/NAMESPACE | 24 torch-0.3.0/torch/NEWS.md | 61 torch-0.3.0/torch/R/R7.R | 66 torch-0.3.0/torch/R/RcppExports.R | 1356 torch-0.3.0/torch/R/autograd.R | 15 torch-0.3.0/torch/R/backends.R | 23 torch-0.3.0/torch/R/codegen-utils.R | 242 torch-0.3.0/torch/R/creation-ops.R | 47 torch-0.3.0/torch/R/device.R | 11 torch-0.3.0/torch/R/dimname_list.R | 26 torch-0.3.0/torch/R/distributions-bernoulli.R |only torch-0.3.0/torch/R/distributions-chi2.R |only torch-0.3.0/torch/R/distributions-constraints.R | 79 torch-0.3.0/torch/R/distributions-exp-family.R | 2 torch-0.3.0/torch/R/distributions-gamma.R |only torch-0.3.0/torch/R/distributions-normal.R |only torch-0.3.0/torch/R/distributions-poisson.R |only torch-0.3.0/torch/R/distributions-utils.R |only torch-0.3.0/torch/R/distributions.R | 246 torch-0.3.0/torch/R/dtype.R | 12 torch-0.3.0/torch/R/gen-method.R | 628 torch-0.3.0/torch/R/gen-namespace-docs.R | 369 torch-0.3.0/torch/R/gen-namespace-examples.R | 67 torch-0.3.0/torch/R/gen-namespace.R | 3523 + torch-0.3.0/torch/R/generator.R | 13 torch-0.3.0/torch/R/help.R | 2 torch-0.3.0/torch/R/install.R | 179 torch-0.3.0/torch/R/lantern_load.R | 2 torch-0.3.0/torch/R/memory_format.R | 8 torch-0.3.0/torch/R/nn-activation.R | 8 torch-0.3.0/torch/R/nn-init.R | 2 torch-0.3.0/torch/R/nn-loss.R | 6 torch-0.3.0/torch/R/nn-normalization.R |only torch-0.3.0/torch/R/nn-rnn.R | 76 torch-0.3.0/torch/R/nn-utils-rnn.R | 18 torch-0.3.0/torch/R/nn.R | 14 torch-0.3.0/torch/R/nnf-activation.R | 42 torch-0.3.0/torch/R/nnf-normalization.R | 9 torch-0.3.0/torch/R/nnf-padding.R | 26 torch-0.3.0/torch/R/operators.R | 10 torch-0.3.0/torch/R/optim-adadelta.R | 126 torch-0.3.0/torch/R/optim-adagrad.R | 183 torch-0.3.0/torch/R/optim-adam.R | 180 torch-0.3.0/torch/R/optim-asgd.R | 118 torch-0.3.0/torch/R/optim-lbfgs.R | 800 torch-0.3.0/torch/R/optim-rmsprop.R | 160 torch-0.3.0/torch/R/optim-rprop.R | 118 torch-0.3.0/torch/R/optim-sgd.R | 124 torch-0.3.0/torch/R/optim.R | 87 torch-0.3.0/torch/R/package.R | 2 torch-0.3.0/torch/R/save.R | 35 torch-0.3.0/torch/R/scalar.R | 15 torch-0.3.0/torch/R/stack.R | 4 torch-0.3.0/torch/R/tensor.R | 41 torch-0.3.0/torch/R/tensor_options.R | 37 torch-0.3.0/torch/R/utils-data-collate.R | 13 torch-0.3.0/torch/R/utils-data-dataloader.R | 76 torch-0.3.0/torch/R/utils-data.R | 56 torch-0.3.0/torch/R/utils.R | 37 torch-0.3.0/torch/R/wrapers.R | 146 torch-0.3.0/torch/README.md | 16 torch-0.3.0/torch/build/vignette.rds |binary torch-0.3.0/torch/inst/doc/distributions.R |only torch-0.3.0/torch/inst/doc/distributions.Rmd |only torch-0.3.0/torch/inst/doc/distributions.html |only torch-0.3.0/torch/inst/doc/extending-autograd.R | 96 torch-0.3.0/torch/inst/doc/extending-autograd.html | 321 torch-0.3.0/torch/inst/doc/indexing.R | 60 torch-0.3.0/torch/inst/doc/indexing.html | 375 torch-0.3.0/torch/inst/doc/installation.R | 10 torch-0.3.0/torch/inst/doc/installation.Rmd | 52 torch-0.3.0/torch/inst/doc/installation.html | 269 torch-0.3.0/torch/inst/doc/loading-data.R | 160 torch-0.3.0/torch/inst/doc/loading-data.html | 468 torch-0.3.0/torch/inst/doc/python-to-r.R |only torch-0.3.0/torch/inst/doc/python-to-r.Rmd |only torch-0.3.0/torch/inst/doc/python-to-r.html |only torch-0.3.0/torch/inst/doc/serialization.R | 52 torch-0.3.0/torch/inst/doc/serialization.html | 282 torch-0.3.0/torch/inst/doc/tensor-creation.R | 32 torch-0.3.0/torch/inst/doc/tensor-creation.html | 299 torch-0.3.0/torch/inst/doc/using-autograd.R | 198 torch-0.3.0/torch/inst/doc/using-autograd.html | 448 torch-0.3.0/torch/man/Constraint.Rd | 18 torch-0.3.0/torch/man/Distribution.Rd |only torch-0.3.0/torch/man/backends_mkl_is_available.Rd |only torch-0.3.0/torch/man/backends_mkldnn_is_available.Rd |only torch-0.3.0/torch/man/backends_openmp_is_available.Rd |only torch-0.3.0/torch/man/broadcast_all.Rd |only torch-0.3.0/torch/man/dataloader.Rd | 37 torch-0.3.0/torch/man/dataset.Rd | 17 torch-0.3.0/torch/man/distr_bernoulli.Rd |only torch-0.3.0/torch/man/distr_chi2.Rd |only torch-0.3.0/torch/man/distr_gamma.Rd |only torch-0.3.0/torch/man/distr_normal.Rd |only torch-0.3.0/torch/man/distr_poisson.Rd |only torch-0.3.0/torch/man/get_install_libs_url.Rd |only torch-0.3.0/torch/man/install_torch.Rd | 11 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Title: Methods to Analyse Signed Networks
Description: Methods for the analysis of signed networks. This includes several measures for structural balance as introduced by Cartwright and Harary (1956) <doi:10.1037/h0046049>, blockmodeling algorithms from Doreian (2008) <doi:10.1016/j.socnet.2008.03.005>, various centrality indices, and projections of signed two-mode networks introduced by Schoch (2020) <doi:10.1080/0022250X.2019.1711376>.
Author: David Schoch [aut, cre]
Maintainer: David Schoch <david.schoch@manchester.ac.uk>
Diff between signnet versions 0.7.0 dated 2020-10-21 and 0.7.1 dated 2021-04-28
DESCRIPTION | 8 MD5 | 30 +-- NEWS.md | 6 R/complex_matrices.R | 9 R/signed_triangles.R | 2 README.md | 4 inst/doc/blockmodeling.html | 324 ++++++--------------------------- inst/doc/centrality.html | 298 +++++------------------------- inst/doc/complex_matrices.html | 292 ++++------------------------- inst/doc/signed_2mode.html | 296 ++++-------------------------- inst/doc/signed_networks.html | 270 +++------------------------ inst/doc/structural_balance.html | 278 ++++------------------------ man/figures/README-block_example-1.png |binary src/RcppExports.cpp | 4 src/optimBlocks.cpp | 4 src/triadCensus.cpp | 58 +++-- 16 files changed, 354 insertions(+), 1529 deletions(-)
Title: Miscellaneous Functions Used at 'Numeract LLC'
Description: Contains functions useful for debugging, set operations on vectors,
and 'UTC' date and time functionality. It adds a few vector manipulation
verbs to 'purrr' and 'dplyr' packages. It can also generate an R file to
install and update packages to simplify deployment into production. The
functions were developed at the data science firm 'Numeract LLC' and are
used in several packages and projects.
Author: Mike Badescu [aut, cre],
Ana-Maria Niculescu [aut],
Teodor Ciuraru [ctb],
Numeract LLC [cph]
Maintainer: Mike Badescu <mike.badescu@numeract.com>
Diff between Nmisc versions 0.3.5 dated 2018-11-07 and 0.3.7 dated 2021-04-28
Nmisc-0.3.5/Nmisc/tests/testthat/test_warn.R |only Nmisc-0.3.7/Nmisc/DESCRIPTION | 9 ++++----- Nmisc-0.3.7/Nmisc/MD5 | 11 +++++------ Nmisc-0.3.7/Nmisc/NEWS.md | 5 +++++ Nmisc-0.3.7/Nmisc/README.md | 2 -- Nmisc-0.3.7/Nmisc/man/generate_install_file.Rd | 7 +++++-- Nmisc-0.3.7/Nmisc/man/get_packages.Rd | 9 ++++++--- 7 files changed, 25 insertions(+), 18 deletions(-)
Title: Ensemble Sampler for Affine-Invariant MCMC
Description: Provides ensemble samplers for
affine-invariant Monte Carlo Markov Chain, which allow a faster
convergence for badly scaled estimation problems. Two samplers are
proposed: the 'differential.evolution' sampler from ter Braak and
Vrugt (2008) <doi:10.1007/s11222-008-9104-9> and the 'stretch' sampler
from Goodman and Weare (2010) <doi:10.2140/camcos.2010.5.65>.
Author: Hugo Gruson [cre, aut, cph] (<https://orcid.org/0000-0002-4094-1476>),
Sanda Dejanic [aut, cph],
Andreas Scheidegger [aut, cph]
(<https://orcid.org/0000-0003-2575-2172>)
Maintainer: Hugo Gruson <hugo.gruson+R@normalesup.org>
Diff between mcmcensemble versions 2.2.0 dated 2021-02-20 and 3.0.0 dated 2021-04-28
mcmcensemble-2.2.0/mcmcensemble/man/d.e.mcmc.Rd |only mcmcensemble-2.2.0/mcmcensemble/man/s.m.mcmc.Rd |only mcmcensemble-3.0.0/mcmcensemble/DESCRIPTION | 9 mcmcensemble-3.0.0/mcmcensemble/MD5 | 43 mcmcensemble-3.0.0/mcmcensemble/NAMESPACE | 2 mcmcensemble-3.0.0/mcmcensemble/NEWS.md | 27 mcmcensemble-3.0.0/mcmcensemble/R/MCMCEnsemble.R | 65 mcmcensemble-3.0.0/mcmcensemble/R/d.e.mcmc.R | 28 mcmcensemble-3.0.0/mcmcensemble/R/s.m.mcmc.R | 24 mcmcensemble-3.0.0/mcmcensemble/README.md | 91 mcmcensemble-3.0.0/mcmcensemble/build/partial.rdb |binary mcmcensemble-3.0.0/mcmcensemble/build/vignette.rds |binary mcmcensemble-3.0.0/mcmcensemble/inst/doc/diagnostic-pkgs.R |only mcmcensemble-3.0.0/mcmcensemble/inst/doc/diagnostic-pkgs.Rmd |only mcmcensemble-3.0.0/mcmcensemble/inst/doc/diagnostic-pkgs.html |only mcmcensemble-3.0.0/mcmcensemble/inst/doc/faq.R | 42 mcmcensemble-3.0.0/mcmcensemble/inst/doc/faq.Rmd | 61 mcmcensemble-3.0.0/mcmcensemble/inst/doc/faq.html | 183 mcmcensemble-3.0.0/mcmcensemble/man/MCMCEnsemble.Rd | 37 mcmcensemble-3.0.0/mcmcensemble/man/figures/README-example-de-1.svg | 1844 ++++++--- mcmcensemble-3.0.0/mcmcensemble/man/figures/README-example-stretch-1.svg | 1850 ++++++---- mcmcensemble-3.0.0/mcmcensemble/tests/testthat/test-MCMCEnsemble.R | 48 mcmcensemble-3.0.0/mcmcensemble/tests/testthat/test-convergence.R | 13 mcmcensemble-3.0.0/mcmcensemble/vignettes/blog |only mcmcensemble-3.0.0/mcmcensemble/vignettes/diagnostic-pkgs.Rmd |only mcmcensemble-3.0.0/mcmcensemble/vignettes/faq.Rmd | 61 26 files changed, 2730 insertions(+), 1698 deletions(-)
Title: Genomic Regression Workbench
Description: Workbench for testing genomic regression accuracy on (optionally noisy) phenotypes.
Author: Nelson Nazzicari & Filippo Biscarini
Maintainer: Nelson Nazzicari <nelson.nazzicari@gmail.com>
Diff between GROAN versions 1.2.0 dated 2018-10-11 and 1.2.1 dated 2021-04-28
DESCRIPTION | 12 MD5 | 60 +-- NEWS | 3 R/common.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/GROAN.vignette.R | 54 +- inst/doc/GROAN.vignette.Rmd | 2 inst/doc/GROAN.vignette.html | 755 ++++++++++++++++++++++++++------------- man/GROAN.AI.Rd | 6 man/GROAN.KI.Rd | 6 man/GROAN.pea.SNPs.Rd | 6 man/GROAN.pea.kinship.Rd | 6 man/GROAN.pea.yield.Rd | 4 man/artificialPhenotypes.Rd | 9 man/createNoisyDataset.Rd | 14 man/createWorkbench.Rd | 13 man/is.naturalnumber.Rd | 2 man/noiseInjector.dummy.Rd | 7 man/noiseInjector.norm.Rd | 7 man/noiseInjector.swapper.Rd | 7 man/noiseInjector.unif.Rd | 7 man/phenoRegressor.BGLR.Rd | 20 - man/phenoRegressor.RFR.Rd | 21 - man/phenoRegressor.SVR.Rd | 35 + man/phenoRegressor.dummy.Rd | 9 man/phenoRegressor.rrBLUP.G.Rd | 3 man/phenoRegressor.rrBLUP.Rd | 18 man/phenoRegressor.rrBLUP.SNP.Rd | 3 man/plotResult.Rd | 11 vignettes/GROAN.vignette.Rmd | 2 31 files changed, 720 insertions(+), 384 deletions(-)
Title: Weighted Subspace Random Forest for Classification
Description: A parallel implementation of Weighted Subspace Random Forest. The
Weighted Subspace Random Forest algorithm was proposed in the
International Journal of Data Warehousing and Mining by Baoxun Xu,
Joshua Zhexue Huang, Graham Williams, Qiang Wang, and Yunming Ye
(2012) <DOI:10.4018/jdwm.2012040103>. The algorithm can classify
very high-dimensional data with random forests built using small
subspaces. A novel variable weighting method is used for variable
subspace selection in place of the traditional random variable
sampling.This new approach is particularly useful in building
models from high-dimensional data.
Author: Qinghan Meng [aut],
He Zhao [aut, cre] (<https://orcid.org/0000-0001-5763-9743>),
Graham J. Williams [aut] (<https://orcid.org/0000-0001-7041-4127>),
Junchao Lv [aut],
Baoxun Xu [aut],
Joshua Zhexue Huang [aut] (<https://orcid.org/0000-0002-6797-2571>)
Maintainer: He Zhao <Simon.Yansen.Zhao@gmail.com>
Diff between wsrf versions 1.7.20 dated 2021-04-24 and 1.7.21 dated 2021-04-28
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/NEWS.Rd | 14 +++++++++++++- inst/doc/wsrf-guide.html | 4 ++-- 4 files changed, 22 insertions(+), 10 deletions(-)
Title: Causal Inference using Multivariate Generalized Propensity Score
Description: Methods for estimating and utilizing the multivariate generalized propensity score (mvGPS) for multiple continuous exposures described in Williams, J.R, and Crespi, C.M. (2020) <arxiv:2008.13767>. The methods allow estimation of a dose-response surface relating the joint distribution of multiple continuous exposure variables to an outcome. Weights are constructed assuming a multivariate normal density for the marginal and conditional distribution of exposures given a set of confounders. Confounders can be different for different exposure variables. The weights are designed to achieve balance across all exposure dimensions and can be used to estimate dose-response surfaces.
Author: Justin Williams [aut, cre] (<https://orcid.org/0000-0002-5045-2764>)
Maintainer: Justin Williams <williazo@ucla.edu>
Diff between mvGPS versions 1.0.2 dated 2020-09-17 and 1.1.1 dated 2021-04-28
DESCRIPTION | 8 - MD5 | 25 ++--- NAMESPACE | 1 NEWS | 3 R/bal.R | 43 ++++++-- R/hull_sample.R | 11 +- R/mvGPS.R | 1 build/partial.rdb |binary inst/WORDLIST |only inst/doc/mvGPS-intro.html | 72 ++++++++++++++- man/hull_sample.Rd | 11 ++ tests/testthat/test-bal.R | 8 - vignettes/mvGPS-intro_files/figure-html/chull_plot-1.png |binary vignettes/mvGPS-intro_files/figure-html/dag_draw-1.png |binary 14 files changed, 143 insertions(+), 40 deletions(-)
Title: Tables of Descriptive Statistics in HTML
Description: Create HTML tables of descriptive statistics, as one would expect
to see as the first table (i.e. "Table 1") in a medical/epidemiological journal
article.
Author: Benjamin Rich [aut, cre, cph]
Maintainer: Benjamin Rich <mail@benjaminrich.net>
Diff between table1 versions 1.3 dated 2021-03-28 and 1.4 dated 2021-04-28
DESCRIPTION | 15 MD5 | 76 NAMESPACE | 88 NEWS.md | 159 - R/eqcut.R | 310 +- R/t1read.R | 208 - R/table1.R | 2626 ++++++++++-------- README.md | 142 build/vignette.rds |binary inst/doc/table1-examples.R | 412 +- inst/doc/table1-examples.Rmd | 1040 +++---- inst/doc/table1-examples.html | 3850 +++++++++++++-------------- inst/doc/table1-latex.R |only inst/doc/table1-latex.Rmd |only inst/doc/table1-latex.pdf |only inst/table1_defaults_1.0/table1_defaults.css | 202 - man/as.data.frame.table1.Rd |only man/eqcut.Rd | 218 - man/knit_print.table1.Rd | 36 man/label.Rd | 78 man/parse.abbrev.render.code.Rd | 108 man/print.table1.Rd | 46 man/render.categorical.default.Rd | 66 man/render.continuous.default.Rd | 60 man/render.default.Rd | 140 man/render.missing.default.Rd | 58 man/render.strat.default.Rd | 42 man/render.varlabel.Rd | 66 man/signif_pad.Rd | 136 man/stats.apply.rounding.Rd | 124 man/stats.default.Rd | 136 man/subsetp.Rd | 56 man/t1flex.Rd |only man/t1kable.Rd |only man/t1read.Rd | 164 - man/table.rows.Rd | 142 man/table1.Rd | 388 +- man/units.Rd | 72 man/update_html.Rd |only vignettes/style.css | 44 vignettes/table1-examples.Rmd | 1040 +++---- vignettes/table1-latex.Rmd |only vignettes/vignette.css | 416 +- 43 files changed, 6531 insertions(+), 6233 deletions(-)
Title: Analyse Citation Data from Google Scholar
Description: Provides functions to extract citation data from Google
Scholar. Convenience functions are also provided for comparing
multiple scholars and predicting future h-index values.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>),
James Keirstead [aut],
Gregory Jefferis [ctb],
Gordon Getzinger [ctb],
Jorge Cimentada [ctb],
Max Czapanskiy [ctb],
Dominique Makowski [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between scholar versions 0.2.0 dated 2021-01-12 and 0.2.1 dated 2021-04-28
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- build/partial.rdb |binary 3 files changed, 6 insertions(+), 7 deletions(-)
Title: Rank Aggregation with Partition Mallows Model
Description: Rank aggregation aims to achieve a better ranking list given multiple observations. 'PAMA' implements Partition-Mallows model for rank aggregation where the rankers' quality are different. Both Bayesian inference and Maximum likelihood estimation (MLE) are provided. It can handle partial list as well. When covariates information is available, this package can make inference by incorporating the covariate information. More information can be found in the paper "Integrated Partition-Mallows Model and Its Inference for Rank Aggregation".
Author: Wanchuang Zhu [cre, aut]
Maintainer: Wanchuang Zhu <andy.chou.sub@gmail.com>
Diff between PAMA versions 1.0.1 dated 2021-04-18 and 1.1.0 dated 2021-04-28
PAMA-1.0.1/PAMA/R/BARDMallowslikepower.R |only PAMA-1.1.0/PAMA/DESCRIPTION | 8 ++++---- PAMA-1.1.0/PAMA/MD5 | 27 ++++++++++++++------------- PAMA-1.1.0/PAMA/NAMESPACE | 2 ++ PAMA-1.1.0/PAMA/R/PAMA.B.R | 28 ++++++++++++++++++++-------- PAMA-1.1.0/PAMA/R/PAMA.Cov.R | 21 ++++++++++++++++----- PAMA-1.1.0/PAMA/R/PAMA.F.R | 21 +++++++++++++++------ PAMA-1.1.0/PAMA/R/PAMA.PL.R | 25 +++++++++++++++++-------- PAMA-1.1.0/PAMA/R/PAMAlike.R |only PAMA-1.1.0/PAMA/R/fulllikepower.R | 4 ++-- PAMA-1.1.0/PAMA/README.md | 1 + PAMA-1.1.0/PAMA/man/PAMA.B.Rd | 4 +++- PAMA-1.1.0/PAMA/man/PAMA.Cov.Rd | 4 +++- PAMA-1.1.0/PAMA/man/PAMA.F.Rd | 6 ++++-- PAMA-1.1.0/PAMA/man/PAMA.PL.Rd | 4 +++- PAMA-1.1.0/PAMA/man/PAMAlike.Rd |only 16 files changed, 104 insertions(+), 51 deletions(-)
Title: Fast Cross-Validation for Multi-Penalty Ridge Regression
Description: Multi-penalty linear, logistic and cox ridge regression, including estimation of the penalty parameters by efficient (repeated) cross-validation and marginal likelihood maximization. Multiple high-dimensional data types that require penalization are allowed, as well as unpenalized variables. Paired and preferential data types can be specified. See Van de Wiel et al. (2021), <arXiv:2005.09301>.
Author: Mark A. van de Wiel
Maintainer: Mark A. van de Wiel <mark.vdwiel@amsterdamumc.nl>
Diff between multiridge versions 1.5 dated 2021-04-06 and 1.7 dated 2021-04-28
DESCRIPTION | 8 +- MD5 | 16 ++-- R/MultiLambdaCVfun.R | 200 +++++++++++++++++++++++++++++++-------------------- build/partial.rdb |binary man/IWLSCoxridge.Rd | 2 man/IWLSridge.Rd | 1 man/betasout.Rd | 5 + man/fastCV2.Rd | 10 ++ man/setupParallel.Rd | 4 - 9 files changed, 151 insertions(+), 95 deletions(-)
Title: Download and Display Map Tiles
Description: To create maps from tiles, 'maptiles' downloads, composes and
displays tiles from a large number of providers (e.g. 'OpenStreetMap',
'Stamen', 'Esri', 'CARTO', or 'Thunderforest').
Author: Timothée Giraud [cre, aut] (<https://orcid.org/0000-0002-1932-3323>),
Diego Hernangómez [ctb] (<https://orcid.org/0000-0001-8457-4658>),
Robert J. Hijmans [ctb] (<https://orcid.org/0000-0001-5872-2872>)
Maintainer: Timothée Giraud <timothee.giraud@cnrs.fr>
Diff between maptiles versions 0.1.2 dated 2021-04-20 and 0.1.3 dated 2021-04-28
maptiles-0.1.2/maptiles/R/get_tiles_attribution.R |only maptiles-0.1.2/maptiles/R/tiles.R |only maptiles-0.1.3/maptiles/DESCRIPTION | 6 - maptiles-0.1.3/maptiles/MD5 | 24 +++--- maptiles-0.1.3/maptiles/NEWS.md | 6 + maptiles-0.1.3/maptiles/R/get_credit.R |only maptiles-0.1.3/maptiles/R/get_tiles.R | 44 ++++++----- maptiles-0.1.3/maptiles/R/plot_tiles.R |only maptiles-0.1.3/maptiles/R/zzz.R | 4 - maptiles-0.1.3/maptiles/README.md | 53 ++++++-------- maptiles-0.1.3/maptiles/man/figures/README-example-1.png |binary maptiles-0.1.3/maptiles/man/figures/README-example2-1.png |binary maptiles-0.1.3/maptiles/man/get_credit.Rd | 2 maptiles-0.1.3/maptiles/man/get_tiles.Rd | 20 ++--- maptiles-0.1.3/maptiles/man/plot_tiles.Rd | 3 15 files changed, 82 insertions(+), 80 deletions(-)
More information about YatesAlgo.FactorialExp.SR at CRAN
Permanent link
Title: Check Arguments and Generate Readable Error Messages
Description: Provides several validator functions to check if arguments passed
by users have valid types, lengths, etc., and if not, to generate
informative and good-formatted error messages in a consistent style. Also
provides tools for users to create their own validator functions. The
error message style used is adopted from
<https://style.tidyverse.org/error-messages.html>.
Author: Renfei Mao
Maintainer: Renfei Mao <renfeimao@gmail.com>
Diff between erify versions 0.1.0 dated 2021-04-16 and 0.2.0 dated 2021-04-28
erify-0.1.0/erify/R/check.R |only erify-0.1.0/erify/man/validators.Rd |only erify-0.2.0/erify/DESCRIPTION | 10 erify-0.2.0/erify/MD5 | 47 ++- erify-0.2.0/erify/NAMESPACE | 8 erify-0.2.0/erify/NEWS.md |only erify-0.2.0/erify/R/basic.R |only erify-0.2.0/erify/R/binary.R |only erify-0.2.0/erify/R/erify.R | 42 ++- erify-0.2.0/erify/R/internal.R |only erify-0.2.0/erify/R/list.R |only erify-0.2.0/erify/R/single.R |only erify-0.2.0/erify/R/statement.R | 351 +++++++++----------------- erify-0.2.0/erify/R/where.R |only erify-0.2.0/erify/README.md | 77 ++++- erify-0.2.0/erify/build/vignette.rds |binary erify-0.2.0/erify/inst/doc/erify.R | 44 ++- erify-0.2.0/erify/inst/doc/erify.Rmd | 98 +++++-- erify-0.2.0/erify/inst/doc/erify.html | 255 ++++++++++-------- erify-0.2.0/erify/man/Statement.Rd | 39 -- erify-0.2.0/erify/man/back_quote.Rd |only erify-0.2.0/erify/man/check_binary_classes.Rd |only erify-0.2.0/erify/man/check_bool.Rd |only erify-0.2.0/erify/man/check_class.Rd |only erify-0.2.0/erify/man/check_classes.Rd |only erify-0.2.0/erify/man/check_content.Rd |only erify-0.2.0/erify/man/check_length.Rd |only erify-0.2.0/erify/man/check_n.Rd |only erify-0.2.0/erify/man/check_string.Rd |only erify-0.2.0/erify/man/check_type.Rd |only erify-0.2.0/erify/man/check_types.Rd |only erify-0.2.0/erify/man/join.Rd |only erify-0.2.0/erify/man/print_string.Rd |only erify-0.2.0/erify/man/trigger.Rd | 22 - erify-0.2.0/erify/man/where.Rd |only erify-0.2.0/erify/vignettes/erify.Rmd | 98 +++++-- 36 files changed, 596 insertions(+), 495 deletions(-)
Title: A User-Friendly Pipeline for Biomarker Discovery in Single-Cell
Transcriptomics
Description: An open, multi-algorithmic pipeline for easy, fast and efficient
analysis of cellular sub-populations and the molecular signatures that
characterize them. The pipeline consists of four successive steps: data
pre-processing, cellular clustering with pseudo-temporal ordering, defining
differential expressed genes and biomarker identification. More details on
Ghannoum et. al. (2021) <doi:10.3390/ijms22031399>. This package implements
extensions of the work published by Ghannoum et. al. (2019)
<doi:10.1101/700989>.
Author: Salim Ghannoum [aut, cph],
Alvaro Köhn-Luque [aut, ths],
Waldir Leoncio [cre, aut],
Damiano Fantini [ctb]
Maintainer: Waldir Leoncio <w.l.netto@medisin.uio.no>
Diff between DIscBIO versions 1.1.0 dated 2020-11-13 and 1.2.0 dated 2021-04-28
DIscBIO-1.1.0/DIscBIO/tests |only DIscBIO-1.2.0/DIscBIO/DESCRIPTION | 17 - DIscBIO-1.2.0/DIscBIO/MD5 | 25 +- DIscBIO-1.2.0/DIscBIO/NAMESPACE | 1 DIscBIO-1.2.0/DIscBIO/NEWS.md | 15 + DIscBIO-1.2.0/DIscBIO/R/DIscBIO-generic-DEGanalysis2clust.R | 24 +- DIscBIO-1.2.0/DIscBIO/R/DIscBIO-generic-PlotmclustMB.R | 6 DIscBIO-1.2.0/DIscBIO/R/NetAnalysis.R | 6 DIscBIO-1.2.0/DIscBIO/R/Networking.R | 115 ++++-------- DIscBIO-1.2.0/DIscBIO/R/PPI.R | 47 +--- DIscBIO-1.2.0/DIscBIO/R/internal-functions.R | 54 +++++ DIscBIO-1.2.0/DIscBIO/man/Networking.Rd | 10 - DIscBIO-1.2.0/DIscBIO/man/PPI.Rd | 4 DIscBIO-1.2.0/DIscBIO/man/retrieveURL.Rd |only 14 files changed, 179 insertions(+), 145 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-20 0.2.0
2021-01-05 0.1.7
2020-12-12 0.1.6
2020-07-26 0.1.5
2020-05-11 0.1.4
2019-08-01 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-29 0.7.4
2020-12-01 0.7.3
2020-11-15 0.7.2
2020-09-28 0.7.1
2020-01-20 0.7.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-21 0.1.2
2020-03-28 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-05-18 0.1.2
Title: Interface to 'Matba Rofex' Trading API
Description: Execute API calls to the 'Matba Rofex' <https://apihub.primary.com.ar> trading platform. Functionality includes accessing account data and current holdings, retrieving investment quotes, placing and canceling orders, and getting reference data for instruments.
Author: Augusto Hassel [aut, cre],
Juan Francisco Gomez [ctb],
Matba Rofex [cph]
Maintainer: Augusto Hassel <mpi-augusto@primary.com.ar>
Diff between rRofex versions 2.0.3 dated 2020-07-31 and 2.0.5 dated 2021-04-28
DESCRIPTION | 15 +++++++-------- MD5 | 14 +++++++------- NEWS.md | 6 +++++- R/functions.R | 43 +++++++++++++++++++++++++++++-------------- R/functions_websocket.R | 4 ++-- README.md | 2 +- build/rRofex.pdf |binary man/rRofex-package.Rd | 6 +++--- 8 files changed, 54 insertions(+), 36 deletions(-)
Title: Convert Between Bibliography Formats
Description: Read and write 'BibTeX' files. Convert between bibliography
formats, including 'BibTeX', 'BibLaTeX', EndNote, and 'Bibentry'.
Includes a port of the 'bibutils' utilities by Chris Putnam
<https://sourceforge.net/projects/bibutils/>. Supports all
bibliography formats and character encodings implemented in
'bibutils'.
Author: Georgi N. Boshnakov [aut, cre] (R port, R code, modifications to
bibutils' C code, conversion to Bibentry (R and C code)),
Chris Putman [aut] (src/*, author of the bibutils libraries,
https://sourceforge.net/projects/bibutils/),
Richard Mathar [ctb] (src/addsout.c),
Johannes Wilm [ctb] (src/biblatexin.c, src/bltypes.c)
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between rbibutils versions 2.1 dated 2021-04-06 and 2.1.1 dated 2021-04-28
DESCRIPTION | 22 +++++++++++----------- MD5 | 10 +++++----- NEWS.md | 5 +++++ README.md | 16 +++++++++++++--- build/partial.rdb |binary tests/testthat.R | 10 ++++++---- 6 files changed, 40 insertions(+), 23 deletions(-)
Title: Classed Error and Warning Conditions
Description: This provides utilities for creating classed error and warning
conditions based on where the error originated.
Author: Andrew Redd [aut, cre],
R Documentation Task Force [aut]
Maintainer: Andrew Redd <Andrew.Redd@hsc.utah.edu>
Diff between pkgcond versions 0.1.0 dated 2018-12-03 and 0.1.1 dated 2021-04-28
DESCRIPTION | 12 - MD5 | 32 ++-- NAMESPACE | 44 ++--- NEWS.md | 5 R/conditions.R | 348 ++++++++++++++++++++++----------------------- R/suppress.R | 284 ++++++++++++++++++------------------ README.md | 4 man/assert_that.Rd | 65 ++++---- man/collapse.Rd | 38 ++-- man/comma_list.Rd | 59 +++---- man/condition.Rd | 104 +++++++------ man/dot-underscore.Rd | 60 +++---- man/find_scope.Rd | 62 ++++---- man/infix-concatenation.Rd | 66 ++++---- man/not-in.Rd | 48 +++--- man/skip_scope.Rd | 84 +++++----- man/suppress.Rd | 144 ++++++++---------- 17 files changed, 733 insertions(+), 726 deletions(-)
Title: Online Bayesian Methods for Change Point Analysis
Description: It implements the online Bayesian methods for change point analysis. It can
also perform missing data imputation with methods from 'VIM'. The reference
is Yigiter A, Chen J, An L, Danacioglu N (2015) <doi:10.1080/02664763.2014.1001330>.
Author: Hongyan Xu [cre, aut],
Ayten Yigiter [aut],
Jie Chen [aut]
Maintainer: Hongyan Xu <hxu@augusta.edu>
Diff between onlineBcp versions 0.1.0 dated 2021-01-11 and 0.1.1 dated 2021-04-28
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/online_cp.R | 38 +++++++++++++++++++++++++++++--------- man/summary.BayesCP.Rd | 4 +++- 4 files changed, 38 insertions(+), 16 deletions(-)
Title: Helper Functions for 'mlr3'
Description: Frequently used helper functions and assertions
used in 'mlr3' and its companion packages. Comes with helper functions
for functional programming, for printing, to work with 'data.table',
as well as some generally useful 'R6' classes. This package also
supersedes the package 'BBmisc'.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3misc versions 0.9.0 dated 2021-04-12 and 0.9.1 dated 2021-04-28
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md | 4 ++++ src/backports.h |only src/count_missing.c | 1 + 5 files changed, 12 insertions(+), 6 deletions(-)
Title: Disease-Drived Differential Proteins Co-Expression Network
Analysis
Description: Functions designed to connect disease-related differential proteins and
co-expression network. It provides the basic statics analysis included t test, ANOVA analysis.
The network construction is not offered by the package, you can used 'WGCNA' package which you
can learn in Peter et al. (2008) <doi:10.1186/1471-2105-9-559>. It also provides module analysis
included PCA analysis, two enrichment analysis, Planner maximally filtered graph extraction and
hub analysis.
Author: Kefu Liu [aut, cre]
Maintainer: Kefu Liu <liukefu19@163.com>
Diff between DDPNA versions 0.2.6 dated 2020-07-05 and 0.2.7 dated 2021-04-28
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/MaxquantDataconvert.R | 2 +- R/network.R | 2 +- man/ID_match.Rd | 2 +- man/MaxquantDataconvert.Rd | 2 +- 6 files changed, 14 insertions(+), 14 deletions(-)
Title: Bayesian Inference for Directed Acyclic Graphs
Description: Implementation of a collection of MCMC methods for Bayesian structure learning
of directed acyclic graphs (DAGs), both from continuous and discrete data. For efficient
inference on larger DAGs, the space of DAGs is pruned according to the data. To filter
the search space, the algorithm employs a hybrid approach, combining constraint-based
learning with search and score. A reduced search space is initially defined on the basis
of a skeleton obtained by means of the PC-algorithm, and then iteratively improved with
search and score. Search and score is then performed following two approaches:
Order MCMC, or Partition MCMC.
The BGe score is implemented for continuous data and the BDe score is implemented
for binary data or categorical data. The algorithms may provide the maximum a posteriori
(MAP) graph or a sample (a collection of DAGs) from the posterior distribution given the data.
All algorithms are also applicable for structure learning and sampling for dynamic Bayesian networks.
References:
J. Kuipers, P. Suter and G. Moffa (2018) <arXiv:1803.07859v2>,
N. Friedman and D. Koller (2003) <doi:10.1023/A:1020249912095>,
D. Geiger and D. Heckerman (2002) <doi:10.1214/aos/1035844981>,
J. Kuipers and G. Moffa (2017) <doi:10.1080/01621459.2015.1133426>,
M. Kalisch et al.(2012) <doi:10.18637/jss.v047.i11>.
Author: Polina Suter [aut, cre], Jack Kuipers [aut]
Maintainer: Polina Suter <polina.suter@bsse.ethz.ch>
Diff between BiDAG versions 2.0.0 dated 2021-02-15 and 2.0.1 dated 2021-04-28
BiDAG-2.0.0/BiDAG/R/KICH.R |only BiDAG-2.0.0/BiDAG/R/KIPAN.R |only BiDAG-2.0.0/BiDAG/data/KICH.rda |only BiDAG-2.0.0/BiDAG/data/KIPAN.rda |only BiDAG-2.0.0/BiDAG/data/KIRC.rda |only BiDAG-2.0.0/BiDAG/data/KIRP.rda |only BiDAG-2.0.0/BiDAG/data/intSTRING.rda |only BiDAG-2.0.0/BiDAG/data/mapSTRING.rda |only BiDAG-2.0.0/BiDAG/man/MCMCmult.Rd |only BiDAG-2.0.0/BiDAG/man/MCMCres.Rd |only BiDAG-2.0.0/BiDAG/man/MCMCscoretab.Rd |only BiDAG-2.0.0/BiDAG/man/intSTRING.Rd |only BiDAG-2.0.0/BiDAG/man/iterations.check.Rd |only BiDAG-2.0.0/BiDAG/man/kich.Rd |only BiDAG-2.0.0/BiDAG/man/kipan.Rd |only BiDAG-2.0.0/BiDAG/man/mapSTRING.Rd |only BiDAG-2.0.0/BiDAG/man/plot.MCMCmult.Rd |only BiDAG-2.0.0/BiDAG/man/plot.MCMCres.Rd |only BiDAG-2.0.0/BiDAG/man/print.MCMCmult.Rd |only BiDAG-2.0.0/BiDAG/man/print.MCMCres.Rd |only BiDAG-2.0.0/BiDAG/man/print.MCMCscoretab.Rd |only BiDAG-2.0.0/BiDAG/man/print.scoreparameters.Rd |only BiDAG-2.0.0/BiDAG/man/sample.check.Rd |only BiDAG-2.0.0/BiDAG/man/summary.MCMCmult.Rd |only BiDAG-2.0.0/BiDAG/man/summary.MCMCres.Rd |only BiDAG-2.0.0/BiDAG/man/summary.MCMCscoretab.Rd |only BiDAG-2.0.0/BiDAG/man/summary.scoreparameters.Rd |only BiDAG-2.0.1/BiDAG/DESCRIPTION | 8 BiDAG-2.0.1/BiDAG/MD5 | 124 ++++------ BiDAG-2.0.1/BiDAG/NAMESPACE | 42 +-- BiDAG-2.0.1/BiDAG/R/DBNdata.R | 4 BiDAG-2.0.1/BiDAG/R/KIRC.R | 6 BiDAG-2.0.1/BiDAG/R/KIRP.R | 4 BiDAG-2.0.1/BiDAG/R/corescore.R | 9 BiDAG-2.0.1/BiDAG/R/dataSTRING.R | 22 + BiDAG-2.0.1/BiDAG/R/graphhelpfns.R | 142 +++++++++--- BiDAG-2.0.1/BiDAG/R/initpar.R | 46 ++-- BiDAG-2.0.1/BiDAG/R/iterativeMCMC.R | 35 --- BiDAG-2.0.1/BiDAG/R/learningdata.R | 4 BiDAG-2.0.1/BiDAG/R/main.R | 75 +++--- BiDAG-2.0.1/BiDAG/R/orderMCMCmain.R | 13 - BiDAG-2.0.1/BiDAG/R/othercnstr.R |only BiDAG-2.0.1/BiDAG/R/partitionMCMC.R | 2 BiDAG-2.0.1/BiDAG/R/partitionMCMCmain.R | 12 - BiDAG-2.0.1/BiDAG/R/performanceassess.R | 173 ++++++--------- BiDAG-2.0.1/BiDAG/R/plotS3.R | 173 ++++++++++++--- BiDAG-2.0.1/BiDAG/R/plotfns.R | 36 +-- BiDAG-2.0.1/BiDAG/R/plotusingrgraphviz.R | 119 +++++++++- BiDAG-2.0.1/BiDAG/R/printmethods.R | 262 ++++++++++++++--------- BiDAG-2.0.1/BiDAG/R/summary.R | 190 ++++++++++++---- BiDAG-2.0.1/BiDAG/data/interactions.rda |only BiDAG-2.0.1/BiDAG/data/kirc.rda |only BiDAG-2.0.1/BiDAG/data/kirp.rda |only BiDAG-2.0.1/BiDAG/data/mapping.rda |only BiDAG-2.0.1/BiDAG/man/DBNdata.Rd | 8 BiDAG-2.0.1/BiDAG/man/DBNscore.Rd | 5 BiDAG-2.0.1/BiDAG/man/compareDAGs.Rd | 32 ++ BiDAG-2.0.1/BiDAG/man/compareDBNs.Rd | 14 - BiDAG-2.0.1/BiDAG/man/edgep.Rd | 7 BiDAG-2.0.1/BiDAG/man/gsim.Rd | 1 BiDAG-2.0.1/BiDAG/man/gsim100.Rd | 3 BiDAG-2.0.1/BiDAG/man/interactions.Rd |only BiDAG-2.0.1/BiDAG/man/iterativeMCMC.Rd | 49 +++- BiDAG-2.0.1/BiDAG/man/iterativeMCMCclass.Rd |only BiDAG-2.0.1/BiDAG/man/itercomp.Rd |only BiDAG-2.0.1/BiDAG/man/kirc.Rd | 8 BiDAG-2.0.1/BiDAG/man/kirp.Rd | 6 BiDAG-2.0.1/BiDAG/man/mapping.Rd |only BiDAG-2.0.1/BiDAG/man/modelp.Rd | 5 BiDAG-2.0.1/BiDAG/man/orderMCMC.Rd | 49 +++- BiDAG-2.0.1/BiDAG/man/orderMCMCclass.Rd |only BiDAG-2.0.1/BiDAG/man/partitionMCMC.Rd | 50 +++- BiDAG-2.0.1/BiDAG/man/partitionMCMCclass.Rd |only BiDAG-2.0.1/BiDAG/man/plot2in1.Rd |only BiDAG-2.0.1/BiDAG/man/plotDBN.Rd | 4 BiDAG-2.0.1/BiDAG/man/plotdiffs.DBN.Rd | 10 BiDAG-2.0.1/BiDAG/man/plotdiffs.Rd | 7 BiDAG-2.0.1/BiDAG/man/plotpcor.Rd | 23 -- BiDAG-2.0.1/BiDAG/man/plotpedges.Rd | 5 BiDAG-2.0.1/BiDAG/man/samplecomp.Rd |only BiDAG-2.0.1/BiDAG/man/scoreparameters.Rd | 31 +- BiDAG-2.0.1/BiDAG/man/scorespace.Rd |only BiDAG-2.0.1/BiDAG/man/scorespaceclass.Rd |only BiDAG-2.0.1/BiDAG/man/string2mat.Rd | 11 84 files changed, 1189 insertions(+), 640 deletions(-)
Title: Visualize Downloads from 'CRAN' Packages
Description: Visualize the trends and historical downloads from packages in the 'CRAN' repository. Data is obtained by using the 'API' to query the database from the 'RStudio' 'CRAN' mirror.
Author: Marcelo Ponce [aut, cre]
Maintainer: Marcelo Ponce <mponce@scinet.utoronto.ca>
Diff between Visualize.CRAN.Downloads versions 1.0 dated 2020-03-21 and 1.0.1 dated 2021-04-28
DESCRIPTION | 12 +- MD5 | 11 +- NAMESPACE | 2 NEWS |only README.md | 68 +++++++++++- build/vignette.rds |binary inst/doc/Visualize.CRAN.Downloads.html | 178 +++++++++++++++++++++++++++++---- 7 files changed, 230 insertions(+), 41 deletions(-)
More information about Visualize.CRAN.Downloads at CRAN
Permanent link
Title: Geographically Weighted Elliptical Regression
Description: Computes a elliptical regression model or a geographically weighted regression model with elliptical errors using Fisher's score algorithm. Provides diagnostic measures, residuals and analysis of variance. Cysneiros, F. J. A., Paula, G. A., and Galea, M. (2007) <doi:10.1016/j.spl.2007.01.012>.
Author: Yuri A. Araujo, Francisco Jose A. Cysneiros and Audrey H. M. A. Cysneiros
Maintainer: Yuri A. Araujo <yada1@de.ufpe.br>
Diff between gwer versions 2.1 dated 2020-11-24 and 3.0 dated 2021-04-28
gwer-2.1/gwer/R/envelope.R |only gwer-2.1/gwer/R/gwer.sel.R |only gwer-2.1/gwer/man/envelope.Rd |only gwer-2.1/gwer/man/gwer.sel.Rd |only gwer-3.0/gwer/DESCRIPTION | 17 - gwer-3.0/gwer/MD5 | 71 ++--- gwer-3.0/gwer/NAMESPACE | 90 +++--- gwer-3.0/gwer/R/anova.elliptical.R | 14 gwer-3.0/gwer/R/bw.gwer.R |only gwer-3.0/gwer/R/elliptical.R | 36 +- gwer-3.0/gwer/R/elliptical.diag.R | 50 +-- gwer-3.0/gwer/R/elliptical.diag.plots.R | 40 +- gwer-3.0/gwer/R/elliptical.envelope.R |only gwer-3.0/gwer/R/family.elliptical.R | 8 gwer-3.0/gwer/R/gwer.R | 339 +++++++++++------------- gwer-3.0/gwer/R/gwer.diag.R | 69 ++-- gwer-3.0/gwer/R/gwer.diag.plots.R | 78 ++--- gwer-3.0/gwer/R/gwer.envelope.R |only gwer-3.0/gwer/R/gwer.montecarlo.R |only gwer-3.0/gwer/R/gwer.multiscale.R |only gwer-3.0/gwer/R/gwer.multiscale.diag.R |only gwer-3.0/gwer/R/gwer.multiscale.diag.plots.R |only gwer-3.0/gwer/R/residuals.elliptical.R | 16 - gwer-3.0/gwer/R/residuals.gwer.R | 70 +++- gwer-3.0/gwer/R/summary.elliptical.R | 21 - gwer-3.0/gwer/R/summary.gwer.R | 93 +----- gwer-3.0/gwer/build |only gwer-3.0/gwer/man/anova.elliptical.Rd | 13 gwer-3.0/gwer/man/bw.gwer.Rd |only gwer-3.0/gwer/man/elliptical.Rd | 21 - gwer-3.0/gwer/man/elliptical.diag.Rd | 47 +-- gwer-3.0/gwer/man/elliptical.diag.plots.Rd | 29 -- gwer-3.0/gwer/man/elliptical.envelope.Rd |only gwer-3.0/gwer/man/family.elliptical.Rd | 6 gwer-3.0/gwer/man/gwer.Rd | 305 ++++++++++----------- gwer-3.0/gwer/man/gwer.diag.Rd | 66 +--- gwer-3.0/gwer/man/gwer.diag.plots.Rd | 60 +--- gwer-3.0/gwer/man/gwer.envelope.Rd |only gwer-3.0/gwer/man/gwer.montecarlo.Rd |only gwer-3.0/gwer/man/gwer.multiscale.Rd |only gwer-3.0/gwer/man/gwer.multiscale.diag.Rd |only gwer-3.0/gwer/man/gwer.multiscale.diag.plots.Rd |only gwer-3.0/gwer/man/residuals.elliptical.Rd | 14 gwer-3.0/gwer/man/residuals.gwer.Rd | 35 -- gwer-3.0/gwer/man/summary.elliptical.Rd | 12 gwer-3.0/gwer/man/summary.gwer.Rd | 37 -- 46 files changed, 776 insertions(+), 881 deletions(-)
Title: Binary Classification via GMDH-Type Neural Network Algorithms
Description: Performs binary classification via Group Method of Data Handling (GMDH) - type neural network algorithms. There exist two main algorithms available in GMDH() and dceGMDH() functions. GMDH() performs classification via GMDH algorithm for a binary response and returns important variables. dceGMDH() performs classification via diverse classifiers ensemble based on GMDH (dce-GMDH) algorithm. Also, the package produces a well-formatted table of descriptives for a binary response. Moreover, it produces confusion matrix, its related statistics and scatter plot (2D and 3D) with classification labels of binary classes to assess the prediction performance. All 'GMDH2' functions are designed for a binary response (Dag et al., 2019, <https://download.atlantis-press.com/article/125911202.pdf>).
Author: Osman Dag [aut, cre], Erdem Karabulut [aut], Reha Alpar [aut], Merve Kasikci [ctb]
Maintainer: Osman Dag <osman.dag@outlook.com>
Diff between GMDH2 versions 1.5 dated 2019-07-22 and 1.6 dated 2021-04-28
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- inst/citation | 15 +++++++++++++-- 3 files changed, 20 insertions(+), 9 deletions(-)
Title: Times and Dates from S-PLUS
Description: A collection of classes and methods for working with
times and dates. The code was originally available in S-PLUS.
Author: Stephen Kaluzny [aut, cre],
TIBCO Software Inc. [aut, cph]
Maintainer: Stephen Kaluzny <spkaluzny@gmail.com>
Diff between splusTimeDate versions 2.5.0-142 dated 2019-04-19 and 2.5.2 dated 2021-04-27
DESCRIPTION | 25 ++++++++++++++++--------- LICENSE | 2 ++ MD5 | 10 +++++----- NAMESPACE | 4 +++- R/align.R | 2 ++ man/class.time.zone.Rd | 5 +++-- 6 files changed, 31 insertions(+), 17 deletions(-)
Title: Multiple Pairwise Comparison Tests
Description: Multiple pairwise comparison tests on tidy data for
one-way analysis of variance for both between-subjects and
within-subjects designs. Currently, it supports only the most common
types of statistical analyses and tests: parametric (Welch's and
Student's t-test), nonparametric (Durbin-Conover and Dunn test),
robust (Yuen’s trimmed means test), and Bayes Factor (Student's
t-test).
Author: Indrajeet Patil [cre, aut, cph]
(<https://orcid.org/0000-0003-1995-6531>, @patilindrajeets)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between pairwiseComparisons versions 3.1.3 dated 2021-02-03 and 3.1.5 dated 2021-04-27
pairwiseComparisons-3.1.3/pairwiseComparisons/build |only pairwiseComparisons-3.1.3/pairwiseComparisons/data/iris_long.rdata |only pairwiseComparisons-3.1.3/pairwiseComparisons/man/iris_long.Rd |only pairwiseComparisons-3.1.3/pairwiseComparisons/tests/README.md |only pairwiseComparisons-3.1.5/pairwiseComparisons/DESCRIPTION | 12 pairwiseComparisons-3.1.5/pairwiseComparisons/LICENSE | 4 pairwiseComparisons-3.1.5/pairwiseComparisons/MD5 | 58 pairwiseComparisons-3.1.5/pairwiseComparisons/NAMESPACE | 101 pairwiseComparisons-3.1.5/pairwiseComparisons/NEWS.md | 250 +- pairwiseComparisons-3.1.5/pairwiseComparisons/R/data.R | 226 - pairwiseComparisons-3.1.5/pairwiseComparisons/R/global_vars.R | 36 pairwiseComparisons-3.1.5/pairwiseComparisons/R/helpers.R | 252 +- pairwiseComparisons-3.1.5/pairwiseComparisons/R/pairwise_comparisons.R | 684 ++---- pairwiseComparisons-3.1.5/pairwiseComparisons/R/reexports.R | 49 pairwiseComparisons-3.1.5/pairwiseComparisons/README.md | 1140 +++++----- pairwiseComparisons-3.1.5/pairwiseComparisons/inst/CITATION | 10 pairwiseComparisons-3.1.5/pairwiseComparisons/inst/WORDLIST | 93 pairwiseComparisons-3.1.5/pairwiseComparisons/man/figures/README-ggsignif-1.png |binary pairwiseComparisons-3.1.5/pairwiseComparisons/man/figures/README-ggsignif2-1.png |binary pairwiseComparisons-3.1.5/pairwiseComparisons/man/movies_long.Rd | 92 pairwiseComparisons-3.1.5/pairwiseComparisons/man/movies_wide.Rd | 96 pairwiseComparisons-3.1.5/pairwiseComparisons/man/p_adjust_text.Rd | 2 pairwiseComparisons-3.1.5/pairwiseComparisons/man/pairwise_caption.Rd | 2 pairwiseComparisons-3.1.5/pairwiseComparisons/man/pairwise_comparisons.Rd | 418 +-- pairwiseComparisons-3.1.5/pairwiseComparisons/man/reexports.Rd | 3 pairwiseComparisons-3.1.5/pairwiseComparisons/tests/spelling.R | 12 pairwiseComparisons-3.1.5/pairwiseComparisons/tests/testthat.R | 8 pairwiseComparisons-3.1.5/pairwiseComparisons/tests/testthat/_snaps |only pairwiseComparisons-3.1.5/pairwiseComparisons/tests/testthat/test-additional_args.R |only pairwiseComparisons-3.1.5/pairwiseComparisons/tests/testthat/test-pairwise_caption_helpers.R | 118 - pairwiseComparisons-3.1.5/pairwiseComparisons/tests/testthat/test-pairwise_comparisons_between.R | 771 ++---- pairwiseComparisons-3.1.5/pairwiseComparisons/tests/testthat/test-pairwise_comparisons_within.R | 614 ++--- 32 files changed, 2366 insertions(+), 2685 deletions(-)
More information about pairwiseComparisons at CRAN
Permanent link
Title: A High-Performance Local Taxonomic Database Interface
Description: Creates a local database of many commonly used taxonomic authorities
and provides functions that can quickly query this data.
Author: Carl Boettiger [aut, cre] (<https://orcid.org/0000-0002-1642-628X>),
Kari Norman [aut] (<https://orcid.org/0000-0002-2029-2325>),
Jorrit Poelen [aut] (<https://orcid.org/0000-0003-3138-4118>),
Scott Chamberlain [aut] (<https://orcid.org/0000-0003-1444-9135>),
Noam Ross [ctb] (<https://orcid.org/0000-0002-2136-0000>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between taxadb versions 0.1.2 dated 2021-03-15 and 0.1.3 dated 2021-04-27
DESCRIPTION | 7 +++---- MD5 | 16 ++++++++-------- inst/doc/backends.Rmd | 2 +- inst/doc/backends.html | 6 +++--- inst/doc/data-sources.html | 4 ++-- tests/testthat/test-filter_by.R | 2 +- tests/testthat/test-fuzzy_filter.R | 12 ++++++------ tests/testthat/test-get_ids.R | 6 +++--- vignettes/backends.Rmd | 2 +- 9 files changed, 28 insertions(+), 29 deletions(-)
Title: Stochastic Process Model for Analysis of Longitudinal and
Time-to-Event Outcomes
Description: Utilities to estimate parameters of the models with survival functions
induced by stochastic covariates. Miscellaneous functions for data preparation
and simulation are also provided. For more information, see:
(i)"Stochastic model for analysis of longitudinal data on aging and mortality"
by Yashin A. et al. (2007),
Mathematical Biosciences, 208(2), 538-551, <DOI:10.1016/j.mbs.2006.11.006>;
(ii) "Health decline, aging and mortality: how are they related?"
by Yashin A. et al. (2007),
Biogerontology 8(3), 291(302), <DOI:10.1007/s10522-006-9073-3>.
Author: I. Zhbannikov, Liang He, K. Arbeev, I. Akushevich, A. Yashin.
Maintainer: Ilya Y. Zhbannikov <ilya.zhbannikov@duke.edu>
Diff between stpm versions 1.7.9 dated 2020-11-28 and 1.7.10 dated 2021-04-27
DESCRIPTION | 10 MD5 | 32 R/spm_continuous.R | 7 R/spm_continuous_linear.R | 7 R/spm_continuous_quadratic_linear.R | 9 R/spm_pobs.R | 6 R/spm_projection.R | 1 R/spm_time-dependent.R | 12 build/vignette.rds |binary inst/NEWS | 4 inst/doc/stpm-vignette.html | 1544 ++++++++++++++++++------------------ man/spm_cont_lin.Rd | 1 man/spm_cont_quad_lin.Rd | 1 man/spm_continuous.Rd | 1 man/spm_projection.Rd | 1 man/spm_time_dep.Rd | 1 src/Makevars | 2 17 files changed, 838 insertions(+), 801 deletions(-)
Title: NEON Data Store
Description: The National Ecological Observatory Network (NEON) provides access
to its numerous data products through its REST API,
<https://data.neonscience.org/data-api/>. This package provides a
high-level user interface for downloading and storing NEON data products.
While each of NEON data products consist of hundreds or thousands of individual
files. Unlike 'neonUtilities', this package will avoid repeated downloading,
provides persistent storage, and improves performance. 'neonstore' can also
construct a local 'duckdb' database of stacked tables, making it possible
to work with tables that are far to big to fit into memory.
Author: Carl Boettiger [aut, cre] (<https://orcid.org/0000-0002-1642-628X>),
Quinn Thomas [aut] (<https://orcid.org/0000-0003-1282-7825>),
Christine Laney [aut] (<https://orcid.org/0000-0002-4944-2083>),
Claire Lunch [aut] (<https://orcid.org/0000-0001-8753-6593>),
Noam Ross [ctb] (<https://orcid.org/0000-0002-2136-0000>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between neonstore versions 0.4.2 dated 2021-04-08 and 0.4.3 dated 2021-04-27
neonstore-0.4.2/neonstore/inst/examples/efi_download.R |only neonstore-0.4.2/neonstore/tests/testthat/test-releases.R |only neonstore-0.4.3/neonstore/DESCRIPTION | 6 ++-- neonstore-0.4.3/neonstore/MD5 | 12 +++------ neonstore-0.4.3/neonstore/NEWS.md | 5 +++ neonstore-0.4.3/neonstore/R/neon_filename_parser.R | 20 +++++++++++---- neonstore-0.4.3/neonstore/R/neon_index.R | 7 +++-- neonstore-0.4.3/neonstore/inst/examples/thelio_mirror.R | 19 ++++++++++++-- 8 files changed, 49 insertions(+), 20 deletions(-)
Title: An Interface for Content-Based Identifiers
Description: An interface for creating, registering, and resolving content-based
identifiers for data management. Content-based identifiers rely on
the 'cryptographic' hashes to refer to the files they identify, thus,
anyone possessing the file can compute the identifier using a
well-known standard algorithm, such as 'SHA256'. By registering
a URL at which the content is accessible to a public archive (such as
Hash Archive) or depositing data in a scientific repository such 'Zenodo',
'DataONE' or 'SoftwareHeritage', the content identifier can serve
many functions typically associated with A Digital Object Identifier
('DOI'). Unlike location-based identifiers like 'DOIs', content-based
identifiers permit the same content to be registered in many locations.
Author: Carl Boettiger [aut, cre] (<https://orcid.org/0000-0002-1642-628X>),
Jorrit Poelen [aut] (<https://orcid.org/0000-0003-3138-4118>),
NSF OAC 1839201 [fnd]
(https://www.nsf.gov/awardsearch/showAward?AWD_ID=1839201)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between contentid versions 0.0.9 dated 2021-01-15 and 0.0.10 dated 2021-04-27
contentid-0.0.10/contentid/DESCRIPTION | 12 contentid-0.0.10/contentid/MD5 | 59 ++-- contentid-0.0.10/contentid/NEWS.md | 4 contentid-0.0.10/contentid/R/bagit.R | 2 contentid-0.0.10/contentid/R/content_id.R | 30 +- contentid-0.0.10/contentid/R/dataone_registry.R |only contentid-0.0.10/contentid/R/default_registries.R |only contentid-0.0.10/contentid/R/hash-archive.R | 16 + contentid-0.0.10/contentid/R/local_registry.R | 32 +- contentid-0.0.10/contentid/R/pin.R | 16 - contentid-0.0.10/contentid/R/query_history.R | 58 ++-- contentid-0.0.10/contentid/R/query_sources.R | 137 +++++----- contentid-0.0.10/contentid/R/register.R | 45 --- contentid-0.0.10/contentid/R/resolve.R | 10 contentid-0.0.10/contentid/R/retrieve.R | 11 contentid-0.0.10/contentid/R/software-heritage.R | 6 contentid-0.0.10/contentid/R/store.R | 42 ++- contentid-0.0.10/contentid/R/utils.R | 6 contentid-0.0.10/contentid/R/zenodo_registry.R |only contentid-0.0.10/contentid/README.md | 8 contentid-0.0.10/contentid/inst/doc/intro.Rmd | 6 contentid-0.0.10/contentid/inst/doc/intro.html | 15 - contentid-0.0.10/contentid/man/pin.Rd | 9 contentid-0.0.10/contentid/man/query_history.Rd | 11 contentid-0.0.10/contentid/man/resolve.Rd | 2 contentid-0.0.10/contentid/man/store.Rd | 5 contentid-0.0.10/contentid/tests/testthat/test-dataone.R |only contentid-0.0.10/contentid/tests/testthat/test-pin.R | 18 - contentid-0.0.10/contentid/tests/testthat/test-register-query.R | 2 contentid-0.0.10/contentid/tests/testthat/test-remote_api.R | 15 - contentid-0.0.10/contentid/vignettes/intro.Rmd | 6 contentid-0.0.10/contentid/vignettes/intro.Rmd-source | 4 contentid-0.0.9/contentid/inst/examples/dataone_registry.R |only 33 files changed, 355 insertions(+), 232 deletions(-)
Title: Analyzing High-Throughput Single Cell Sequencing Data
Description: A toolkit that allows scientists to work with data from single cell sequencing technologies such as scRNA-seq, scVDJ-seq and CITE-Seq. Single (i) Cell R package ('iCellR') provides unprecedented flexibility at every step of the analysis pipeline, including normalization, clustering, dimensionality reduction, imputation, visualization, and so on. Users can design both unsupervised and supervised models to best suit their research. In addition, the toolkit provides 2D and 3D interactive visualizations, differential expression analysis, filters based on cells, genes and clusters, data merging, normalizing for dropouts, data imputation methods, correcting for batch differences, pathway analysis, tools to find marker genes for clusters and conditions, predict cell types and pseudotime analysis. See Khodadadi-Jamayran, et al (2020) <doi:10.1101/2020.05.05.078550> and Khodadadi-Jamayran, et al (2020) <doi:10.1101/2020.03.31.019109> for more details.
Author: Alireza Khodadadi-Jamayran [aut, cre]
(<https://orcid.org/0000-0003-2495-7504>),
Joseph Pucella [aut, ctb] (<https://orcid.org/0000-0003-0875-8046>),
Hua Zhou [aut, ctb] (<https://orcid.org/0000-0003-1822-1306>),
Nicole Doudican [aut, ctb] (<https://orcid.org/0000-0003-3827-9644>),
John Carucci [aut, ctb] (<https://orcid.org/0000-0001-6817-9439>),
Adriana Heguy [aut, ctb],
Boris Reizis [aut, ctb] (<https://orcid.org/0000-0003-1140-7853>),
Aristotelis Tsirigos [aut, ctb]
(<https://orcid.org/0000-0002-7512-8477>)
Maintainer: Alireza Khodadadi-Jamayran <alireza.khodadadi.j@gmail.com>
Diff between iCellR versions 1.6.1 dated 2021-03-04 and 1.6.4 dated 2021-04-27
DESCRIPTION | 6 +++--- MD5 | 44 +++++++++++++++++++++++--------------------- NAMESPACE | 1 + R/F00100.R | 8 ++++++-- R/F0021.R | 27 ++++++++++++++++++++------- R/F0022.R | 36 +++++++++++++++++++++++++++++------- R/F0028.R | 18 ++++++++++++++---- R/F0030.R | 8 +++++++- R/F0031.R | 8 +++++++- R/F0044.R | 1 + R/F0057.R | 2 +- R/F0058.R | 16 +++++++++++++++- R/F0070.R | 26 +++++++++++++++----------- R/F0072.R |only R/F008.R | 43 +++++++++++++++++++++++++++++++++++++++---- man/clust.avg.exp.Rd | 14 ++++++++++++-- man/findMarkers.Rd | 2 +- man/gene.plot.Rd | 2 +- man/heatmap.gg.plot.Rd | 2 +- man/hto.anno.Rd | 2 +- man/make.bed.Rd |only man/norm.data.Rd | 14 +++++++++++++- man/run.impute.Rd | 9 +++++++++ man/spatial.plot.Rd | 2 +- 24 files changed, 220 insertions(+), 71 deletions(-)
Title: Smooth Additive Quantile Regression Models
Description: Smooth additive quantile regression models, fitted using
the methods of Fasiolo et al. (2017) <arXiv:1707.03307>. Differently from
'quantreg', the smoothing parameters are estimated automatically by marginal
loss minimization, while the regression coefficients are estimated using either
PIRLS or Newton algorithm. The learning rate is determined so that the Bayesian
credible intervals of the estimated effects have approximately the correct
coverage. The main function is qgam() which is similar to gam() in 'mgcv', but
fits non-parametric quantile regression models.
Author: Matteo Fasiolo [aut, cre],
Simon N. Wood [ctb],
Margaux Zaffran [ctb],
Yannig Goude [ctb],
Raphael Nedellec [ctb]
Maintainer: Matteo Fasiolo <matteo.fasiolo@gmail.com>
Diff between qgam versions 1.3.2 dated 2020-02-03 and 1.3.3 dated 2021-04-27
DESCRIPTION | 12 ++-- MD5 | 57 ++++++++++---------- R/I_tuneLearnFullFits.R | 3 + R/check_learn.R | 6 +- R/check_learnFast.R | 6 +- R/check_qgam.R | 8 +- R/cqcheck.R | 4 - R/elf.R | 6 +- R/elflss.R | 93 ++++++++++++++++++++++---------- R/log1pexp.R | 5 + R/mqgam.R | 6 +- R/qgam.R | 6 +- R/tuneLearn.R | 8 ++ R/tuneLearnFast.R | 11 +++ README.md |only build/vignette.rds |binary inst/doc/qgam.R | 60 ++++++++++----------- inst/doc/qgam.Rmd | 2 inst/doc/qgam.html | 136 +++++++++++++++++++++--------------------------- man/UKload.Rd | 2 man/check.learn.Rd | 6 +- man/check.learnFast.Rd | 6 +- man/check.qgam.Rd | 6 +- man/elf.Rd | 6 +- man/elflss.Rd | 6 +- man/mqgam.Rd | 6 +- man/qgam.Rd | 6 +- man/tuneLearn.Rd | 6 +- man/tuneLearnFast.Rd | 6 +- vignettes/qgam.Rmd | 2 30 files changed, 278 insertions(+), 209 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included.
The standard textbook for such data is John Aitchison's (1986) "The statistical analysis of compositional data". Relevant papers include:
a) Tsagris M.T., Preston S. and Wood A.T.A. (2011). A data-based power transformation for compositional data. Fourth International International Workshop on Compositional Data Analysis.
b) Tsagris M. (2014). The k-NN algorithm for compositional data: a revised approach with and without zero values present. Journal of Data Science, 12(3):519--534.
c) Tsagris M. (2015). A novel, divergence based, regression for compositional data. Proceedings of the 28th Panhellenic Statistics Conference, 15-18 April 2015, Athens, Greece, 430--444.
d) Tsagris M. (2015). Regression analysis with compositional data containing zero values. Chilean Journal of Statistics, 6(2):47--57.
e) Tsagris M., Preston S. and Wood A.T.A. (2016). Improved supervised classification for compositional data using the alpha-transformation. Journal of Classification, 33(2):243--261. <doi:10.1007/s00357-016-9207-5>.
f) Tsagris M., Preston S. and Wood A.T.A. (2017). Nonparametric hypothesis testing for equality of means on the simplex. Journal of Statistical Computation and Simulation, 87(2): 406--422. <doi:10.1080/00949655.2016.1216554>.
g) Tsagris M. and Stewart C. (2018). A Dirichlet regression model for compositional data with zeros. Lobachevskii Journal of Mathematics,39(3): 398--412. <doi:10.1134/S1995080218030198>.
h) Alenazi A. (2019). Regression for compositional data with compositional data as predictor variables with or without zero values. Journal of Data Science, 17(1): 219--238. <doi:10.6339/JDS.201901_17(1).0010>.
i) Tsagris M. and Stewart C. (2020). A folded model for compositional data analysis. Australian and New Zealand Journal of Statistics, 62(2):249--277. <doi:10.1111/anzs.12289>.
j) Tsagris M., Alenazi A. and Stewart C. (2020). The alpha-k-NN regression for compositional data. <arXiv:2002.05137>.
We further include functions for percentages (or proportions).
Author: Michail Tsagris [aut, cre],
Giorgos Athineou [aut],
Abdulaziz Alenazi [ctb]
Maintainer: Michail Tsagris <mtsagris@uoc.gr>
Diff between Compositional versions 4.5 dated 2021-03-23 and 4.6 dated 2021-04-27
DESCRIPTION | 9 +++----- MD5 | 14 ++++++------ R/aknnreg.tune.R | 48 +++---------------------------------------- R/compppr.tune.R | 44 +++++++++------------------------------ R/lc.reg.R | 10 +++++--- man/Compositional-package.Rd | 4 +-- man/aknnreg.tune.Rd | 13 +---------- man/compppr.tune.Rd | 31 ++++++++------------------- 8 files changed, 46 insertions(+), 127 deletions(-)
Title: Uncertainty in Partial Credit Models
Description: Provides an extension to the Partial Credit Model and Generalized Partial Credit Models which allows for an additional person parameter that characterizes the uncertainty of the person. The method was originally proposed by Tutz and Schauberger (2020) <doi:10.1177/0146621620920932>.
Author: Gunther Schauberger
Maintainer: Gunther Schauberger <gunther.schauberger@tum.de>
Diff between UPCM versions 0.0-2 dated 2021-04-26 and 0.0-3 dated 2021-04-27
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NAMESPACE | 2 +- R/UPCM-package.R | 8 -------- R/UPCM.R | 7 +++---- man/UPCM-package.Rd | 8 -------- man/UPCM.Rd | 7 +++---- 7 files changed, 17 insertions(+), 35 deletions(-)
Title: Analysis of Data with Measurement Error Using a Validation
Subsample
Description: Analyze data with measurement error when there is a validation subsample randomly selected from the full sample. The method assumes surrogate variables measured with error are available for the full sample, and reference variables measured with little or no error are available for this randomly selected subsample of the full sample. Measurement errors may be differential or non differential, in any or all predictors (simultaneously) as well as outcome. The "augmented" estimates derived are based upon the multivariate correlation between regression model parameter estimates for the reference variables and for the surrogate variables in the validation subset. Because the validation subsample is chosen at random whatever biases are imposed by measurement error, non-differential or differential, are reflected in this correlation and can be used to derive estimates for the reference variables using data from the whole sample. The main functions in the package are meerva.fit which calculates estimates for a dataset, and meerva.sim.block which simulates multiple datasets as described by the user, and analyzes these datasets, storing the regression coefficient estimates for inspection. This work derives from Chen Y-H, Chen H. (2000) <doi:10.1111/1467-9868.00243>, Chen Y-H. (2002) <doi:10.1111/1467-9868.00324>, Wang X, Wang Q (2015) <doi:10.1016/j.jmva.2015.05.017> and Tong J, Huang J, Chubak J, et al. (2020) <doi:10.1093/jamia/ocz180>.
Author: Walter K Kremers [aut, cre] (<https://orcid.org/0000-0001-5714-3473>)
Maintainer: Walter K Kremers <kremers.walter@mayo.edu>
Diff between meerva versions 0.1-1 dated 2021-04-19 and 0.1-2 dated 2021-04-27
meerva-0.1-1/meerva/R/meerva.sim.brn_210412.R |only meerva-0.1-1/meerva/R/meerva.sim.cox_210412.R |only meerva-0.1-1/meerva/R/meerva.sim.nrm_210412.R |only meerva-0.1-1/meerva/R/meerva.sim.tools_210414.R |only meerva-0.1-1/meerva/R/meerva_210412.R |only meerva-0.1-2/meerva/DESCRIPTION | 10 ++--- meerva-0.1-2/meerva/MD5 | 47 ++++++++++++------------ meerva-0.1-2/meerva/R/meerva.sim.brn_210424.R |only meerva-0.1-2/meerva/R/meerva.sim.cox_210424.R |only meerva-0.1-2/meerva/R/meerva.sim.nrm_210424.R |only meerva-0.1-2/meerva/R/meerva.sim.tools_210424.R |only meerva-0.1-2/meerva/R/meerva_210424.R |only meerva-0.1-2/meerva/man/compmse.Rd | 2 - meerva-0.1-2/meerva/man/coverage.Rd | 2 - meerva-0.1-2/meerva/man/coverage2.Rd | 2 - meerva-0.1-2/meerva/man/dfbetac.Rd | 2 - meerva-0.1-2/meerva/man/meerva.Rd | 4 +- meerva-0.1-2/meerva/man/meerva.fit.Rd | 9 +++- meerva-0.1-2/meerva/man/meerva.sim.block.Rd | 13 +++--- meerva-0.1-2/meerva/man/meerva.sim.brn.Rd | 2 - meerva-0.1-2/meerva/man/meerva.sim.cox.Rd | 2 - meerva-0.1-2/meerva/man/meerva.sim.nrm.Rd | 2 - meerva-0.1-2/meerva/man/myttest.Rd | 2 - meerva-0.1-2/meerva/man/plot.meerva.sim.Rd | 2 - meerva-0.1-2/meerva/man/print.meerva.Rd | 2 - meerva-0.1-2/meerva/man/reldif.Rd | 2 - meerva-0.1-2/meerva/man/subvec.Rd | 2 - meerva-0.1-2/meerva/man/summary.meerva.Rd | 2 - meerva-0.1-2/meerva/man/summary.meerva.sim.Rd | 8 ++-- meerva-0.1-2/meerva/man/ztest.Rd |only 30 files changed, 62 insertions(+), 55 deletions(-)
Title: Generate Concentration-Time Profiles from Linear PK Systems
Description: Generate concentration-time profiles from linear pharmacokinetic
(PK) systems, possibly with first-order absorption or zero-order infusion,
possibly with one or more peripheral compartments, and possibly under
steady-state conditions. Single or multiple doses may be specified. Secondary
(derived) PK parameters (e.g. Cmax, Ctrough, AUC, Tmax, half-life, etc.) are
computed.
Author: Benjamin Rich [aut, cre]
Maintainer: Benjamin Rich <mail@benjaminrich.net>
Diff between linpk versions 1.0 dated 2018-06-12 and 1.1.1 dated 2021-04-27
DESCRIPTION | 19 + MD5 | 26 +- NEWS.md | 10 R/linpk.R | 6 README.md | 9 build/vignette.rds |binary inst/doc/linpk-intro.Rmd | 13 - inst/doc/linpk-intro.html | 395 +++++++++++++------------------------- man/as.data.frame.pkprofile.Rd | 3 man/generateETA.Rd | 8 man/pkprofile.Rd | 34 ++- man/pkprofile.pkprofile.Rd | 3 vignettes/linpk-intro.Rmd | 13 - vignettes/vignette.css | 416 ++++++++++++++++++++--------------------- 14 files changed, 444 insertions(+), 511 deletions(-)
Title: Hidden Markov Models
Description: Contains functions for the analysis of Discrete Time Hidden Markov Models, Markov Modulated GLMs and the Markov Modulated Poisson Process. It includes functions for simulation, parameter estimation, and the Viterbi algorithm. See the topic "HiddenMarkov" for an introduction to the package, and "Change Log" for a list of recent changes. The algorithms are based of those of Walter Zucchini.
Author: David Harte
Maintainer: David Harte <d.s.harte@gmail.com>
Diff between HiddenMarkov versions 1.8-11 dated 2017-11-01 and 1.8-13 dated 2021-04-27
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- build/partial.rdb |binary inst/doc/index.html | 22 +++++++++++----------- man/Changes.Rd | 2 ++ man/HiddenMarkov.Rd | 4 ++-- 6 files changed, 25 insertions(+), 23 deletions(-)
Title: Density Based Clustering of Applications with Noise (DBSCAN) and
Related Algorithms
Description: A fast reimplementation of several density-based algorithms of
the DBSCAN family for spatial data. Includes the clustering algorithms
DBSCAN (density-based spatial clustering of applications with noise)
and HDBSCAN (hierarchical DBSCAN), the ordering algorithm
OPTICS (ordering points to identify the clustering structure),
and the outlier detection algorithm LOF (local outlier factor).
The implementations use the kd-tree data structure (from library ANN) for faster k-nearest neighbor search.
An R interface to fast kNN and fixed-radius NN search is also provided.
Hahsler, Piekenbrock and Doran (2019) <doi:10.18637/jss.v091.i01>.
Author: Michael Hahsler [aut, cre, cph],
Matthew Piekenbrock [aut, cph],
Sunil Arya [ctb, cph],
David Mount [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between dbscan versions 1.1-7 dated 2021-04-22 and 1.1-8 dated 2021-04-27
DESCRIPTION | 8 - MD5 | 28 ++-- NEWS.md | 5 R/LOF.R | 5 R/frNN.R | 2 build/partial.rdb |binary inst/doc/dbscan.pdf |binary src/R_kNN.cpp | 7 - src/R_lof.cpp | 29 ++-- src/R_regionQuery.cpp | 4 src/R_regionQuery.h | 8 - src/kd_fix_rad_search.cpp | 6 - tests/testthat/test-frNN.R | 3 tests/testthat/test-kNN.R | 2 tests/testthat/test-lof.R | 263 ++++++++++++++++++--------------------------- 15 files changed, 165 insertions(+), 205 deletions(-)
Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous time state space modelling, for linear
and nonlinear systems measured by continuous variables, with limited support for
binary data. The subject specific dynamic system is modelled as a stochastic
differential equation (SDE), measurement models are typically multivariate normal factor models.
Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default.
Nonlinearities, (state dependent parameters) and random effects on all parameters
are possible, using either max likelihood / max a posteriori optimization
(with optional importance sampling) or
Stan's Hamiltonian Monte Carlo sampling. See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf>
for details. Priors may be used. For the conceptual
overview of the hierarchical Bayesian linear SDE approach, see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Modeling>.
Exogenous inputs may also be included, for an overview of such possibilities see <https://www.researchgate.net/publication/328221807_Understanding_the_Time_Course_of_Interventions_with_Continuous_Time_Dynamic_Models> .
Stan based functions are not available on 32 bit Windows systems at present.
<https://cdriver.netlify.app/> contains some tutorial blog posts.
Author: Charles Driver [aut, cre, cph],
Manuel Voelkle [aut, cph],
Han Oud [aut, cph],
Trustees of Columbia University [cph]
Maintainer: Charles Driver <charles.driver@ibe.uzh.ch>
Diff between ctsem versions 3.4.2 dated 2021-02-24 and 3.4.3 dated 2021-04-27
ctsem-3.4.2/ctsem/man/ctStanParMatrices.Rd |only ctsem-3.4.3/ctsem/DESCRIPTION | 12 ctsem-3.4.3/ctsem/MD5 | 81 - ctsem-3.4.3/ctsem/NAMESPACE | 2 ctsem-3.4.3/ctsem/NEWS | 8 ctsem-3.4.3/ctsem/R/ctCheckFit.R | 7 ctsem-3.4.3/ctsem/R/ctDiscretePars.R | 10 ctsem-3.4.3/ctsem/R/ctFitMultiModel.R |only ctsem-3.4.3/ctsem/R/ctKalman.R | 52 - ctsem-3.4.3/ctsem/R/ctStanContinuousPars.R | 5 ctsem-3.4.3/ctsem/R/ctStanData.R | 28 ctsem-3.4.3/ctsem/R/ctStanFit.R | 13 ctsem-3.4.3/ctsem/R/ctStanModel.R | 2 ctsem-3.4.3/ctsem/R/ctStanModelWriter.R | 60 - ctsem-3.4.3/ctsem/R/ctStanParMatrices.R | 118 +- ctsem-3.4.3/ctsem/R/ctStanTIpredeffects.R | 86 - ctsem-3.4.3/ctsem/R/ctSummarise.R | 450 +++++----- ctsem-3.4.3/ctsem/R/ctsem.R | 2 ctsem-3.4.3/ctsem/R/extract.ctStanFit.R | 4 ctsem-3.4.3/ctsem/R/llsurface.R | 32 ctsem-3.4.3/ctsem/R/sdpcor2cov.R | 4 ctsem-3.4.3/ctsem/R/sgd.R | 103 -- ctsem-3.4.3/ctsem/R/stanoptimis.R | 173 ++- ctsem-3.4.3/ctsem/R/summary.ctStanFit.R | 6 ctsem-3.4.3/ctsem/build/vignette.rds |binary ctsem-3.4.3/ctsem/data/ctstantestdat.rda |binary ctsem-3.4.3/ctsem/data/ctstantestfit.rda |binary ctsem-3.4.3/ctsem/inst/doc/hierarchicalmanual.R | 25 ctsem-3.4.3/ctsem/inst/doc/hierarchicalmanual.pdf |binary ctsem-3.4.3/ctsem/inst/doc/hierarchicalmanual.rnw | 28 ctsem-3.4.3/ctsem/man/ctCheckFit.Rd | 2 ctsem-3.4.3/ctsem/man/ctFitMultiModel.Rd |only ctsem-3.4.3/ctsem/man/ctKalman.Rd | 2 ctsem-3.4.3/ctsem/man/ctStanDiscretePars.Rd | 2 ctsem-3.4.3/ctsem/man/ctStanTIpredeffects.Rd | 4 ctsem-3.4.3/ctsem/man/stanoptimis.Rd | 4 ctsem-3.4.3/ctsem/src/Makevars.win | 2 ctsem-3.4.3/ctsem/src/stan_files/ctsm.stan | 64 - ctsem-3.4.3/ctsem/src/stan_files/ctsmgen.stan | 64 - ctsem-3.4.3/ctsem/tests/testthat/test-ctRaschExampleTest.R | 4 ctsem-3.4.3/ctsem/tests/testthat/test-knownFits.R | 4 ctsem-3.4.3/ctsem/vignettes/hierarchicalmanual-concordance.tex | 6 ctsem-3.4.3/ctsem/vignettes/hierarchicalmanual.rnw | 28 43 files changed, 763 insertions(+), 734 deletions(-)
Title: Simple Interface to 'Microsoft Graph'
Description: A simple interface to the 'Microsoft Graph' API <https://docs.microsoft.com/en-us/graph/overview>. 'Graph' is a comprehensive framework for accessing data in various online Microsoft services. Currently, this package aims to provide an R interface only to the 'Azure Active Directory' part, with a view to supporting interoperability of R and 'Azure': users, groups, registered apps and service principals. However it can be easily extended to cover other services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureGraph versions 1.2.2 dated 2021-04-06 and 1.3.0 dated 2021-04-27
DESCRIPTION | 6 - MD5 | 65 +++++++------ NAMESPACE | 3 NEWS.md | 15 +++ R/az_app.r | 16 ++- R/az_device.R | 2 R/az_dir_role.R | 13 ++ R/az_group.R | 37 +++++-- R/az_object.R | 32 ++++-- R/az_svc_principal.R | 2 R/az_user.R | 58 +++++++----- R/ms_graph.R | 144 ++++++++++++++++++++++++++---- R/ms_graph_pager.R |only R/ms_object.R | 65 ++++++++++--- R/zzz_class_directory.R | 13 ++ README.md | 8 + build/vignette.rds |binary inst/doc/batching_paging.Rmd |only inst/doc/batching_paging.html |only inst/doc/intro.Rmd | 34 +++++-- inst/doc/intro.html | 186 +++++++++++++++++++++------------------- man/az_app.Rd | 11 +- man/az_device.Rd | 2 man/az_directory_role.Rd | 8 + man/az_group.Rd | 24 +++-- man/az_object.Rd | 11 +- man/az_service_principal.Rd | 2 man/az_user.Rd | 26 ++++- man/extract_list_values.Rd |only man/find_class_generator.Rd |only man/ms_graph.Rd | 55 +++++++++-- man/ms_graph_pager.Rd |only man/ms_object.Rd | 61 +++++++++---- tests/testthat/test03_usergrp.R | 19 +++- tests/testthat/test05_pager.R |only tests/testthat/test06_filter.R |only vignettes/batching_paging.Rmd |only vignettes/intro.Rmd | 34 +++++-- 38 files changed, 668 insertions(+), 284 deletions(-)
Title: Multiple Imputation for Recurrent Events
Description: Performs reference based multiple imputation of recurrent event data
based on a negative binomial regression model, as described
by Keene et al (2014) <doi:10.1002/pst.1624>.
Author: Nikolas Burkoff [aut],
Paul Metcalfe [aut],
Jonathan Bartlett [aut, cre],
David Ruau [aut]
Maintainer: Jonathan Bartlett <j.w.bartlett@bath.ac.uk>
Diff between dejaVu versions 0.2.1 dated 2021-01-13 and 0.3.0 dated 2021-04-27
DESCRIPTION | 7 +-- MD5 | 24 +++++------ NEWS.md | 2 R/copyRefImpute.r | 13 ++++-- R/specificImputeMechanisms.R | 12 +++-- build/vignette.rds |binary inst/doc/UserGuide.pdf |binary inst/doc/analysingExistingDatasets.Rnw | 2 inst/doc/analysingExistingDatasets.pdf |binary man/copy_reference.Rd | 8 +++ man/weighted_j2r.Rd | 7 ++- tests/testthat/test-CopyReference.R | 67 ++++++++++++++++++++++++++++++++ vignettes/analysingExistingDatasets.Rnw | 2 13 files changed, 117 insertions(+), 27 deletions(-)
Title: Biodiversity Assessment Tools
Description: Includes algorithms to assess alpha and beta diversity
in all their dimensions (taxonomic, phylogenetic and functional).
It allows performing a number of analyses based on species
identities/abundances, phylogenetic/functional distances, trees,
convex-hulls or kernel density n-dimensional hypervolumes
depicting species relationships.
Cardoso et al. (2015) <doi:10.1111/2041-210X.12310>.
Author: Pedro Cardoso [aut, cre],
Stefano Mammola [aut],
Francois Rigal [aut],
Jose Carvalho [aut]
Maintainer: Pedro Cardoso <pedro.cardoso@helsinki.fi>
Diff between BAT versions 2.5.0 dated 2021-02-23 and 2.5.1 dated 2021-04-27
DESCRIPTION | 8 MD5 | 28 +-- R/BAT.R | 302 +++++++++++++++++++++--------------- man/dummy.Rd | 8 man/gdm.Rd | 2 man/kernel.alpha.Rd | 4 man/kernel.beta.Rd | 4 man/kernel.beta.evenness.Rd | 4 man/kernel.contribution.Rd | 28 ++- man/kernel.dispersion.Rd | 6 man/kernel.evenness.Rd | 4 man/kernel.evenness.contribution.Rd | 4 man/kernel.originality.Rd | 4 man/kernel.similarity.Rd | 2 man/rao.alpha.Rd | 13 - 15 files changed, 251 insertions(+), 170 deletions(-)
Title: Closed Testing Procedure (CTP)
Description: This is a package for constructing hypothesis trees for treatment comparisons based
on the closure principle and analysing the corresponding Closed Testing Procedures (CTP)
using adjusted p-values. For reference, see
Marcus, R., Peritz, E, and Gabriel, K.R. (1976) <doi:10.2307/2335748> and
Bauer, P (1991) <doi:10.1002/sim.4780100609>.
Author: Paul Jordan [aut, cre],
Matthias Herpers [aut]
Maintainer: Paul Jordan <paul.jordan@roche.com>
Diff between CTP versions 3.0 dated 2021-03-15 and 3.0.1 dated 2021-04-27
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 6 ++++++ inst/doc/Flowchart.html | 4 ++-- inst/doc/closed_testing_procedure.html | 4 ++-- 5 files changed, 18 insertions(+), 12 deletions(-)
Title: Querying and Managing Large Biodiversity Occurrence Datasets
Description: Facilitates the gathering of biodiversity occurrence data
from disparate sources. Metadata is managed throughout the process to facilitate
reporting and enhanced ability to repeat analyses.
Author: Hannah L. Owens [aut, cre] (<https://orcid.org/0000-0003-0071-1745>),
Cory Merow [aut] (<https://orcid.org/0000-0003-0561-053X>),
Brian Maitner [aut] (<https://orcid.org/0000-0002-2118-9880>),
Jamie M. Kass [aut] (<https://orcid.org/0000-0002-9432-895X>),
Vijay Barve [aut] (<https://orcid.org/0000-0002-4852-2567>),
Robert P. Guralnick [aut] (<https://orcid.org/0000-0001-6682-1504>)
Maintainer: Hannah L. Owens <hannah.owens@gmail.com>
Diff between occCite versions 0.4.6 dated 2021-02-21 and 0.4.7 dated 2021-04-27
occCite-0.4.6/occCite/inst/doc/occCite_Vignette.R |only occCite-0.4.6/occCite/inst/doc/occCite_Vignette.Rmd |only occCite-0.4.6/occCite/inst/doc/occCite_Vignette.html |only occCite-0.4.6/occCite/man/GBIFtableCleanup.Rd |only occCite-0.4.6/occCite/man/gbifRetriever.Rd |only occCite-0.4.6/occCite/man/tabGBIF.Rd |only occCite-0.4.6/occCite/vignettes/occCite_Vignette.Rmd |only occCite-0.4.7/occCite/DESCRIPTION | 17 occCite-0.4.7/occCite/MD5 | 116 +- occCite-0.4.7/occCite/NAMESPACE | 2 occCite-0.4.7/occCite/NEWS.md | 7 occCite-0.4.7/occCite/R/GBIFLogin.R | 19 occCite-0.4.7/occCite/R/GBIFLoginManager.R | 69 - occCite-0.4.7/occCite/R/GBIFtableCleanup.R | 25 occCite-0.4.7/occCite/R/data.R | 2 occCite-0.4.7/occCite/R/gbifRetriever.R | 89 + occCite-0.4.7/occCite/R/getBIENpoints.R | 66 - occCite-0.4.7/occCite/R/getGBIFpoints.R | 96 +- occCite-0.4.7/occCite/R/occCitation.R | 194 ++-- occCite-0.4.7/occCite/R/occCiteCitation.R | 7 occCite-0.4.7/occCite/R/occCiteData.R | 16 occCite-0.4.7/occCite/R/occCitePrint.R | 208 ++-- occCite-0.4.7/occCite/R/occCite_plotting.R | 446 +++++----- occCite-0.4.7/occCite/R/occQuery.R | 187 ++-- occCite-0.4.7/occCite/R/occSum.R | 151 ++- occCite-0.4.7/occCite/R/prevGBIFdownload.R | 50 - occCite-0.4.7/occCite/R/studyTaxonList.R | 80 + occCite-0.4.7/occCite/R/tabGBIF.R | 33 occCite-0.4.7/occCite/R/taxonRectification.R | 63 - occCite-0.4.7/occCite/build/vignette.rds |binary occCite-0.4.7/occCite/inst/CITATION |only occCite-0.4.7/occCite/inst/doc/Advanced.R |only occCite-0.4.7/occCite/inst/doc/Advanced.Rmd |only occCite-0.4.7/occCite/inst/doc/Advanced.html |only occCite-0.4.7/occCite/inst/doc/Simple.R |only occCite-0.4.7/occCite/inst/doc/Simple.Rmd |only occCite-0.4.7/occCite/inst/doc/Simple.html |only occCite-0.4.7/occCite/man/GBIFLogin-class.Rd | 8 occCite-0.4.7/occCite/man/GBIFLoginManager.Rd | 16 occCite-0.4.7/occCite/man/getBIENpoints.Rd | 4 occCite-0.4.7/occCite/man/getGBIFpoints.Rd | 10 occCite-0.4.7/occCite/man/myOccCiteObject.Rd | 24 occCite-0.4.7/occCite/man/occCiteMap.Rd | 15 occCite-0.4.7/occCite/man/occQuery.Rd | 46 - occCite-0.4.7/occCite/man/plot.occCiteData.Rd | 11 occCite-0.4.7/occCite/man/prevGBIFdownload.Rd | 19 occCite-0.4.7/occCite/man/print.occCiteCitation.Rd | 1 occCite-0.4.7/occCite/man/studyTaxonList.Rd | 27 occCite-0.4.7/occCite/man/summary.occCiteData.Rd | 1 occCite-0.4.7/occCite/man/tabulate.occResults.Rd | 12 occCite-0.4.7/occCite/man/taxonRectification.Rd | 9 occCite-0.4.7/occCite/tests/testthat/test-GBIFLoginManager.R | 27 occCite-0.4.7/occCite/tests/testthat/test-GBIFtableCleanup.R | 70 - occCite-0.4.7/occCite/tests/testthat/test-gbifRetriever.R | 26 occCite-0.4.7/occCite/tests/testthat/test-getBIENpoints.R | 12 occCite-0.4.7/occCite/tests/testthat/test-getGBIFpoints.R | 133 +- occCite-0.4.7/occCite/tests/testthat/test-map.R | 44 occCite-0.4.7/occCite/tests/testthat/test-occCitation.R | 86 + occCite-0.4.7/occCite/tests/testthat/test-occSum.R | 16 occCite-0.4.7/occCite/tests/testthat/test-prevGBIFdownload.R | 70 - occCite-0.4.7/occCite/tests/testthat/test-studyTaxonList.R | 14 occCite-0.4.7/occCite/tests/testthat/test-sumFig.R | 32 occCite-0.4.7/occCite/tests/testthat/test-tabGBIF.R | 99 +- occCite-0.4.7/occCite/tests/testthat/test-tabulate.R | 12 occCite-0.4.7/occCite/tests/testthat/test-taxonRectification.R | 8 occCite-0.4.7/occCite/vignettes/Advanced.Rmd |only occCite-0.4.7/occCite/vignettes/Simple.Rmd |only 67 files changed, 1654 insertions(+), 1141 deletions(-)
Title: Suite of GR Hydrological Models for Precipitation-Runoff
Modelling
Description: Hydrological modelling tools developed at INRAE-Antony (HYCAR Research Unit, France). The package includes several conceptual rainfall-runoff models (GR4H, GR5H, GR4J, GR5J, GR6J, GR2M, GR1A) that can be applied either on a lumped or semi-distributed way. A snow accumulation and melt model (CemaNeige) and the associated functions for the calibration and evaluation of models are also included. Use help(airGR) for package description and references.
Author: Laurent Coron [aut, trl] (<https://orcid.org/0000-0002-1503-6204>),
Olivier Delaigue [aut, cre] (<https://orcid.org/0000-0002-7668-8468>),
Guillaume Thirel [aut, ths] (<https://orcid.org/0000-0002-1444-1830>),
David Dorchies [aut] (<https://orcid.org/0000-0002-6595-7984>),
Charles Perrin [aut, ths] (<https://orcid.org/0000-0001-8552-1881>),
Claude Michel [aut, ths],
Vazken Andréassian [ctb, ths] (<https://orcid.org/0000-0001-7124-9303>),
François Bourgin [ctb] (<https://orcid.org/0000-0002-2820-7260>),
Pierre Brigode [ctb] (<https://orcid.org/0000-0001-8257-0741>),
Nicolas Le Moine [ctb],
Thibaut Mathevet [ctb] (<https://orcid.org/0000-0002-4142-4454>),
Safouane Mouelhi [ctb],
Ludovic Oudin [ctb] (<https://orcid.org/0000-0002-3712-0933>),
Raji Pushpalatha [ctb],
Audrey Valéry [ctb]
Maintainer: Olivier Delaigue <airGR@inrae.fr>
Diff between airGR versions 1.6.10.4 dated 2021-01-29 and 1.6.12 dated 2021-04-27
DESCRIPTION | 19 MD5 | 117 ++--- NAMESPACE | 1 NEWS.md | 48 +- R/Calibration.R | 19 R/Calibration_Michel.R | 9 R/CreateCalibOptions.R | 16 R/CreateInputsModel.R | 109 +---- R/CreateRunOptions.R | 169 ++----- R/PE_Oudin.R | 2 R/RunModel.R | 21 R/RunModel_CemaNeige.R | 37 - R/RunModel_CemaNeigeGR4H.R | 91 ++-- R/RunModel_CemaNeigeGR4J.R | 38 - R/RunModel_CemaNeigeGR5H.R | 100 ++-- R/RunModel_CemaNeigeGR5J.R | 33 - R/RunModel_CemaNeigeGR6J.R | 91 ++-- R/RunModel_GR1A.R | 53 +- R/RunModel_GR2M.R | 90 ++-- R/RunModel_GR4H.R | 95 ++-- R/RunModel_GR4J.R | 84 +-- R/RunModel_GR5H.R | 29 - R/RunModel_GR5J.R | 33 - R/RunModel_GR6J.R | 33 - R/RunModel_Lag.R | 81 +-- R/TransfoParam_GR5H.R | 26 - R/Utils.R | 64 ++ README.md | 6 build/partial.rdb |binary inst/doc/V01_get_started.R | 2 inst/doc/V01_get_started.Rmd | 6 inst/doc/V01_get_started.html | 709 ++++++++++++++------------------ inst/doc/V02.1_param_optim.R | 9 inst/doc/V02.1_param_optim.Rmd | 35 + inst/doc/V02.1_param_optim.html | 642 ++++++++++++----------------- inst/doc/V02.2_param_mcmc.R | 17 inst/doc/V02.2_param_mcmc.Rmd | 21 inst/doc/V02.2_param_mcmc.html | 500 +++++++++-------------- inst/doc/V03_param_sets_GR4J.R | 1 inst/doc/V03_param_sets_GR4J.Rmd | 3 inst/doc/V03_param_sets_GR4J.html | 532 ++++++++++-------------- inst/doc/V04_cemaneige_hysteresis.html | 680 ++++++++++++++----------------- inst/doc/V05_sd_model.R | 46 +- inst/doc/V05_sd_model.Rmd | 53 +- inst/doc/V05_sd_model.html | 710 ++++++++++++++------------------- inst/modelsFeatures |only man/Calibration.Rd | 20 man/Calibration_Michel.Rd | 4 man/CreateInputsModel.Rd | 20 man/RunModel.Rd | 4 man/RunModel_Lag.Rd | 71 +-- man/TransfoParam.Rd | 6 man/airGR.Rd | 26 - man/plot.OutputsModel.Rd | 8 tests/testthat/test-RunModel_Lag.R | 224 +++++++--- vignettes/V01_get_started.Rmd | 6 vignettes/V02.1_param_optim.Rmd | 35 + vignettes/V02.2_param_mcmc.Rmd | 21 vignettes/V03_param_sets_GR4J.Rmd | 3 vignettes/V05_sd_model.Rmd | 53 +- 60 files changed, 2864 insertions(+), 3117 deletions(-)
Title: Geographical Detectors for Assessing Spatial Factors
Description: Geographical detectors for measuring spatial stratified heterogeneity,
as described in Jinfeng Wang (2010) <doi:10.1080/13658810802443457> and
Jinfeng Wang (2016) <doi:10.1016/j.ecolind.2016.02.052>. Includes the
optimal discretization of continuous data, four primary functions of
geographical detectors, comparison of size effects of spatial unit and
the visualizations of results.
To use the package and to refer the
descriptions of the package, methods and case datasets, please cite
Yongze Song (2020) <doi:10.1080/15481603.2020.1760434>.
The model has been applied in factor exploration of road performance and
multi-scale spatial segmentation for network data, as described in
Yongze Song (2018) <doi:10.3390/rs10111696> and
Yongze Song (2020) <doi:10.1109/TITS.2020.3001193>, respectively.
Author: Yongze Song [aut, cre] (<https://orcid.org/0000-0003-3420-9622>)
Maintainer: Yongze Song <yongze.song@postgrad.curtin.edu.au>
Diff between GD versions 1.9 dated 2020-06-29 and 1.10 dated 2021-04-27
DESCRIPTION | 10 - MD5 | 22 +- NAMESPACE | 1 R/gdeco.R | 19 +- R/zzz.R | 2 build/vignette.rds |binary inst/doc/GD.Rmd | 32 +-- inst/doc/GD.html | 390 +++++++++++++++++++++++++--------------------- man/H1N1.Rd | 10 - man/NDVI.Rd | 16 + vignettes/GD.Rmd | 32 +-- vignettes/fig/Figure7.png |binary 12 files changed, 291 insertions(+), 243 deletions(-)
Title: Integration to 'Apache' 'Arrow'
Description: 'Apache' 'Arrow' <https://arrow.apache.org/> is a cross-language
development platform for in-memory data. It specifies a standardized
language-independent columnar memory format for flat and hierarchical data,
organized for efficient analytic operations on modern hardware. This
package provides an interface to the 'Arrow C++' library.
Author: Neal Richardson [aut, cre],
Ian Cook [aut],
Jonathan Keane [aut],
Romain François [aut] (<https://orcid.org/0000-0002-2444-4226>),
Jeroen Ooms [aut],
Javier Luraschi [ctb],
Jeffrey Wong [ctb],
Apache Arrow [aut, cph]
Maintainer: Neal Richardson <neal@ursalabs.org>
Diff between arrow versions 3.0.0 dated 2021-01-27 and 4.0.0 dated 2021-04-27
arrow-3.0.0/arrow/R/list.R |only arrow-3.0.0/arrow/R/struct.R |only arrow-3.0.0/arrow/src/array_from_vector.cpp |only arrow-3.0.0/arrow/tools/linuxlibs.R |only arrow-4.0.0/arrow/DESCRIPTION | 45 arrow-4.0.0/arrow/MD5 | 286 +-- arrow-4.0.0/arrow/NAMESPACE | 136 - arrow-4.0.0/arrow/NEWS.md | 71 arrow-4.0.0/arrow/R/array.R | 175 - arrow-4.0.0/arrow/R/arrow-datum.R |only arrow-4.0.0/arrow/R/arrow-package.R | 100 - arrow-4.0.0/arrow/R/arrow-tabular.R |only arrow-4.0.0/arrow/R/arrowExports.R | 929 +++++----- arrow-4.0.0/arrow/R/chunked-array.R | 50 arrow-4.0.0/arrow/R/compute.R | 192 +- arrow-4.0.0/arrow/R/dataset-factory.R | 43 arrow-4.0.0/arrow/R/dataset-format.R | 139 + arrow-4.0.0/arrow/R/dataset-partition.R | 36 arrow-4.0.0/arrow/R/dataset-scan.R | 50 arrow-4.0.0/arrow/R/dataset-write.R | 18 arrow-4.0.0/arrow/R/dataset.R | 77 arrow-4.0.0/arrow/R/dplyr.R | 905 ++++++++- arrow-4.0.0/arrow/R/enums.R | 12 arrow-4.0.0/arrow/R/expression.R | 196 +- arrow-4.0.0/arrow/R/feather.R | 27 arrow-4.0.0/arrow/R/filesystem.R | 46 arrow-4.0.0/arrow/R/install-arrow.R | 78 arrow-4.0.0/arrow/R/json.R | 20 arrow-4.0.0/arrow/R/metadata.R |only arrow-4.0.0/arrow/R/parquet.R | 16 arrow-4.0.0/arrow/R/record-batch.R | 205 -- arrow-4.0.0/arrow/R/scalar.R | 31 arrow-4.0.0/arrow/R/schema.R | 50 arrow-4.0.0/arrow/R/table.R | 204 -- arrow-4.0.0/arrow/R/type.R | 80 arrow-4.0.0/arrow/R/util.R | 65 arrow-4.0.0/arrow/README.md | 439 ++-- arrow-4.0.0/arrow/build/vignette.rds |binary arrow-4.0.0/arrow/configure | 101 - arrow-4.0.0/arrow/configure.win | 8 arrow-4.0.0/arrow/inst/build_arrow_static.sh | 16 arrow-4.0.0/arrow/inst/doc/arrow.Rmd | 41 arrow-4.0.0/arrow/inst/doc/arrow.html | 98 + arrow-4.0.0/arrow/inst/doc/dataset.R | 39 arrow-4.0.0/arrow/inst/doc/dataset.Rmd | 161 - arrow-4.0.0/arrow/inst/doc/dataset.html | 160 - arrow-4.0.0/arrow/inst/doc/developing.R |only arrow-4.0.0/arrow/inst/doc/developing.Rmd |only arrow-4.0.0/arrow/inst/doc/developing.html |only arrow-4.0.0/arrow/inst/doc/install.Rmd | 44 arrow-4.0.0/arrow/inst/doc/install.html | 44 arrow-4.0.0/arrow/man/ChunkedArray.Rd | 2 arrow-4.0.0/arrow/man/Dataset.Rd | 3 arrow-4.0.0/arrow/man/FeatherReader.Rd | 6 arrow-4.0.0/arrow/man/FileFormat.Rd | 18 arrow-4.0.0/arrow/man/FragmentScanOptions.Rd |only arrow-4.0.0/arrow/man/ParquetFileReader.Rd | 2 arrow-4.0.0/arrow/man/Partitioning.Rd | 13 arrow-4.0.0/arrow/man/RecordBatch.Rd | 5 arrow-4.0.0/arrow/man/Table.Rd | 5 arrow-4.0.0/arrow/man/array.Rd | 3 arrow-4.0.0/arrow/man/arrow-package.Rd | 2 arrow-4.0.0/arrow/man/arrow_available.Rd | 19 arrow-4.0.0/arrow/man/arrow_info.Rd | 3 arrow-4.0.0/arrow/man/call_function.Rd |only arrow-4.0.0/arrow/man/cast_options.Rd | 21 arrow-4.0.0/arrow/man/data-type.Rd | 24 arrow-4.0.0/arrow/man/dataset_factory.Rd | 9 arrow-4.0.0/arrow/man/enums.Rd | 10 arrow-4.0.0/arrow/man/hive_partition.Rd | 8 arrow-4.0.0/arrow/man/list_compute_functions.Rd |only arrow-4.0.0/arrow/man/match_arrow.Rd | 13 arrow-4.0.0/arrow/man/open_dataset.Rd | 44 arrow-4.0.0/arrow/man/read_feather.Rd | 2 arrow-4.0.0/arrow/man/read_json_arrow.Rd | 14 arrow-4.0.0/arrow/man/read_parquet.Rd | 2 arrow-4.0.0/arrow/man/value_counts.Rd |only arrow-4.0.0/arrow/man/write_dataset.Rd | 9 arrow-4.0.0/arrow/man/write_parquet.Rd | 2 arrow-4.0.0/arrow/src/array.cpp | 6 arrow-4.0.0/arrow/src/array_to_vector.cpp | 13 arrow-4.0.0/arrow/src/arrowExports.cpp | 896 ++++++--- arrow-4.0.0/arrow/src/arrow_cpp11.h | 1 arrow-4.0.0/arrow/src/arrow_types.h | 35 arrow-4.0.0/arrow/src/arrow_vctrs.h | 2 arrow-4.0.0/arrow/src/chunkedarray.cpp | 42 arrow-4.0.0/arrow/src/compute.cpp | 188 +- arrow-4.0.0/arrow/src/csv.cpp | 5 arrow-4.0.0/arrow/src/dataset.cpp | 238 +- arrow-4.0.0/arrow/src/datatype.cpp | 11 arrow-4.0.0/arrow/src/expression.cpp | 20 arrow-4.0.0/arrow/src/feather.cpp | 6 arrow-4.0.0/arrow/src/filesystem.cpp | 10 arrow-4.0.0/arrow/src/imports.cpp | 8 arrow-4.0.0/arrow/src/json.cpp | 12 arrow-4.0.0/arrow/src/parquet.cpp | 62 arrow-4.0.0/arrow/src/r_to_arrow.cpp |only arrow-4.0.0/arrow/src/recordbatch.cpp | 24 arrow-4.0.0/arrow/src/recordbatchreader.cpp | 8 arrow-4.0.0/arrow/src/recordbatchwriter.cpp | 2 arrow-4.0.0/arrow/src/runtimeinfo.cpp |only arrow-4.0.0/arrow/src/scalar.cpp | 18 arrow-4.0.0/arrow/src/schema.cpp | 20 arrow-4.0.0/arrow/src/table.cpp | 29 arrow-4.0.0/arrow/src/type_infer.cpp |only arrow-4.0.0/arrow/tests/testthat.R | 7 arrow-4.0.0/arrow/tests/testthat/helper-arrow.R | 28 arrow-4.0.0/arrow/tests/testthat/helper-data.R | 89 arrow-4.0.0/arrow/tests/testthat/helper-expectation.R | 130 + arrow-4.0.0/arrow/tests/testthat/helper-skip.R | 13 arrow-4.0.0/arrow/tests/testthat/latin1.R | 8 arrow-4.0.0/arrow/tests/testthat/test-Array.R | 135 - 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arrow-4.0.0/arrow/tests/testthat/test-memory-pool.R | 11 arrow-4.0.0/arrow/tests/testthat/test-message-reader.R | 32 arrow-4.0.0/arrow/tests/testthat/test-message.R | 12 arrow-4.0.0/arrow/tests/testthat/test-metadata.R | 3 arrow-4.0.0/arrow/tests/testthat/test-parquet.R | 20 arrow-4.0.0/arrow/tests/testthat/test-python.R | 18 arrow-4.0.0/arrow/tests/testthat/test-read-record-batch.R | 2 arrow-4.0.0/arrow/tests/testthat/test-read-write.R | 2 arrow-4.0.0/arrow/tests/testthat/test-record-batch-reader.R | 26 arrow-4.0.0/arrow/tests/testthat/test-s3-minio.R | 180 + arrow-4.0.0/arrow/tests/testthat/test-s3.R | 1 arrow-4.0.0/arrow/tests/testthat/test-scalar.R | 56 arrow-4.0.0/arrow/tests/testthat/test-schema.R | 64 arrow-4.0.0/arrow/tests/testthat/test-type.R | 38 arrow-4.0.0/arrow/tools/autobrew | 3 arrow-4.0.0/arrow/tools/nixlibs.R |only arrow-4.0.0/arrow/tools/winlibs.R | 2 arrow-4.0.0/arrow/vignettes/arrow.Rmd | 41 arrow-4.0.0/arrow/vignettes/dataset.Rmd | 161 - arrow-4.0.0/arrow/vignettes/developing.Rmd |only arrow-4.0.0/arrow/vignettes/install.Rmd | 44 157 files changed, 7149 insertions(+), 3530 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-10 0.3.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-12 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-16 1.1.5
2018-07-24 1.1.3
2018-05-28 1.1-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-20 0.1.2
2019-03-23 0.1.1
2019-03-07 0.1.0
Title: The Exterior Calculus
Description: Provides functionality for working with tensors, alternating
tensors, wedge products, Stokes's theorem, and related concepts
from the exterior calculus. Functionality for Grassman algebra
is provided. The canonical reference would be:
M. Spivak (1965, ISBN:0-8053-9021-9) "Calculus on Manifolds".
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between stokes versions 1.0-5 dated 2020-03-20 and 1.0-7 dated 2021-04-27
stokes-1.0-5/stokes/inst/examples.R |only stokes-1.0-5/stokes/inst/try.R |only stokes-1.0-7/stokes/DESCRIPTION | 21 stokes-1.0-7/stokes/MD5 | 73 +-- stokes-1.0-7/stokes/NAMESPACE | 6 stokes-1.0-7/stokes/R/mult.R | 58 ++ stokes-1.0-7/stokes/R/ops.R | 6 stokes-1.0-7/stokes/R/print.R |only stokes-1.0-7/stokes/README.md | 154 +++---- stokes-1.0-7/stokes/build/partial.rdb |binary stokes-1.0-7/stokes/build/stokes.pdf |only stokes-1.0-7/stokes/build/vignette.rds |binary stokes-1.0-7/stokes/inst/Alt.Rmd |only stokes-1.0-7/stokes/inst/doc/stokes.R | 35 + stokes-1.0-7/stokes/inst/doc/stokes.Rmd | 152 +++++-- stokes-1.0-7/stokes/inst/doc/stokes.html | 386 ++++++++++-------- stokes-1.0-7/stokes/man/Alt.Rd | 39 + stokes-1.0-7/stokes/man/Ops.Rd | 8 stokes-1.0-7/stokes/man/as.1form.Rd | 33 - stokes-1.0-7/stokes/man/consolidate.Rd | 8 stokes-1.0-7/stokes/man/contract.Rd | 16 stokes-1.0-7/stokes/man/cross.Rd | 11 stokes-1.0-7/stokes/man/inner.Rd | 33 - stokes-1.0-7/stokes/man/kform.Rd | 56 +- stokes-1.0-7/stokes/man/ktensor.Rd | 19 stokes-1.0-7/stokes/man/print.Rd |only stokes-1.0-7/stokes/man/rform.Rd | 13 stokes-1.0-7/stokes/man/symbolic.Rd | 7 stokes-1.0-7/stokes/man/transform.Rd | 38 - stokes-1.0-7/stokes/man/volume.Rd | 27 - stokes-1.0-7/stokes/man/wedge.Rd | 2 stokes-1.0-7/stokes/man/zap.Rd |only stokes-1.0-7/stokes/tests/testthat/test_ktensor.R | 1 stokes-1.0-7/stokes/tests/testthat/test_misc.R | 5 stokes-1.0-7/stokes/tests/testthat/test_mult.R | 9 stokes-1.0-7/stokes/tests/testthat/test_ops_kform.R | 2 stokes-1.0-7/stokes/tests/testthat/test_ops_ktensor.R | 2 stokes-1.0-7/stokes/tests/testthat/test_print.R |only stokes-1.0-7/stokes/tests/testthat/test_transform.R | 5 stokes-1.0-7/stokes/tests/testthat/test_wedge.R | 5 stokes-1.0-7/stokes/tests/testthat/test_zap.R |only stokes-1.0-7/stokes/vignettes/stokes.Rmd | 152 +++++-- 42 files changed, 856 insertions(+), 526 deletions(-)
Title: Web-Processing of Large Gridded Datasets
Description: Processes gridded datasets found on the U.S. Geological Survey
Geo Data Portal web application or elsewhere, using a web-enabled workflow
that eliminates the need to download and store large datasets that are reliably
hosted on the Internet. The package provides access to several data subset and
summarization algorithms that are available on remote web processing servers (Read et al. (2015) <doi:10.1111/ecog.01880>).
Author: Jordan Read [aut, cre],
Jordan Walker [aut],
Alison Appling [aut],
David Blodgett [aut],
Emily Read [aut],
Luke Winslow [aut],
Lindsay Carr [aut],
David Watkins [aut]
Maintainer: Jordan Read <jread@usgs.gov>
Diff between geoknife versions 1.6.4 dated 2020-06-02 and 1.6.5 dated 2021-04-27
DESCRIPTION | 10 MD5 | 355 +- NAMESPACE | 174 - NEWS.md | 11 R/00-gconfig.R | 118 R/01-geojob-obj.R | 342 +- R/02-webgeom-obj.R | 342 +- R/03-webdata-obj.R | 380 +- R/04-webprocess-obj.R | 376 +- R/06-simplegeom-obj.R | 254 - R/07-datagroup-obj.R | 226 - R/algorithm-webprocess.R | 130 R/algorithmVersion-webprocess.R | 16 R/attribute-webgeom.R | 60 R/bufferPoint.R | 66 R/cancel-geojob.R | 78 R/check.R | 162 - R/dodsReplace.R | 26 R/download-geojob.R | 98 R/email-geojob.R | 76 R/geoknife-generic.R | 302 +- R/geoknifeUtils.R | 166 - R/geom-webgeom.R | 74 R/initializeProcessInputs.R | 132 R/inputs-webprocess.R | 250 - R/parseCategorical.R | 148 - R/parseTimeseries.R | 232 - R/processInputsToXML.R | 392 +- R/query-webdata-times.R | 124 R/query-webdata-variables.R | 110 R/query-webdata.R | 188 - R/query-webgeom.R | 60 R/query-webprocess.R | 32 R/result.R | 174 - R/setJobState.R | 82 R/setProcessInputs.R | 112 R/show-datagroup.R | 20 R/show-geojob.R | 14 R/show-simplegeom.R | 6 R/show-webdata.R | 14 R/show-webgeom.R | 14 R/show-webprocess.R | 26 R/start-geojob.R | 104 R/successful.R | 120 R/times-webdata.R | 152 - R/url-generic.R | 138 R/values-webgeom.R | 156 - R/variables-webdata.R | 80 R/version-generic.R | 66 R/waitUntilFinished.R | 126 build/vignette.rds |binary demo/00Index | 6 demo/iclus_categorical.R | 36 demo/prism_subset.R | 46 demo/prism_summary.R | 48 inst/CITATION | 28 inst/doc/custom_data_sources.R | 102 inst/doc/custom_data_sources.Rmd | 160 - inst/doc/custom_data_sources.html | 570 +--- inst/doc/geoknife.R | 508 +-- inst/doc/geoknife.Rmd | 1152 ++++---- inst/doc/geoknife.html | 1482 ++++------ inst/doc/plot_geotiff.R | 106 inst/doc/plot_geotiff.Rmd | 168 - inst/doc/plot_geotiff.html | 600 +--- inst/draw.xsd |only inst/extdata/SB_getCapabilities.xml | 776 ++--- inst/extdata/completed_request.xml | 202 - inst/extdata/csv_categorical_multifeature.csv | 24 inst/extdata/csv_linear_ring.csv | 12 inst/extdata/csv_multi_feature_stat.csv | 24 inst/extdata/csv_multi_threshold.csv | 2280 ++++++++-------- inst/extdata/csv_time_dimension_parse.csv | 736 ++--- inst/extdata/get_attribute_values.xml | 2 inst/extdata/multi_poly_post.xml | 236 - inst/extdata/state_webgeom_post.xml | 186 - inst/extdata/testjob.xml | 214 - inst/extdata/tsv_linear_ring.tsv | 12 inst/extdata/tsv_multi_feature.tsv | 16 inst/extdata/tsv_multi_feature_var.tsv | 90 inst/extdata/tsv_multi_var_feature_stat.tsv | 2208 +++++++-------- inst/templates/execute_template.xml | 142 inst/templates/getfeature_template.xml | 30 inst/templates/utility_execute_template.xml | 46 man/XML-method.Rd | 68 man/abstract-datagroup.Rd | 46 man/algorithm-webprocess.Rd | 72 man/attribute.Rd | 50 man/bufferPoint.Rd | 64 man/canStart.Rd | 30 man/cancel-methods.Rd | 86 man/check-geojob.Rd | 82 man/datagroup-class.Rd | 32 man/datagroup-methods.Rd | 82 man/defaultProcessInputs.Rd | 42 man/download.Rd | 72 man/email-method.Rd | 38 man/gconfig.Rd | 62 man/gcontent.Rd | 30 man/geojob-class.Rd | 48 man/geojob-methods.Rd | 140 man/geoknife-methods.Rd | 124 man/geom.Rd | 60 man/getJobState.Rd | 30 man/inputs-webprocess.Rd | 116 man/parseCategorical.Rd | 56 man/parseTimeseries.Rd | 66 man/query.Rd | 112 man/result-methods.Rd | 86 man/retryVERB.Rd | 42 man/setJobState.Rd | 42 man/simplegeom-class.Rd | 62 man/simplegeom-methods.Rd | 84 man/start-methods.Rd | 80 man/successful-methods.Rd | 88 man/times-webdata.Rd | 62 man/times_query-method.Rd | 38 man/url.Rd | 82 man/values.Rd | 66 man/variables-webdata.Rd | 54 man/variables_query-method.Rd | 44 man/version.Rd | 50 man/wait.Rd | 80 man/webdata-class.Rd | 40 man/webdata-methods.Rd | 116 man/webgeom-class.Rd | 84 man/webgeom-methods.Rd | 164 - man/webprocess-class.Rd | 108 man/webprocess-methods.Rd | 70 tests/testthat.R | 2 tests/testthat/00_create_test_data.R | 112 tests/testthat/data/test_XML_no_gmlid_wd.rds |binary tests/testthat/data/test_XML_no_gmlid_wg.rds |binary tests/testthat/data/test_XML_no_gmlid_xml.xml | 204 - tests/testthat/data/test_XML_sg_xml.xml | 204 - tests/testthat/data/test_XML_two_points_xml.xml | 236 - tests/testthat/data/test_XML_wg_xml.xml | 196 - tests/testthat/data/test_XML_wp_opendapsubset.rds |binary tests/testthat/data/test_email.xml | 58 tests/testthat/data/test_getgridtimerange.xml | 54 tests/testthat/data/test_listopendapgrids.xml | 42 tests/testthat/data/test_query_webdata.rds |binary tests/testthat/data/test_simplegeom_two_points.rds |binary tests/testthat/data/test_webdata_fabric.rds |binary tests/testthat/data/test_webdata_prism_year.rds |binary tests/testthat/data/test_webgeom_WI.rds |binary tests/testthat/data/test_webgeom_huc08.rds |binary tests/testthat/data/test_webprocess_algorithms.rds |binary tests/testthat/data/test_webprocess_algorithms_prod.rds |binary tests/testthat/data/test_webprocess_knife.rds |binary tests/testthat/data/test_webprocess_knife_prod.rds |binary tests/testthat/data/test_webprocess_sleep-plus-five.rds |binary tests/testthat/data/test_webprocess_tab.rds |binary tests/testthat/data/test_wfsgetfeature.xml | 40 tests/testthat/test-dodsReplace.R | 14 tests/testthat/test-download_result.R | 64 tests/testthat/test-gconfig.R | 58 tests/testthat/test-geoknife_output_parser.R | 134 tests/testthat/test-geoknife_setters.R | 182 - tests/testthat/test-geoknife_utils.R | 174 - tests/testthat/test-geoknife_xml_parser.R | 18 tests/testthat/test-knife_shorthand.R | 48 tests/testthat/test-parseCategorical.R | 50 tests/testthat/test-processErrors.R | 48 tests/testthat/test-query_webdata.R | 78 tests/testthat/test-query_webdatasets.R | 60 tests/testthat/test-query_webgeom.R | 90 tests/testthat/test-setJobState.R | 60 tests/testthat/test-show_object.R | 54 tests/testthat/test-sleep_time.R | 36 tests/testthat/test-times_webdata.R | 82 tests/testthat/test-waitUntilFinished.R | 62 tests/testthat/test-webdata_object.R | 104 tests/testthat/test-webprocess_input.R | 130 tests/testthat/test-webprocess_object.R | 147 - tests/testthat/test-whisker_templating.R | 156 - vignettes/custom_data_sources.Rmd | 160 - vignettes/geoknife.Rmd | 1152 ++++---- vignettes/plot_geotiff.Rmd | 168 - 179 files changed, 13140 insertions(+), 13649 deletions(-)
Title: Interface to 'MLflow'
Description: R interface to 'MLflow', open source platform for
the complete machine learning life cycle, see <https://mlflow.org/>.
This package supports installing 'MLflow', tracking experiments,
creating and running projects, and saving and serving models.
Author: Matei Zaharia [aut, cre],
Javier Luraschi [aut],
Kevin Kuo [aut] (<https://orcid.org/0000-0001-7803-7901>),
RStudio [cph]
Maintainer: Matei Zaharia <matei@databricks.com>
Diff between mlflow versions 1.15.0 dated 2021-03-28 and 1.16.0 dated 2021-04-27
DESCRIPTION | 6 +++--- MD5 | 2 +- 2 files changed, 4 insertions(+), 4 deletions(-)
Title: Hierarchical Bayesian ANOVA Models
Description: It covers several Bayesian Analysis of Variance (BANOVA) models used in analysis of experimental designs in which both within- and between- subjects factors are manipulated. They can be applied to data that are common in the behavioral and social sciences. The package includes: Hierarchical Bayes ANOVA models with normal response, t response, Binomial (Bernoulli) response, Poisson response, ordered multinomial response and multinomial response variables. All models accommodate unobserved heterogeneity by including a normal distribution of the parameters across individuals. Outputs of the package include tables of sums of squares, effect sizes and p-values, and tables of predictions, which are easily interpretable for behavioral and social researchers. The floodlight analysis and mediation analysis based on these models are also provided. BANOVA uses 'Stan' and 'JAGS' as the computational platform. References: Dong and Wedel (2017) <doi:10.18637/jss.v081.i09>; Wedel and Dong (2020) <doi:10.1002/jcpy.1111>.
Author: Chen Dong, Michel Wedel, Anna Kopyakova
Maintainer: Chen Dong <cdong@math.umd.edu>
Diff between BANOVA versions 1.1.9 dated 2021-03-15 and 1.2.0 dated 2021-04-27
BANOVA-1.1.9/BANOVA/README.md |only BANOVA-1.2.0/BANOVA/DESCRIPTION | 8 BANOVA-1.2.0/BANOVA/MD5 | 35 BANOVA-1.2.0/BANOVA/NEWS | 4 BANOVA-1.2.0/BANOVA/build/vignette.rds |binary BANOVA-1.2.0/BANOVA/inst/doc/banova_examples.html | 819 +++++----- BANOVA-1.2.0/BANOVA/inst/stan/Bernoulli_Normal.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/Binomial_Normal.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/Multinomial_Normal.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/Multinomial_Normal_slow.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/Normal_Normal.stan | 4 BANOVA-1.2.0/BANOVA/inst/stan/Poisson_Normal.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/ordMultinomial_Normal.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/ordMultinomial_Normal_dirichlet.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/single_Normal.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/single_T.stan | 2 BANOVA-1.2.0/BANOVA/inst/stan/single_truncNormal.stan | 2 BANOVA-1.2.0/BANOVA/man/BANOVA-package.Rd | 4 BANOVA-1.2.0/BANOVA/man/BANOVA.multi.mediation.Rd | 2 19 files changed, 451 insertions(+), 445 deletions(-)
Title: Parametric Survival Simulation with Parameter Uncertainty
Description: Perform survival simulation with parametric survival model generated from 'survreg' function in 'survival' package.
In each simulation coefficients are resampled from variance-covariance matrix of parameter estimates to
capture uncertainty in model parameters.
Prediction intervals of Kaplan-Meier estimates and hazard ratio of treatment effect can be further calculated using simulated survival data.
Author: Kenta Yoshida [aut, cre] (<https://orcid.org/0000-0003-4967-3831>),
Laurent Claret [aut]
Maintainer: Kenta Yoshida <yoshida.kenta.6@gmail.com>
Diff between survParamSim versions 0.1.4 dated 2020-12-08 and 0.1.5 dated 2021-04-26
DESCRIPTION | 20 MD5 | 65 +- NAMESPACE | 6 NEWS.md | 14 R/calc_hr_pi.R | 129 +++- R/calc_km_pi.R | 144 +++-- R/extract_pi.R | 121 +++- R/extract_raw_sim.R | 107 +++- R/survParamSim-package.R |only R/surv_param_sim.R | 48 + R/surv_param_sim_pre_resampled.R |only R/surv_param_sim_resample.R | 41 + R/yyy.R | 9 README.md | 71 +- build/survParamSim.pdf |only inst/doc/survParamSim.R | 3 inst/doc/survParamSim.Rmd | 12 inst/doc/survParamSim.html | 546 ++++++--------------- man/calc_hr_pi.Rd | 12 man/calc_km_pi.Rd | 18 man/extractpi.Rd | 35 - man/extractpi_deprecated.Rd |only man/extractrawsim.Rd | 25 man/figures/lifecycle-archived.svg |only man/figures/lifecycle-defunct.svg |only man/figures/lifecycle-deprecated.svg |only man/figures/lifecycle-experimental.svg |only man/figures/lifecycle-maturing.svg |only man/figures/lifecycle-questioning.svg |only man/figures/lifecycle-soft-deprecated.svg |only man/figures/lifecycle-stable.svg |only man/figures/lifecycle-superseded.svg |only man/plot_hr_pi.Rd | 4 man/surv_param_sim_pre_resampled.Rd |only man/survparamsim.Rd | 27 - tests/testthat/test-calc_hr_pi.R | 61 +- tests/testthat/test-calc_km_pi.R | 59 +- tests/testthat/test-surv_param_sim.R | 10 tests/testthat/test-surv_param_sim_pre_resampled.R |only tests/testthat/test-surv_param_sim_resample.R | 46 + vignettes/survParamSim.Rmd | 12 41 files changed, 950 insertions(+), 695 deletions(-)
Title: Extracts Environmental Data from 'ERDDAP' Web Services
Description: Contains three functions that access
environmental data from any 'ERDDAP' data web service. The rxtracto() function extracts
data along a trajectory for a given "radius" around the point. The
rxtracto_3D() function extracts data in a box. The rxtractogon() function
extracts data in a polygon. All of those three function use the 'rerddap' package
to extract the data, and should work with any 'ERDDAP' server.
There are also two functions, plotBBox() and plotTrack() that use the 'plotdap'
package to simplify the creation of maps of the data.
Author: Roy Mendelssohn [aut, cre]
Maintainer: Roy Mendelssohn <roy.mendelssohn@noaa.gov>
Diff between rerddapXtracto versions 1.0.2 dated 2020-11-03 and 1.1.0 dated 2021-04-26
DESCRIPTION | 8 MD5 | 25 - NEWS.md | 6 R/data_extract_read.R | 2 R/getFIleCoords.R | 2 R/interp.R |only R/rxtracto.R | 21 + README.md | 15 - build/vignette.rds |binary inst/doc/UsingrerddapXtracto.R | 34 +- inst/doc/UsingrerddapXtracto.Rmd | 65 +++- inst/doc/UsingrerddapXtracto.html | 564 ++++++++++++-------------------------- man/rxtracto.Rd | 6 vignettes/UsingrerddapXtracto.Rmd | 65 +++- 14 files changed, 379 insertions(+), 434 deletions(-)
More information about rerddapXtracto at CRAN
Permanent link
Title: Fit Continuous-Time State-Space and Latent Variable Models for
Quality Control of Argos Satellite (and Other) Telemetry Data
and for Estimating Movement Behaviour
Description: Fits continuous-time random walk and correlated random walk state-space models for quality control animal tracking data ('Argos', processed light-level 'geolocation', 'GPS'). Template Model Builder ('TMB') is used for fast estimation. The 'Argos' data can be: (older) least squares-based locations; (newer) Kalman filter-based locations with error ellipse information; or a mixture of both. The models estimate two sets of location states corresponding to: 1) each observation, which are (usually) irregularly timed; and 2) user-specified time intervals (regular or irregular). Latent variable models are provided to estimate move persistence along tracks as an index of behaviour. Track simulation functions are provided. 'Jonsen I', 'McMahon CR', 'Patterson TA', 'Auger-Méthé M', 'Harcourt R', 'Hindell MA', 'Bestley S' (2019) Movement responses to environment: fast inference of variation among southern elephant seals with a mixed effects model. Ecology 100:e02566 <doi:10.1002/ecy.2566>.
Author: Ian Jonsen [aut, cre, cph],
Toby Patterson [aut, ctb]
Maintainer: Ian Jonsen <ian.jonsen@mq.edu.au>
Diff between foieGras versions 0.7-5 dated 2021-04-24 and 0.7-6 dated 2021-04-26
foieGras-0.7-5/foieGras/data/xs.RData |only foieGras-0.7-5/foieGras/man/xs.Rd |only foieGras-0.7-6/foieGras/DESCRIPTION | 16 - foieGras-0.7-6/foieGras/MD5 | 76 +++--- foieGras-0.7-6/foieGras/R/fit_mpm.R | 4 foieGras-0.7-6/foieGras/R/foieGras-package.R | 11 foieGras-0.7-6/foieGras/R/grab.R | 6 foieGras-0.7-6/foieGras/R/join.R | 5 foieGras-0.7-6/foieGras/R/mpm_control.R | 4 foieGras-0.7-6/foieGras/R/osar.r | 11 foieGras-0.7-6/foieGras/R/plot.fG_mpm.R | 5 foieGras-0.7-6/foieGras/R/plot.fG_osar.R | 8 foieGras-0.7-6/foieGras/R/plot.fG_simfit.R | 4 foieGras-0.7-6/foieGras/R/plot.fG_ssm.R | 6 foieGras-0.7-6/foieGras/R/print.ssm.R | 6 foieGras-0.7-6/foieGras/build/vignette.rds |binary foieGras-0.7-6/foieGras/data/sese2.RData |only foieGras-0.7-6/foieGras/data/xm.RData |binary foieGras-0.7-6/foieGras/inst/doc/basics.html | 158 ++++++-------- foieGras-0.7-6/foieGras/man/fit_mpm.Rd | 4 foieGras-0.7-6/foieGras/man/grab.Rd | 6 foieGras-0.7-6/foieGras/man/join.Rd | 5 foieGras-0.7-6/foieGras/man/mpm_control.Rd | 5 foieGras-0.7-6/foieGras/man/osar.Rd | 11 foieGras-0.7-6/foieGras/man/plot.fG_mpm.Rd | 5 foieGras-0.7-6/foieGras/man/plot.fG_osar.Rd | 8 foieGras-0.7-6/foieGras/man/plot.fG_simfit.Rd | 4 foieGras-0.7-6/foieGras/man/plot.fG_ssm.Rd | 6 foieGras-0.7-6/foieGras/man/print.ssm.Rd | 6 foieGras-0.7-6/foieGras/man/sese2.Rd |only foieGras-0.7-6/foieGras/src/Makevars | 2 foieGras-0.7-6/foieGras/src/Makevars.win | 2 foieGras-0.7-6/foieGras/tests/testthat/test-fit_mpm.R | 8 foieGras-0.7-6/foieGras/tests/testthat/test-fmap.R | 6 foieGras-0.7-6/foieGras/tests/testthat/test-grab.R | 6 foieGras-0.7-6/foieGras/tests/testthat/test-join.R | 6 foieGras-0.7-6/foieGras/tests/testthat/test-osar.R | 7 foieGras-0.7-6/foieGras/tests/testthat/test-plot_mpm.R | 5 foieGras-0.7-6/foieGras/tests/testthat/test-plot_simfit.R | 4 foieGras-0.7-6/foieGras/tests/testthat/test-plot_ssm.R | 6 foieGras-0.7-6/foieGras/tests/testthat/test-sim.R | 5 41 files changed, 248 insertions(+), 189 deletions(-)
Title: Non-Parametric Bayesian Analyses of Animal Movement
Description: Methods for assessing animal movement from telemetry and biologging
data using non-parametric Bayesian methods. This includes features for pre-
processing and analysis of data, as well as the visualization of results
from the models. This framework does not rely on standard parametric density
functions, which provides flexibility during model fitting.
Author: Joshua Cullen [aut, cre, cph] (<https://orcid.org/0000-0002-6935-9340>),
Denis Valle [aut, cph]
Maintainer: Joshua Cullen <joshcullen10@gmail.com>
Diff between bayesmove versions 0.1.0 dated 2020-10-16 and 0.2.0 dated 2021-04-26
DESCRIPTION | 14 +- MD5 | 72 ++++++++----- NAMESPACE | 7 + NEWS.md | 14 ++ R/LDA_gibbs_sampler.R | 4 R/LDA_helper_functions.R | 14 +- R/RcppExports.R | 24 ++++ R/mixmod_gibbs_functions.R |only R/mixmod_gibbs_sampler.R |only R/segmentation_gibbs_functions.R | 2 R/segmentation_gibbs_sampler.R | 34 ++++-- R/segmentation_helper_functions.R | 174 ++++++++++++++++++++++++++++----- R/shinyapp.R |only README.md | 61 +++++++++-- inst/WORDLIST | 11 ++ man/StoreZ.Rd |only man/SummarizeDat.Rd |only man/behav_gibbs_sampler.Rd | 5 man/cluster_obs.Rd |only man/cluster_segments.Rd | 4 man/discrete_move_var.Rd | 3 man/filter_time.Rd | 3 man/get.llk.mixmod.Rd |only man/get_behav_hist.Rd | 10 - man/insert_NAs.Rd |only man/prep_data.Rd | 23 ++-- man/prep_data_internal.Rd | 4 man/round_track_time.Rd | 9 + man/sample.gamma.mixmod.Rd |only man/sample.phi.mixmod.Rd |only man/sample.v.mixmod.Rd |only man/sample.z.mixmod.Rd |only man/segment_behavior.Rd | 6 - man/shiny_tracks.Rd |only src/RcppExports.cpp | 30 +++++ src/mixmod_aux1.cpp |only tests/testthat/test-assign_tseg.R | 5 tests/testthat/test-cluster_obs.R |only tests/testthat/test-df_to_list.R | 3 tests/testthat/test-filter_time.R | 3 tests/testthat/test-get_behav_hist.R | 6 - tests/testthat/test-insert_NAs.R |only tests/testthat/test-prep_data.R | 3 tests/testthat/test-round_track_time.R | 3 tests/testthat/test-segment_behavior.R | 13 +- 45 files changed, 436 insertions(+), 128 deletions(-)
Title: Board Game Graphics
Description: Functions to make board game graphics. Specializes in game diagrams, animations, and "Print & Play" layouts for the 'piecepack' <https://www.ludism.org/ppwiki> but can make graphics for other board game systems. Includes configurations for several public domain game systems.
Author: Trevor L Davis [aut, cre],
Delapouite <https://delapouite.com/> [dtc] (Meeple shape extracted from
"Meeple icon" <https://game-icons.net/1x1/delapouite/meeple.html> /
"CC BY 3.0" <https://creativecommons.org/licenses/by/3.0/>)
Maintainer: Trevor L Davis <trevor.l.davis@gmail.com>
Diff between piecepackr versions 1.7.1 dated 2021-03-25 and 1.7.2 dated 2021-04-26
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 9 ++++++++- R/sysdata.rda |binary 4 files changed, 15 insertions(+), 8 deletions(-)
Title: Dirichlet Process Bayesian Clustering, Profile Regression
Description: Bayesian clustering using a Dirichlet process mixture model. This model is an alternative to regression models, non-parametrically linking a response vector to covariate data through cluster membership. The package allows Bernoulli, Binomial, Poisson, Normal, survival and categorical response, as well as Normal and discrete covariates. It also allows for fixed effects in the response model, where a spatial CAR (conditional autoregressive) term can be also included. Additionally, predictions may be made for the response, and missing values for the covariates are handled. Several samplers and label switching moves are implemented along with diagnostic tools to assess convergence. A number of R functions for post-processing of the output are also provided. In addition to fitting mixtures, it may additionally be of interest to determine which covariates actively drive the mixture components. This is implemented in the package as variable selection. The main reference for the package is Liverani, Hastie, Azizi, Papathomas and Richardson (2015) <doi:10.18637/jss.v064.i07>.
Author: David I. Hastie, Silvia Liverani <liveranis@gmail.com> and Sylvia Richardson with contributions from Aurore J. Lavigne, Lucy Leigh, Lamiae Azizi, Xi Liu, Ruizhu Huang, Austin Gratton, Wei Jing
Maintainer: Silvia Liverani <liveranis@gmail.com>
Diff between PReMiuM versions 3.2.5 dated 2021-04-08 and 3.2.6 dated 2021-04-26
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- src/PReMiuM.cpp | 18 +++++++++--------- tests/testthat/test-calcAvgRisk.R | 4 ++-- tests/testthat/test-profRegr.R | 2 +- 5 files changed, 19 insertions(+), 19 deletions(-)
Title: Document Unit Tests Roxygen-Style
Description: Much as 'roxygen2' allows one to document functions in the same file as the function itself, 'roxut' allows one to write the unit tests in the same file as the function. Once processed, the unit tests are moved to the appropriate directory. Currently supports 'testthat' and 'tinytest' frameworks. The 'roxygen2' package provides much of the infrastructure.
Author: Bryan A. Hanson [aut, cre] (<https://orcid.org/0000-0003-3536-8246>),
Hadley Wickham [aut, cph] (roxygen2 code),
Peter Danenberg [aut, cph] (roxygen2 code),
Gábor Csárdi [aut] (roxygen2 code),
Manuel Eugster [aut, cph] (roxygen2 code),
RStudio [cph] (roxygen2 code)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between roxut versions 0.2.23 dated 2020-07-06 and 0.2.40 dated 2021-04-26
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS.md | 6 ++++++ inst/tinytest/test_roxutTestPkg.R | 33 ++++++++++++++++++++++++--------- 4 files changed, 37 insertions(+), 16 deletions(-)
Title: Visualizes a Matrix as Heatmap
Description: Visualizes a matrix object plainly as heatmap. It provides S3 functions to plot simple matrices and loading matrices.
Author: Sigbert Klinke [aut, cre],
Frédéric Chevalier [ctb]
Maintainer: Sigbert Klinke <sigbert@hu-berlin.de>
Diff between plot.matrix versions 1.5.2 dated 2020-11-01 and 1.6 dated 2021-04-26
DESCRIPTION | 10 MD5 | 24 +- NAMESPACE | 1 R/fmt.R |only R/plot.matrix.R | 42 ++- README.md | 4 build/vignette.rds |binary inst/doc/plot.matrix.R | 77 +++++++ inst/doc/plot.matrix.Rmd | 110 ++++++++++ inst/doc/plot.matrix.html | 495 +++++++++++++++++----------------------------- inst/png |only man/fmt.Rd |only man/plot.matrix.Rd | 93 ++++---- vignettes/plot.matrix.Rmd | 110 ++++++++++ 14 files changed, 574 insertions(+), 392 deletions(-)
Title: Obtain 'jQuery' as an HTML Dependency Object
Description: Obtain any major version of 'jQuery' (<https://code.jquery.com/>) and use it in any webpage generated by 'htmltools' (e.g. 'shiny', 'htmlwidgets', and 'rmarkdown').
Most R users don't need to use this package directly, but other R packages (e.g. 'shiny', 'rmarkdown', etc.) depend on this package to avoid bundling redundant copies of 'jQuery'.
Author: Carson Sievert [aut, cre] (<https://orcid.org/0000-0002-4958-2844>),
Joe Cheng [aut],
RStudio [cph],
jQuery Foundation [cph] (jQuery library and jQuery UI library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/lib/jquery-AUTHORS.txt)
Maintainer: Carson Sievert <carson@rstudio.com>
Diff between jquerylib versions 0.1.3 dated 2020-12-17 and 0.1.4 dated 2021-04-26
jquerylib-0.1.3/jquerylib/inst/lib/jquery-1.12.4.js |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-1.12.4.min.js |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-1.12.4.min.map |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-2.2.4.js |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-2.2.4.min.js |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-2.2.4.min.map |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-3.5.1.js |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-3.5.1.min.js |only jquerylib-0.1.3/jquerylib/inst/lib/jquery-3.5.1.min.map |only jquerylib-0.1.4/jquerylib/DESCRIPTION | 8 +-- jquerylib-0.1.4/jquerylib/MD5 | 31 +++++++-------- jquerylib-0.1.4/jquerylib/NEWS.md | 5 ++ jquerylib-0.1.4/jquerylib/R/jquery.R | 4 - jquerylib-0.1.4/jquerylib/README.md | 17 +++----- jquerylib-0.1.4/jquerylib/inst/lib/1.12.4 |only jquerylib-0.1.4/jquerylib/inst/lib/2.2.4 |only jquerylib-0.1.4/jquerylib/inst/lib/3.6.0 |only jquerylib-0.1.4/jquerylib/tests/testthat/_snaps |only jquerylib-0.1.4/jquerylib/tests/testthat/test-jquery.R | 20 +-------- jquerylib-0.1.4/jquerylib/tools/download.R | 7 ++- 20 files changed, 43 insertions(+), 49 deletions(-)
Title: Statistical Analysis of Mixed Ploidy Populations
Description: Allows users to calculate pairwise Nei's Genetic Distances (Nei 1972), pairwise Fixation
Indexes (Fst) (Weir & Cockerham 1984) and also Genomic Relationship matrixes following Yang et al. (2010) in mixed and single
ploidy populations. Bootstrapping across loci is implemented during Fst calculation to generate confidence intervals and p-values
around pairwise Fst values. StAMPP utilises SNP genotype data of any ploidy level (with the ability to handle missing data) and is coded to
utilise multithreading where available to allow efficient analysis of large datasets. StAMPP is able to handle genotype data from genlight objects
allowing integration with other packages such adegenet.
Please refer to LW Pembleton, NOI Cogan & JW Forster, 2013, Molecular Ecology Resources, 13(5), 946-952. <doi:10.1111/1755-0998.12129> for the appropriate citation and user manual. Thank you in advance.
Author: LW Pembleton
Maintainer: LW Pembleton <luke.pembleton@agriculture.vic.gov.au>
Diff between StAMPP versions 1.6.1 dated 2020-03-20 and 1.6.2 dated 2021-04-26
StAMPP-1.6.1/StAMPP/ChangeLog |only StAMPP-1.6.2/StAMPP/DESCRIPTION | 14 ++++++++------ StAMPP-1.6.2/StAMPP/MD5 | 11 +++++++---- StAMPP-1.6.2/StAMPP/NAMESPACE | 1 + StAMPP-1.6.2/StAMPP/NEWS.md |only StAMPP-1.6.2/StAMPP/R/stamppAmova.R | 12 +++--------- StAMPP-1.6.2/StAMPP/README.md |only StAMPP-1.6.2/StAMPP/inst/StAMPP.png |only StAMPP-1.6.2/StAMPP/inst/StAMPP.svg |only 9 files changed, 19 insertions(+), 19 deletions(-)
Title: Add More 'AdminLTE2' Components to 'shinydashboard'
Description: Extend 'shinydashboard' with 'AdminLTE2' components.
'AdminLTE2' is a free 'Bootstrap 3' dashboard template available
at <https://adminlte.io>. Customize boxes, add timelines and a lot more.
Author: David Granjon [aut, cre],
RinteRface [cph],
Almasaeed Studio [ctb, cph] (AdminLTE2 theme for Bootstrap 3),
Guang Yang [ctb, cph] (ygdashboard original template),
Winston Chang [ctb, cph] (Functions from shinydashboard),
Victor Perrier [ctb] (improved the shinydashboardPlusGallery)
Maintainer: David Granjon <dgranjon@ymail.com>
Diff between shinydashboardPlus versions 2.0.0 dated 2021-03-07 and 2.0.1 dated 2021-04-26
DESCRIPTION | 9 - MD5 | 34 +-- NEWS.md | 12 + R/boxes.R | 2 R/dashboardPage.R | 5 R/useful-items.R | 2 build/shinydashboardPlus.pdf |binary inst/doc/box-elements.html | 4 inst/doc/controlbar.html | 4 inst/doc/css-preloader.html | 4 inst/doc/enhanced-header.html | 4 inst/doc/improved-boxes.html | 4 inst/doc/more-skins.html | 4 inst/doc/shinydashboardPlus.html | 2 inst/shinydashboardPlus-2.0.0/js/shinydashboardPlus.js | 89 +++++----- inst/shinydashboardPlus-2.0.0/js/shinydashboardPlus.min.js | 2 inst/shinydashboardPlus-2.0.0/js/shinydashboardPlus.min.js.map | 2 man/dashboardPage.Rd | 6 18 files changed, 104 insertions(+), 85 deletions(-)
More information about shinydashboardPlus at CRAN
Permanent link
Title: Helpers for Developing Command Line Interfaces
Description: A suite of tools to build attractive command line interfaces
('CLIs'), from semantic elements: headings, lists, alerts, paragraphs,
etc. Supports custom themes via a 'CSS'-like language. It also contains a
number of lower level 'CLI' elements: rules, boxes, trees, and
'Unicode' symbols with 'ASCII' alternatives. It support ANSI colors and
text styles as well.
Author: Gábor Csárdi [aut, cre],
Hadley Wickham [ctb],
Kirill Müller [ctb],
RStudio [cph]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between cli versions 2.4.0 dated 2021-04-05 and 2.5.0 dated 2021-04-26
cli-2.4.0/cli/R/lazyrmd.R |only cli-2.4.0/cli/R/memo.R |only cli-2.4.0/cli/man/cli_memo.Rd |only cli-2.4.0/cli/tests/testthat/_snaps/memo.md |only cli-2.4.0/cli/tests/testthat/test-memo.R |only cli-2.5.0/cli/DESCRIPTION | 14 cli-2.5.0/cli/MD5 | 132 ++++---- cli-2.5.0/cli/NAMESPACE | 31 + cli-2.5.0/cli/NEWS.md | 24 + cli-2.5.0/cli/R/aaa-utils.R | 18 - cli-2.5.0/cli/R/ansi.R | 31 + cli-2.5.0/cli/R/ansiex.R | 64 +++ cli-2.5.0/cli/R/app.R | 8 cli-2.5.0/cli/R/boxes.R | 4 cli-2.5.0/cli/R/bullets.R |only cli-2.5.0/cli/R/cli.R | 42 ++ cli-2.5.0/cli/R/cliapp-docs.R | 67 ++-- cli-2.5.0/cli/R/cliapp.R | 43 -- cli-2.5.0/cli/R/containers.R | 15 cli-2.5.0/cli/R/format-conditions.R |only cli-2.5.0/cli/R/format.R | 20 - cli-2.5.0/cli/R/inline.R | 241 ++++++++++----- cli-2.5.0/cli/R/internals.R | 7 cli-2.5.0/cli/R/num-ansi-colors.R | 17 - cli-2.5.0/cli/R/onload.R | 6 cli-2.5.0/cli/R/rules.R | 4 cli-2.5.0/cli/R/simple-theme.R | 10 cli-2.5.0/cli/R/status-bar.R | 10 cli-2.5.0/cli/R/symbol.R | 2 cli-2.5.0/cli/R/test.R |only cli-2.5.0/cli/R/themes.R | 61 ++- cli-2.5.0/cli/R/tree.R | 6 cli-2.5.0/cli/R/zzz.R | 63 +++ cli-2.5.0/cli/man/ansi-styles.Rd | 62 +++ cli-2.5.0/cli/man/ansi_align.Rd | 1 cli-2.5.0/cli/man/ansi_columns.Rd | 1 cli-2.5.0/cli/man/ansi_nchar.Rd | 1 cli-2.5.0/cli/man/ansi_strsplit.Rd | 1 cli-2.5.0/cli/man/ansi_strtrim.Rd | 1 cli-2.5.0/cli/man/ansi_strwrap.Rd | 1 cli-2.5.0/cli/man/ansi_substr.Rd | 1 cli-2.5.0/cli/man/ansi_substring.Rd | 1 cli-2.5.0/cli/man/ansi_toupper.Rd |only cli-2.5.0/cli/man/ansi_trimws.Rd | 3 cli-2.5.0/cli/man/chunks/pluralization.Rmd | 118 +++---- cli-2.5.0/cli/man/cli_bullets.Rd |only cli-2.5.0/cli/man/cli_format.Rd | 8 cli-2.5.0/cli/man/cli_process_start.Rd | 2 cli-2.5.0/cli/man/cli_status.Rd | 10 cli-2.5.0/cli/man/cli_status_clear.Rd | 2 cli-2.5.0/cli/man/cli_vec.Rd | 4 cli-2.5.0/cli/man/format_error.Rd |only cli-2.5.0/cli/man/inline-markup.Rd | 43 +- cli-2.5.0/cli/man/test_that_cli.Rd |only cli-2.5.0/cli/man/themes.Rd | 24 + cli-2.5.0/cli/tests/testthat/_snaps/ansiex.md | 66 ++++ cli-2.5.0/cli/tests/testthat/_snaps/bullets.md |only cli-2.5.0/cli/tests/testthat/_snaps/cat-helpers.md | 10 cli-2.5.0/cli/tests/testthat/_snaps/format-conditions.md |only cli-2.5.0/cli/tests/testthat/_snaps/inline-2.md | 150 ++++++++- cli-2.5.0/cli/tests/testthat/_snaps/inline.md | 2 cli-2.5.0/cli/tests/testthat/_snaps/lists.md | 42 +- cli-2.5.0/cli/tests/testthat/_snaps/pluralization.md | 6 cli-2.5.0/cli/tests/testthat/_snaps/text.md | 3 cli-2.5.0/cli/tests/testthat/_snaps/themes.md | 60 +++ cli-2.5.0/cli/tests/testthat/helper.R | 34 -- cli-2.5.0/cli/tests/testthat/test-ansiex.R | 36 ++ cli-2.5.0/cli/tests/testthat/test-bullets.R |only cli-2.5.0/cli/tests/testthat/test-format-conditions.R |only cli-2.5.0/cli/tests/testthat/test-inline-2.R | 56 +++ cli-2.5.0/cli/tests/testthat/test-inline.R | 2 cli-2.5.0/cli/tests/testthat/test-pluralization.R | 6 cli-2.5.0/cli/tests/testthat/test-text.R | 6 cli-2.5.0/cli/tests/testthat/test-themes.R | 45 ++ cli-2.5.0/cli/tests/testthat/test-tree.R | 9 75 files changed, 1270 insertions(+), 487 deletions(-)
Title: Maximum Likelihood Multiple Imputation
Description: Implements so called Maximum Likelihood Multiple Imputation as described by von Hippel and Bartlett (2019) <arXiv:1210.0870v10>. A number of different imputations are available, by utilising the 'norm', 'cat' and 'mix' packages. Inferences can be performed either using combination rules similar to Rubin's or using a likelihood score based approach based on theory by Wang and Robins (1998) <doi:10.1093/biomet/85.4.935>.
Author: Jonathan Bartlett
Maintainer: Jonathan Bartlett <j.w.bartlett@bath.ac.uk>
Diff between mlmi versions 1.0.0 dated 2019-08-02 and 1.1.0 dated 2021-04-26
DESCRIPTION | 12 +-- MD5 | 30 +++++--- NAMESPACE | 1 NEWS.md |only R/data.r |only R/refBasedCts.r |only R/sb.r | 6 - R/wb.r | 6 - README.md | 4 - build |only data |only man/catImp.Rd | 11 ++- man/ctsTrialWide.Rd |only man/mixImp.Rd | 15 +++- man/normImp.Rd | 136 +++++++++++++++++++------------------- man/refBasedCts.Rd |only man/scoreBased.Rd | 9 +- man/withinBetween.Rd | 6 - tests/testthat/test_normimp.r | 13 --- tests/testthat/test_refBasedCts.R |only 20 files changed, 132 insertions(+), 117 deletions(-)
Title: Extended Empirical Saddlepoint Density Approximations
Description: Tools for fitting the Extended Empirical Saddlepoint (EES) density of Fasiolo et al. (2018) <doi:10.1214/18-EJS1433>.
Author: Matteo Fasiolo and Simon N. Wood
Maintainer: Matteo Fasiolo <matteo.fasiolo@gmail.com>
Diff between esaddle versions 0.0.6 dated 2020-01-10 and 0.0.7 dated 2021-04-26
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- build/vignette.rds |binary inst/doc/esaddle.R | 14 +++++++------- inst/doc/esaddle.Rmd | 2 +- inst/doc/esaddle.html | 12 ++++++------ man/selectDecay.Rd | 8 ++++---- vignettes/esaddle.Rmd | 2 +- 8 files changed, 31 insertions(+), 31 deletions(-)
Title: User Friendly Bayesian Data Analysis for Psychology
Description: Contains several Bayesian models for data analysis of psychological tests. A user friendly interface for these models should enable students and researchers to perform professional level Bayesian data analysis without advanced knowledge in programming and Bayesian statistics. This package is based on the Stan platform (Carpenter et el. 2017 <doi:10.18637/jss.v076.i01>).
Author: Jure Demšar [cre, aut],
Grega Repovš [aut],
Erik Štrumbelj [aut],
Trustees of Columbia University [cph],
John Kruschke [cph] (R/shared_functions.R - mcmc_hdi,
src/stan_files/ttest.stan),
Rasmus Baath [cph] (R/b_bootstrap.R)
Maintainer: Jure Demšar <jure.demsar@fri.uni-lj.si>
Diff between bayes4psy versions 1.2.5 dated 2020-12-07 and 1.2.6 dated 2021-04-26
DESCRIPTION | 8 +- MD5 | 16 ++--- inst/doc/adaptation_level.R | 10 --- inst/doc/adaptation_level.Rmd | 10 --- inst/doc/adaptation_level.html | 58 +++++++++------------ inst/doc/afterimages.html | 16 ++--- inst/doc/flanker.html | 110 ++++++++++++++++++++--------------------- inst/doc/stroop.html | 38 +++++++------- vignettes/adaptation_level.Rmd | 10 --- 9 files changed, 122 insertions(+), 154 deletions(-)
Title: Mixed Model ANOVA and Statistics for Education
Description: The main functions perform mixed models analysis by least squares
or REML by adding the function r() to formulas of lm() and glm(). A collection of
text-book statistics for higher education is also included, e.g. modifications
of the functions lm(), glm() and associated summaries from the package 'stats'.
Author: Kristian Hovde Liland [aut, cre],
Solve S<e6>b<f8> [ctb],
R-Core [ctb]
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between mixlm versions 1.2.4 dated 2019-12-13 and 1.2.5 dated 2021-04-26
DESCRIPTION | 9 ++++----- MD5 | 8 ++++---- NEWS | 8 ++++++++ R/lm.R | 2 +- R/statistics.R | 6 ++---- 5 files changed, 19 insertions(+), 14 deletions(-)
Title: Run Time-Course MBNMA Models
Description: Fits Bayesian time-course models for model-based network meta-analysis (MBNMA) that allows inclusion of multiple
time-points from studies. Repeated measures over time are accounted for within studies by applying different time-course functions,
following the method of Pedder et al. (2019) <doi:10.1002/jrsm.1351>.
The method allows synthesis of studies with multiple follow-up measurements that can account for time-course for a single or multiple
treatment comparisons. Several general time-course functions are provided; others may be added
by the user. Various characteristics can be flexibly added to the models, such as correlation between time points and shared
class effects. The consistency of direct and indirect evidence in the network can be assessed using unrelated mean effects
models and/or by node-splitting.
Author: Hugo Pedder [aut, cre],
Tobias Saueressig [rev],
Nicky Welton [ctb, rev],
Sofia Dias [ctb, rev],
Meg Bennetts [ctb, rev],
Martin Boucher [ctb, rev]
Maintainer: Hugo Pedder <hugopedder@gmail.com>
Diff between MBNMAtime versions 0.1.3 dated 2020-03-04 and 0.2.0 dated 2021-04-26
MBNMAtime-0.1.3/MBNMAtime/R/write.functions.R |only MBNMAtime-0.1.3/MBNMAtime/inst/extdata/nodesplit1.RData |only MBNMAtime-0.1.3/MBNMAtime/inst/extdata/nodesplit2.RData |only MBNMAtime-0.1.3/MBNMAtime/inst/extdata/ranks.RData |only MBNMAtime-0.1.3/MBNMAtime/inst/extdata/umelist1.Rdata |only MBNMAtime-0.1.3/MBNMAtime/inst/extdata/umelist2.RData |only MBNMAtime-0.1.3/MBNMAtime/inst/extdata/vignettedata.rda |only MBNMAtime-0.1.3/MBNMAtime/man/compound.beta.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.emax.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.emax.hill.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.exponential.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.fract.first.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.fract.second.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.linear.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.piecelinear.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/mb.quadratic.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/print.mb.nodesplit.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/summary.mb.nodesplit.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/time.fun.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/write.alpha.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/write.fract.poly.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/write.inserts.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/write.piece.fract.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/write.piecelinear.Rd |only MBNMAtime-0.1.3/MBNMAtime/man/write.remove.loops.Rd |only MBNMAtime-0.2.0/MBNMAtime/DESCRIPTION | 31 MBNMAtime-0.2.0/MBNMAtime/MD5 | 203 - MBNMAtime-0.2.0/MBNMAtime/NAMESPACE | 26 MBNMAtime-0.2.0/MBNMAtime/NEWS.md | 23 MBNMAtime-0.2.0/MBNMAtime/R/MBNMAtime.R | 36 MBNMAtime-0.2.0/MBNMAtime/R/datasets.R | 43 MBNMAtime-0.2.0/MBNMAtime/R/globals.R | 7 MBNMAtime-0.2.0/MBNMAtime/R/mb.network-class.R |only MBNMAtime-0.2.0/MBNMAtime/R/mb.predict-class.R |only MBNMAtime-0.2.0/MBNMAtime/R/mb.rank-class.R |only MBNMAtime-0.2.0/MBNMAtime/R/mbnma-class.R |only MBNMAtime-0.2.0/MBNMAtime/R/nodesplit-class.R |only MBNMAtime-0.2.0/MBNMAtime/R/nodesplit.functions.R | 337 - MBNMAtime-0.2.0/MBNMAtime/R/plot.functions.R | 995 +---- MBNMAtime-0.2.0/MBNMAtime/R/predict.functions.R | 692 --- MBNMAtime-0.2.0/MBNMAtime/R/prepare.functions.R | 594 ++- MBNMAtime-0.2.0/MBNMAtime/R/print.sum.functions.R | 606 --- MBNMAtime-0.2.0/MBNMAtime/R/rank.functions.R | 240 - MBNMAtime-0.2.0/MBNMAtime/R/run.functions.R | 1656 +-------- MBNMAtime-0.2.0/MBNMAtime/R/time.functions.R |only MBNMAtime-0.2.0/MBNMAtime/R/write.jags.R |only MBNMAtime-0.2.0/MBNMAtime/README.md | 23 MBNMAtime-0.2.0/MBNMAtime/build/partial.rdb |binary MBNMAtime-0.2.0/MBNMAtime/build/vignette.rds |binary MBNMAtime-0.2.0/MBNMAtime/data/copd.rda |only MBNMAtime-0.2.0/MBNMAtime/inst/REFERENCES.bib | 107 MBNMAtime-0.2.0/MBNMAtime/inst/doc/MBNMAtime.R | 595 +-- MBNMAtime-0.2.0/MBNMAtime/inst/doc/MBNMAtime.Rmd | 836 ++-- MBNMAtime-0.2.0/MBNMAtime/inst/doc/MBNMAtime.html | 1835 +++++----- MBNMAtime-0.2.0/MBNMAtime/inst/extdata/nd.exp.rda |only MBNMAtime-0.2.0/MBNMAtime/inst/extdata/nodesplit.rda |only MBNMAtime-0.2.0/MBNMAtime/inst/extdata/ranks.rda |only MBNMAtime-0.2.0/MBNMAtime/man/MBNMAtime-package.Rd | 44 MBNMAtime-0.2.0/MBNMAtime/man/add_index.Rd | 2 MBNMAtime-0.2.0/MBNMAtime/man/alog_pcfb.Rd | 12 MBNMAtime-0.2.0/MBNMAtime/man/copd.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/devplot.Rd | 24 MBNMAtime-0.2.0/MBNMAtime/man/figures/functionstructure.png |binary MBNMAtime-0.2.0/MBNMAtime/man/fitplot.Rd | 25 MBNMAtime-0.2.0/MBNMAtime/man/gen.parameters.to.save.Rd | 8 MBNMAtime-0.2.0/MBNMAtime/man/genspline.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/get.earliest.time.Rd | 2 MBNMAtime-0.2.0/MBNMAtime/man/get.latest.time.Rd | 2 MBNMAtime-0.2.0/MBNMAtime/man/get.model.vals.Rd | 24 MBNMAtime-0.2.0/MBNMAtime/man/get.prior.Rd | 6 MBNMAtime-0.2.0/MBNMAtime/man/getjagsdata.Rd | 35 MBNMAtime-0.2.0/MBNMAtime/man/getnmadata.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/goutSUA_CFB.Rd | 6 MBNMAtime-0.2.0/MBNMAtime/man/goutSUA_CFBcomb.Rd | 6 MBNMAtime-0.2.0/MBNMAtime/man/inconsistency.loops.Rd | 4 MBNMAtime-0.2.0/MBNMAtime/man/mb.network.Rd | 42 MBNMAtime-0.2.0/MBNMAtime/man/mb.nodesplit.Rd | 93 MBNMAtime-0.2.0/MBNMAtime/man/mb.nodesplit.comparisons.Rd | 6 MBNMAtime-0.2.0/MBNMAtime/man/mb.run.Rd | 343 - MBNMAtime-0.2.0/MBNMAtime/man/mb.update.Rd | 10 MBNMAtime-0.2.0/MBNMAtime/man/mb.validate.data.Rd | 8 MBNMAtime-0.2.0/MBNMAtime/man/mb.write.Rd | 126 MBNMAtime-0.2.0/MBNMAtime/man/nma.run.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/obesityBW_CFB.Rd | 10 MBNMAtime-0.2.0/MBNMAtime/man/osteopain.Rd | 6 MBNMAtime-0.2.0/MBNMAtime/man/pDcalc.Rd | 20 MBNMAtime-0.2.0/MBNMAtime/man/plot.mb.predict.Rd | 59 MBNMAtime-0.2.0/MBNMAtime/man/plot.mb.rank.Rd | 23 MBNMAtime-0.2.0/MBNMAtime/man/plot.mbnma.Rd | 19 MBNMAtime-0.2.0/MBNMAtime/man/predict.mbnma.Rd | 65 MBNMAtime-0.2.0/MBNMAtime/man/print.mb.network.Rd | 2 MBNMAtime-0.2.0/MBNMAtime/man/print.mb.predict.Rd | 2 MBNMAtime-0.2.0/MBNMAtime/man/print.mb.rank.Rd | 2 MBNMAtime-0.2.0/MBNMAtime/man/print.nodesplit.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/rank.mb.predict.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/rank.mbnma.Rd | 37 MBNMAtime-0.2.0/MBNMAtime/man/rankauc.Rd | 31 MBNMAtime-0.2.0/MBNMAtime/man/ref.synth.Rd | 29 MBNMAtime-0.2.0/MBNMAtime/man/remove.loops.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/replace.prior.Rd | 2 MBNMAtime-0.2.0/MBNMAtime/man/summary.mb.network.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/summary.mb.predict.Rd | 12 MBNMAtime-0.2.0/MBNMAtime/man/summary.mbnma.Rd | 6 MBNMAtime-0.2.0/MBNMAtime/man/summary.nodesplit.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/temax.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/texp.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/tfpoly.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/timeplot.Rd | 28 MBNMAtime-0.2.0/MBNMAtime/man/tloglin.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/tpoly.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/tspline.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/tuser.Rd |only MBNMAtime-0.2.0/MBNMAtime/man/write.beta.Rd | 22 MBNMAtime-0.2.0/MBNMAtime/man/write.check.Rd | 91 MBNMAtime-0.2.0/MBNMAtime/man/write.cor.Rd | 19 MBNMAtime-0.2.0/MBNMAtime/man/write.likelihood.Rd | 39 MBNMAtime-0.2.0/MBNMAtime/man/write.model.Rd | 4 MBNMAtime-0.2.0/MBNMAtime/man/write.ref.synth.Rd | 91 MBNMAtime-0.2.0/MBNMAtime/man/write.timecourse.Rd |only MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_nodesplit.functions.R | 423 +- MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_plot.functions.R | 665 +-- MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_postest.functions.R | 542 -- MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_prepare.functions.R | 106 MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_print.sum.functions.R | 338 - MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_rank.functions.R |only MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_run.functions.R | 511 +- MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_time.functions.R |only MBNMAtime-0.2.0/MBNMAtime/tests/testthat/test_write.functions.R | 506 -- MBNMAtime-0.2.0/MBNMAtime/vignettes/MBNMAtime.Rmd | 836 ++-- MBNMAtime-0.2.0/MBNMAtime/vignettes/REFERENCES.bib | 107 130 files changed, 5945 insertions(+), 8421 deletions(-)
Title: Cartography for Statistical Analysis
Description: Creating maps for statistical analysis such as proportional circles, chroropleth, typology and flows. Some functions use 'shiny' or 'leaflet' technologies for dynamism and interactivity.
The great features are :
- Create maps in a web environment where the parameters are modifiable on the fly ('shiny' and 'leaflet' technology).
- Create interactive maps through zoom and pop-up ('leaflet' technology).
- Create frozen maps with the possibility to add labels.
Author: Sébastien CALVET - PSAR-AT - DR Provence-Alpes-Cote d'Azur - INSEE [cre, aut],
Sophie AUDRIC - PSAR-AT - DR Provence-Alpes-Cote d'Azur - INSEE [aut],
SED - DR Hauts-de-France - INSEE [ctb],
PSAR-SL - DR Auvergne-Rhone-Alpes - INSEE [ctb],
PSAR-EEP - DR Occitanie - INSEE [ctb],
SED - DR Pays-de-la-Loire - INSEE [ctb]
Maintainer: Sébastien CALVET <sebastien.calvet@insee.fr>
Diff between oceanis versions 1.7.5.1 dated 2021-02-05 and 1.7.5.2 dated 2021-04-26
DESCRIPTION | 8 ++++---- MD5 | 34 +++++++++++++++++----------------- NEWS | 7 +++++++ R/calcul_bornes.R | 2 ++ R/leaflet_classes.R | 10 +++++----- R/leaflet_classes_ronds.R | 10 +++++----- R/leaflet_ronds_classes.R | 10 +++++----- R/plot_classes.R | 6 +++--- R/plot_classes_ronds.R | 6 +++--- R/plot_ronds_classes.R | 6 +++--- R/plot_typo.R | 1 + R/shiny_classes.R | 14 +++++++------- R/shiny_classes_ronds.R | 16 ++++++++-------- R/shiny_ronds.R | 2 +- R/shiny_ronds_classes.R | 16 ++++++++-------- README.md | 2 +- inst/doc/integration_shiny.html | 13 ++++++++++--- inst/doc/oceanis.html | 13 ++++++++++--- 18 files changed, 100 insertions(+), 76 deletions(-)
Title: Multimodal and Multilevel Network Analysis
Description: A set of tools that extend common social network analysis packages
for analysing multimodal and multilevel networks.
It includes functions for one- and two-mode (and sometimes three-mode)
centrality, centralization, clustering, and constraint,
as well as for one- and two-mode network regression and block-modelling.
All functions operate with matrices, edge lists,
and 'igraph', 'network'/'sna', and 'tidygraph' objects.
The package is released as a complement to
'Multimodal Political Networks' (2021, ISBN:9781108985000),
and includes various datasets used in the book.
Author: James Hollway [cph, cre, aut, ctb] (IHEID,
<https://orcid.org/0000-0002-8361-9647>)
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between migraph versions 0.6.2 dated 2021-04-15 and 0.6.3 dated 2021-04-26
migraph-0.6.2/migraph/R/convert.R |only migraph-0.6.2/migraph/R/sample.R |only migraph-0.6.2/migraph/man/convert.Rd |only migraph-0.6.2/migraph/man/sample.Rd |only migraph-0.6.2/migraph/tests/testthat/test-convert.R |only migraph-0.6.2/migraph/tests/testthat/test-sample.R |only migraph-0.6.3/migraph/DESCRIPTION | 8 - migraph-0.6.3/migraph/MD5 | 47 ++++++----- migraph-0.6.3/migraph/NAMESPACE | 16 ++- migraph-0.6.3/migraph/NEWS.md | 40 +++++++++ migraph-0.6.3/migraph/R/blockmodel.R | 39 --------- migraph-0.6.3/migraph/R/coercion.R |only migraph-0.6.3/migraph/R/create.R | 64 ++++++++------- migraph-0.6.3/migraph/R/data_bristol.R | 8 + migraph-0.6.3/migraph/R/generate.R |only migraph-0.6.3/migraph/R/is.R |only migraph-0.6.3/migraph/R/plot.R | 46 ++++++++++- migraph-0.6.3/migraph/R/read_ucinet.R |only migraph-0.6.3/migraph/README.md | 71 ++++++++++++++--- migraph-0.6.3/migraph/inst/CITATION |only migraph-0.6.3/migraph/man/blockmodel.Rd | 3 migraph-0.6.3/migraph/man/coercion.Rd |only migraph-0.6.3/migraph/man/create.Rd | 25 +++-- migraph-0.6.3/migraph/man/generate.Rd |only migraph-0.6.3/migraph/man/is.Rd |only migraph-0.6.3/migraph/man/mpn_bristol.Rd | 6 - migraph-0.6.3/migraph/man/plot.blockmodel.Rd |only migraph-0.6.3/migraph/man/plot.igraph.Rd | 2 migraph-0.6.3/migraph/man/read.Rd |only migraph-0.6.3/migraph/tests/testthat/test-blockmodel.R | 5 + migraph-0.6.3/migraph/tests/testthat/test-coercion.R |only migraph-0.6.3/migraph/tests/testthat/test-create.R | 15 ++- migraph-0.6.3/migraph/tests/testthat/test-generate.R |only migraph-0.6.3/migraph/tests/testthat/test-is.R |only 34 files changed, 269 insertions(+), 126 deletions(-)
Title: Lightweight Infrastructure for Handling Multiple R Markdown
Documents
Description: Provides an infrastructure for handling multiple R Markdown
reports, including automated curation and time-stamping of outputs,
parameterisation and provision of helper functions to manage dependencies.
Author: Thibaut Jombart [aut],
Amy Gimma [ctb],
Tim Taylor [aut, cre] (<https://orcid.org/0000-0002-8587-7113>)
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between reportfactory versions 0.2.0 dated 2021-03-11 and 0.3.0 dated 2021-04-26
DESCRIPTION | 10 +-- MD5 | 20 +++---- NEWS.md | 6 ++ R/compile_reports.R | 24 +++++++- R/list_reports.R | 2 R/new_factory.R | 22 ++++++- man/compile_reports.Rd | 4 + man/new_factory.Rd | 9 ++- tests/testthat.R | 10 ++- tests/testthat/test-compile_reports.R | 94 ++++++++++++++++++++++++++++++++++ tests/testthat/test-new_factory.R | 4 + 11 files changed, 177 insertions(+), 28 deletions(-)
Title: Refitting and Spatial Analysis in Archaeology
Description: Methods to analyse fragmented objects in archaeology using refitting relationships between fragments scattered in archaeological spatial units (e.g. stratigraphic layers). Graphs and graph theory are used to model archaeological observations. The package is mainly based on the 'igraph' package for graph analysis. Functions can: 1) create, manipulate, and simulate fragmentation graphs, 2) measure the cohesion and admixture of archaeological spatial units, and 3) characterise the topology of a specific set of refitting relationships. An empirical dataset is also provided as an example.
Author: Sebastien Plutniak [aut, cre] (<https://orcid.org/0000-0002-6674-3806>)
Maintainer: Sebastien Plutniak <sebastien.plutniak@posteo.net>
Diff between archeofrag versions 0.6.0 dated 2020-11-27 and 0.7 dated 2021-04-26
DESCRIPTION | 14 - MD5 | 84 ++++---- NAMESPACE | 13 - NEWS.md |only R/frag.cycles.R | 9 R/frag.diameters.R | 4 R/frag.edges.weighting.R | 190 ++++++++++++++++++-- R/frag.get.layers.R | 9 R/frag.get.layers.pair.R | 22 +- R/frag.get.parameters.R | 30 ++- R/frag.graph.plot.R | 26 ++ R/frag.layers.admixture.R | 30 ++- R/frag.layers.cohesion.R | 68 +++++-- R/frag.observer.failure.R |only R/frag.path.lengths.R | 3 R/frag.relations.by.layers.R | 15 - R/frag.simul.compare.R |only R/frag.simul.process.R | 118 ++++++++++-- R/frag.simul.summarise.R |only R/make_frag_object.R | 127 ++++++++----- data/LiangAbu.RData |binary inst/doc/archeofrag-vignette.R | 4 inst/doc/archeofrag-vignette.Rmd | 13 + inst/doc/archeofrag-vignette.html | 355 +++++++++++++++++--------------------- man/Frag.object-class.Rd | 27 +- man/LiangAbu.Rd | 33 ++- man/archeofrag-package.Rd | 12 - man/frag.cycles.Rd | 10 - man/frag.diameters.Rd | 8 man/frag.edges.weighting.Rd | 46 +++- man/frag.get.layers.Rd | 8 man/frag.get.layers.pair.Rd | 6 man/frag.get.parameters.Rd | 6 man/frag.graph.plot.Rd | 10 - man/frag.layers.admixture.Rd | 25 +- man/frag.layers.cohesion.Rd | 32 +-- man/frag.observer.failure.Rd |only man/frag.path.lengths.Rd | 8 man/frag.relations.by.layers.Rd | 8 man/frag.simul.compare.Rd |only man/frag.simul.process.Rd | 27 +- man/frag.simul.summarise.Rd |only man/make_cr_graph.Rd | 8 man/make_crsr_graph.Rd | 20 -- man/make_frag_object.Rd | 6 man/make_sr_graph.Rd |only vignettes/archeofrag-vignette.Rmd | 13 + 47 files changed, 937 insertions(+), 510 deletions(-)
More information about ganGenerativeData at CRAN
Permanent link
Title: Survival Analysis
Description: Contains the core survival analysis routines, including
definition of Surv objects,
Kaplan-Meier and Aalen-Johansen (multi-state) curves, Cox models,
and parametric accelerated failure time models.
Author: Terry M Therneau [aut, cre],
Thomas Lumley [ctb, trl] (original S->R port and R maintainer until
2009),
Atkinson Elizabeth [ctb],
Crowson Cynthia [ctb]
Maintainer: Terry M Therneau <therneau.terry@mayo.edu>
Diff between survival versions 3.2-10 dated 2021-03-16 and 3.2-11 dated 2021-04-26
DESCRIPTION | 8 +- MD5 | 130 ++++++++++++++++++++++---------------------- R/attrassign.R | 2 R/coxph.R | 6 +- R/coxph.getdata.R | 6 +- R/model.matrix.coxph.R | 2 R/parsecovar.R | 4 - R/plot.survfit.R | 46 +++++++++++---- R/print.coxph.R | 2 R/print.summary.coxph.R | 2 R/pseudo.R | 6 +- R/pyears.R | 5 + R/residuals.survfit.R | 4 - R/stacker.R | 2 R/survcheck.R | 8 +- R/survfit.R | 8 +- R/survfit.coxphms.R | 11 ++- R/survfitCI.R | 2 R/survfitms.R | 25 +++++--- R/yates.R | 1 build/vignette.rds |binary inst/NEWS.Rd | 22 +++++++ inst/doc/adjcurve.pdf |binary inst/doc/approximate.pdf |binary inst/doc/compete.pdf |binary inst/doc/concordance.pdf |binary inst/doc/multi.pdf |binary inst/doc/other.pdf |binary inst/doc/population.pdf |binary inst/doc/splines.pdf |binary inst/doc/survival.Rnw | 2 inst/doc/survival.pdf |binary inst/doc/tiedtimes.pdf |binary inst/doc/timedep.pdf |binary inst/doc/validate.pdf |binary man/concordance.Rd | 7 +- man/frailty.Rd | 2 man/gbsg.Rd | 6 +- man/rhDNase.Rd | 2 man/rotterdam.Rd | 10 +-- man/summary.survfit.Rd | 11 +++ man/survfit.Rd | 3 - man/survfit.coxph.Rd | 36 ++++++++---- noweb/code.nw | 130 +++++++++++++++++++++++++------------------- noweb/concordance.Rnw | 4 - noweb/coxph.Rnw | 6 +- noweb/coxsurv3.Rnw | 32 ++++++---- noweb/parse.Rnw | 4 - noweb/plot.Rnw | 24 +++++--- noweb/pyears.Rnw | 5 + noweb/residuals.survfit.Rnw | 4 - noweb/survexpm.Rnw | 10 +-- noweb/survfit.Rnw | 8 +- noweb/survfitCI.Rnw | 7 +- noweb/survfitms.Rnw | 25 +++++--- noweb/yates.Rnw | 1 src/cdecomp.c | 10 +-- src/concordance3.c | 2 tests/coxsurv5.R | 8 ++ tests/coxsurv5.Rout.save | 16 ++++- tests/mstrata.R | 23 +++++++ tests/mstrata.Rout.save | 29 ++++++++- tests/multi2.R | 2 tests/multi2.Rout.save | 8 +- vignettes/refer.bib | 26 ++++++++ vignettes/survival.Rnw | 2 66 files changed, 485 insertions(+), 282 deletions(-)
Title: Interactive Q-Q and Manhattan Plots Using 'plotly.js'
Description: Create interactive manhattan, Q-Q and volcano plots that are usable from the R console,
in 'Dash' apps, in the 'RStudio' viewer pane, in 'R Markdown' documents, and in 'Shiny' apps.
Hover the mouse pointer over a point to show details or drag a rectangle to
zoom. A manhattan plot is a popular graphical method for visualizing results
from high-dimensional data analysis such as a (epi)genome wide association study
(GWAS or EWAS), in which p-values, Z-scores, test statistics are plotted on a scatter
plot against their genomic position. Manhattan plots are used for visualizing
potential regions of interest in the genome that are associated with a phenotype.
Interactive manhattan plots allow the inspection of specific value (e.g. rs number or
gene name) by hovering the mouse over a cell, as well as zooming into a region of the
genome (e.g. a chromosome) by dragging a rectangle around the relevant area.
This work is based on the 'qqman' package and the 'plotly.js'
engine. It produces similar manhattan and Q-Q plots as the 'manhattan' and 'qq'
functions in the 'qqman' package, with the advantage of including extra annotation
information and interactive web-based visualizations directly from R.
Once uploaded to a 'plotly' account, 'plotly' graphs (and the data behind them)
can be viewed and modified in a web browser.
Author: Sahir Bhatnagar [aut, cre] (http://sahirbhatnagar.com/)
Maintainer: Sahir Bhatnagar <sahir.bhatnagar@gmail.com>
Diff between manhattanly versions 0.2.0 dated 2016-11-15 and 0.3.0 dated 2021-04-26
DESCRIPTION | 27 +- MD5 | 55 ++-- NAMESPACE | 3 NEWS.md | 23 ++ R/manhattanly.R | 112 +-------- R/manhattanr.R | 88 ++----- R/qqly.R | 231 ++++++++++---------- R/qqr.R | 40 +-- R/utils.R |only R/volcanoly.R | 460 ++++++++++++++++++---------------------- R/volcanor.R | 135 +++++------ README.md | 20 + build/vignette.rds |binary inst/doc/manhattanly.R | 130 ++++++----- inst/doc/manhattanly.Rmd | 161 +++++++------- inst/doc/manhattanly.html | 522 +++++++++++++++++++++++++++------------------- man/HapMap.Rd | 7 man/manhattanly.Rd | 49 ++-- man/manhattanr.Rd | 29 +- man/qqly.Rd | 50 ++-- man/qqr.Rd | 7 man/significantSNP.Rd | 5 man/volcanoly.Rd | 125 ++++++----- man/volcanor.Rd | 54 ++-- tests |only vignettes/manhattanly.Rmd | 161 +++++++------- vignettes/web_only |only 27 files changed, 1270 insertions(+), 1224 deletions(-)
Title: Small Count Rounding of Tabular Data
Description: A statistical disclosure control tool to protect frequency tables in cases where small values are sensitive. The function PLSrounding() performs small count rounding of necessary inner cells so that all small frequencies of cross-classifications to be published (publishable cells) are rounded. This is equivalent to changing micro data since frequencies of unique combinations are changed. Thus, additivity and consistency are guaranteed. The methodology is described in Langsrud and Heldal (2018) <https://www.researchgate.net/publication/327768398_An_Algorithm_for_Small_Count_Rounding_of_Tabular_Data>.
Author: Øyvind Langsrud [aut, cre],
Johan Heldal [aut]
Maintainer: Øyvind Langsrud <oyl@ssb.no>
Diff between SmallCountRounding versions 0.7.0 dated 2021-03-09 and 0.8.0 dated 2021-04-26
SmallCountRounding-0.7.0/SmallCountRounding/R/ModelMatrixExtra.R |only SmallCountRounding-0.7.0/SmallCountRounding/data |only SmallCountRounding-0.7.0/SmallCountRounding/man/sosialFiktiv.Rd |only SmallCountRounding-0.8.0/SmallCountRounding/DESCRIPTION | 8 SmallCountRounding-0.8.0/SmallCountRounding/MD5 | 60 - SmallCountRounding-0.8.0/SmallCountRounding/NAMESPACE | 3 SmallCountRounding-0.8.0/SmallCountRounding/NEWS.md | 8 SmallCountRounding-0.8.0/SmallCountRounding/R/PLSrounding.R | 65 + SmallCountRounding-0.8.0/SmallCountRounding/R/RoundViaDummy.R | 19 SmallCountRounding-0.8.0/SmallCountRounding/R/SmallCountData.R | 55 - SmallCountRounding-0.8.0/SmallCountRounding/build/partial.rdb |only SmallCountRounding-0.8.0/SmallCountRounding/inst/doc/Introduction_to_SmallCountRounding.html | 4 SmallCountRounding-0.8.0/SmallCountRounding/man/FindMaxDiff.Rd | 52 - SmallCountRounding-0.8.0/SmallCountRounding/man/HDutility.Rd | 88 +- SmallCountRounding-0.8.0/SmallCountRounding/man/Lists2formula.Rd | 44 - SmallCountRounding-0.8.0/SmallCountRounding/man/MakeControl.Rd | 44 - SmallCountRounding-0.8.0/SmallCountRounding/man/PLS2way.Rd | 68 +- SmallCountRounding-0.8.0/SmallCountRounding/man/PLSrounding.Rd | 287 ++++---- SmallCountRounding-0.8.0/SmallCountRounding/man/Round2.Rd | 118 +-- SmallCountRounding-0.8.0/SmallCountRounding/man/RoundViaDummy.Rd | 335 +++++----- SmallCountRounding-0.8.0/SmallCountRounding/man/RoundViaDummy2.Rd | 82 +- SmallCountRounding-0.8.0/SmallCountRounding/man/SmallCountData.Rd | 68 +- SmallCountRounding-0.8.0/SmallCountRounding/man/SmallCountRounding-package.Rd | 50 - SmallCountRounding-0.8.0/SmallCountRounding/man/aggrtab.Rd | 66 - SmallCountRounding-0.8.0/SmallCountRounding/man/makeroundtabs.Rd | 154 ++-- SmallCountRounding-0.8.0/SmallCountRounding/man/print.PLSrounded.Rd | 44 - SmallCountRounding-0.8.0/SmallCountRounding/man/redcube.Rd | 88 +- SmallCountRounding-0.8.0/SmallCountRounding/man/roundcube.Rd | 86 +- SmallCountRounding-0.8.0/SmallCountRounding/tests/testthat/test-PLSrounding.R | 33 29 files changed, 995 insertions(+), 934 deletions(-)
More information about SmallCountRounding at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-13 0.1.2
2020-05-14 0.1.1
2019-02-22 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-18 0.1.103
2019-08-05 0.1.102
2019-05-16 0.1.0
Title: Model and Analyse Interval Data
Description: Implements methodologies for modelling interval data by Normal
and Skew-Normal distributions, considering appropriate parameterizations of
the variance-covariance matrix that takes into account the intrinsic nature of
interval data, and lead to four different possible configuration structures.
The Skew-Normal parameters can be estimated by maximum likelihood, while Normal
parameters may be estimated by maximum likelihood or robust trimmed maximum
likelihood methods.
Author: Pedro Duarte Silva <psilva@porto.ucp.pt>, Paula Brito
<mpbrito.fep.up.pt>
Maintainer: Pedro Duarte Silva <psilva@porto.ucp.pt>
Diff between MAINT.Data versions 2.5.0 dated 2020-09-24 and 2.6.0 dated 2021-04-26
CHANGELOG | 24 ++++++ DESCRIPTION | 9 +- MD5 | 87 +++++++++++++----------- NAMESPACE | 7 + R/AgrMcDt.R | 2 R/CPLogLik.grads.R | 10 -- R/ClasGenMetDef.R | 10 ++ R/ConfMatrix.R |only R/CorrHetSNSol.R | 3 R/DACrossVal.R | 26 +++++-- R/IData.R | 158 +++++++++++++++++++-------------------------- R/IdtMaxLikN.R | 29 +++++--- R/IdtMaxLikSN.R | 6 - R/IdtMclust_methods.R | 6 - R/RepLOptim.R | 6 - R/RestCPMaxLik.R | 15 +--- R/Rfasttle.R | 3 R/RobMxtDEst.R | 11 +-- R/SNmle.R | 2 R/fasttle.R | 7 - R/fulltle.R | 5 - R/lqda.R | 10 -- R/mle.R | 11 +-- R/mleVCOV.R | 7 - R/sknda.R | 4 - man/AgrMcDt.Rd | 4 + man/ConfMat.Rd |only man/DACrossVal.Rd | 4 - man/IData.Rd | 11 +-- man/Idtmclust-methods.Rd | 2 man/MAINT.Data-internal.Rd | 5 + man/MAINT.Data-package.Rd | 4 - man/MANOVA-methods.Rd | 8 +- man/Robda-methods.Rd | 6 + man/fasttle-methods.Rd | 10 +- man/fulltle-methods.Rd | 12 +-- man/lda-methods.Rd | 7 + man/mle-methods.Rd | 6 - man/qda-methods.Rd | 4 - man/snda-methods.Rd | 6 + src/msnCP_dev_grad.cpp | 5 - tests |only 42 files changed, 291 insertions(+), 261 deletions(-)
Title: Data Sets for Predictive Analytics Exam
Description: Contains all data sets for Exam PA: Predictive Analytics at
<https://exampa.net/>.
Author: Guanglai Li [aut, cre],
Sam Castillo [aut]
Maintainer: Guanglai Li <liguanglai@gmail.com>
Diff between ExamPAData versions 0.2.1 dated 2021-03-23 and 0.3.0 dated 2021-04-26
DESCRIPTION | 8 ++++---- MD5 | 5 ++++- R/bike_sharing_demand.R |only data/bike_sharing_demand.RData |only man/bike_sharing_demand.Rd |only 5 files changed, 8 insertions(+), 5 deletions(-)
Title: Numerical Standard Errors Computation in R
Description: Collection of functions designed to calculate numerical standard error (NSE) of univariate time series as described in Ardia et al. (2018) <doi:10.1515/jtse-2017-0011> and Ardia and Bluteau (2017) <doi:10.21105/joss.00172>.
Author: David Ardia [aut] (<https://orcid.org/0000-0003-2823-782X>),
Keven Bluteau [aut, cre] (<https://orcid.org/0000-0003-2990-4807>)
Maintainer: Keven Bluteau <keven.bluteau@hec.ca>
Diff between nse versions 1.19 dated 2018-09-13 and 1.20 dated 2021-04-25
nse-1.19/nse/tests |only nse-1.20/nse/DESCRIPTION | 24 nse-1.20/nse/MD5 | 34 - nse-1.20/nse/NEWS | 100 +-- nse-1.20/nse/R/RcppExports.R | 14 nse-1.20/nse/R/kernel_addon.R | 160 ++--- nse-1.20/nse/R/nse.R | 1223 +++++++++++++++++++--------------------- nse-1.20/nse/build/partial.rdb |binary nse-1.20/nse/inst/CITATION | 64 +- nse-1.20/nse/inst/COPYRIGHTS | 20 nse-1.20/nse/man/nse.Rd | 10 nse-1.20/nse/man/nse.andrews.Rd | 16 nse-1.20/nse/man/nse.boot.Rd | 9 nse-1.20/nse/man/nse.cos.Rd | 6 nse-1.20/nse/man/nse.geyer.Rd | 12 nse-1.20/nse/man/nse.hiruk.Rd | 5 nse-1.20/nse/man/nse.nw.Rd | 6 nse-1.20/nse/man/nse.spec0.Rd | 19 18 files changed, 860 insertions(+), 862 deletions(-)
Title: Relational Data Models
Description: Provides tools for working with multiple related
tables, stored as data frames or in a relational database. Multiple
tables (data and metadata) are stored in a compound object, which can
then be manipulated with a pipe-friendly syntax.
Author: Tobias Schieferdecker [aut],
Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
Darko Bergant [aut],
Katharina Brunner [ctb],
James Wondrasek [ctb],
energie360° AG [fnd],
cynkra GmbH [fnd, cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between dm versions 0.1.12 dated 2021-02-15 and 0.1.13 dated 2021-04-25
DESCRIPTION | 19 MD5 | 236 ++++++----- NAMESPACE | 22 + NEWS.md | 33 + R/datamodelr-code.R | 3 R/db-helpers.R | 27 + R/db-interface.R | 12 R/dm-from-src.R | 19 R/draw-dm.R | 78 ++- R/error-helpers.R | 91 ++++ R/foreign-keys.R | 21 - R/learn.R | 4 R/primary-keys.R | 6 R/rows-db.R | 25 + R/rows-dm.R | 2 R/rows-truncate.R | 4 R/schema.R |only R/zoom.R | 22 - README.md | 26 - build/vignette.rds |binary inst/doc/dm.html | 288 ++++++++++---- inst/doc/howto-dm-copy.R | 4 inst/doc/howto-dm-copy.Rmd | 14 inst/doc/howto-dm-copy.html | 376 ++++++++++++++---- inst/doc/howto-dm-db.R | 4 inst/doc/howto-dm-db.Rmd | 14 inst/doc/howto-dm-db.html | 377 ++++++++++++++----- inst/doc/howto-dm-df.Rmd | 8 inst/doc/howto-dm-df.html | 27 - inst/doc/howto-dm-rows.R | 4 inst/doc/howto-dm-rows.Rmd | 18 inst/doc/howto-dm-rows.html | 33 + inst/doc/howto-dm-theory.R | 14 inst/doc/howto-dm-theory.Rmd | 32 - inst/doc/howto-dm-theory.html | 76 ++- inst/doc/tech-dm-cdm.Rmd | 4 inst/doc/tech-dm-cdm.html | 17 inst/doc/tech-dm-class.R | 24 - inst/doc/tech-dm-class.Rmd | 38 - inst/doc/tech-dm-class.html | 75 ++- inst/doc/tech-dm-draw.R | 13 inst/doc/tech-dm-draw.Rmd | 26 - inst/doc/tech-dm-draw.html | 27 + inst/doc/tech-dm-filter.R | 30 - inst/doc/tech-dm-filter.Rmd | 42 +- inst/doc/tech-dm-filter.html | 213 +++++----- inst/doc/tech-dm-join.R | 24 - inst/doc/tech-dm-join.Rmd | 36 - inst/doc/tech-dm-join.html | 91 ++-- inst/doc/tech-dm-low-level.Rmd | 16 inst/doc/tech-dm-low-level.html | 13 inst/doc/tech-dm-naming.Rmd | 6 inst/doc/tech-dm-naming.html | 2 inst/doc/tech-dm-zoom.R | 84 ++-- inst/doc/tech-dm-zoom.Rmd | 88 ++-- inst/doc/tech-dm-zoom.html | 121 +++--- man/copy_dm_to.Rd | 9 man/decompose_table.Rd | 2 man/dm_add_fk.Rd | 2 man/dm_add_pk.Rd | 2 man/dm_draw.Rd | 69 --- man/dm_enum_fk_candidates.Rd | 2 man/dm_filter.Rd | 2 man/dm_financial.Rd | 2 man/dm_from_src.Rd | 4 man/dm_get_all_fks.Rd | 2 man/dm_get_all_pks.Rd | 2 man/dm_get_fk.Rd | 2 man/dm_get_pk.Rd | 2 man/dm_mutate_tbl.Rd | 2 man/dm_ptype.Rd | 2 man/dm_set_colors.Rd |only man/dm_zoom_to.Rd | 23 - man/enum_pk_candidates.Rd | 2 man/reunite_parent_child.Rd | 2 man/rows-db.Rd | 2 man/rows-dm.Rd | 4 man/sql_schema_create.Rd |only man/sql_schema_drop.Rd |only man/sql_schema_exists.Rd |only man/sql_schema_list.Rd |only tests/testthat/_snaps/check-cardinalities.md | 6 tests/testthat/_snaps/dm.md | 1 tests/testthat/_snaps/draw-dm/nycflight-dm-types.svg |only tests/testthat/_snaps/error-helpers.md | 41 +- tests/testthat/_snaps/examine-constraints.md | 11 tests/testthat/_snaps/paste.md | 12 tests/testthat/_snaps/rows-db.md | 96 ++-- tests/testthat/_snaps/rows-dm.md | 21 - tests/testthat/helper-config-db.R | 4 tests/testthat/helper-expectations.R | 19 tests/testthat/helper-skip.R | 4 tests/testthat/test-bind.R | 11 tests/testthat/test-db-helpers.R | 48 +- tests/testthat/test-db-interface.R | 81 ++++ tests/testthat/test-disambiguate.R | 2 tests/testthat/test-dm.R | 16 tests/testthat/test-dplyr.R | 2 tests/testthat/test-draw-dm.R | 91 ++-- tests/testthat/test-error-helpers.R | 11 tests/testthat/test-examine-constraints.R | 1 tests/testthat/test-flatten.R | 9 tests/testthat/test-foreign-keys.R | 16 tests/testthat/test-learn.R | 114 ++--- tests/testthat/test-rows-db.R | 32 + tests/testthat/test-rows-dm.R | 2 tests/testthat/test-schema.R |only tests/testthat/test-select-tbl.R | 1 tests/testthat/test-zoom.R | 1 vignettes/howto-dm-copy.Rmd | 14 vignettes/howto-dm-db.Rmd | 14 vignettes/howto-dm-df.Rmd | 8 vignettes/howto-dm-rows.Rmd | 18 vignettes/howto-dm-theory.Rmd | 32 - vignettes/setup/setup.R | 5 vignettes/tech-dm-cdm.Rmd | 4 vignettes/tech-dm-class.Rmd | 38 - vignettes/tech-dm-draw.Rmd | 26 - vignettes/tech-dm-filter.Rmd | 42 +- vignettes/tech-dm-join.Rmd | 36 - vignettes/tech-dm-low-level.Rmd | 16 vignettes/tech-dm-naming.Rmd | 6 vignettes/tech-dm-zoom.Rmd | 88 ++-- 123 files changed, 2524 insertions(+), 1544 deletions(-)
Title: Sleep Cycle Detection
Description: Sleep cycles are largely detected according to the originally proposed criteria by Feinberg & Floyd (1979) <doi:10.1111/j.1469-8986.1979.tb02991.x> as described in Blume & Cajochen (2021) <doi:10.1016/j.mex.2021.101318>.
Author: Christine Blume [aut, cre] (<https://orcid.org/0000-0003-2328-9612>)
Maintainer: Christine Blume <christine.blume@sbg.ac.at>
Diff between SleepCycles versions 1.1.1 dated 2021-03-29 and 1.1.2 dated 2021-04-25
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/load_prep.R | 4 ++-- build/partial.rdb |binary 5 files changed, 14 insertions(+), 9 deletions(-)
Title: Detecting Politeness Features in Text
Description: Detecting markers of politeness in English natural language. This package allows researchers to easily visualize and quantify politeness between groups of documents. This package combines prior research on the linguistic markers of politeness. We thank the Spencer Foundation, the Hewlett Foundation, and Harvard's Institute for Quantitative Social Science for support.
Author: Mike Yeomans, Alejandro Kantor, Dustin Tingley
Maintainer: Mike Yeomans <mk.yeomans@gmail.com>
Diff between politeness versions 0.7.7 dated 2021-03-01 and 0.7.8 dated 2021-04-25
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NAMESPACE | 4 ++++ R/dictTools.R | 8 ++++---- R/sysdata.rda |binary inst/doc/politeness.html | 6 +++--- 6 files changed, 19 insertions(+), 15 deletions(-)
Title: Measuring Concreteness in Natural Language
Description: Models for detecting concreteness in natural language. This package is built in support of Yeomans (2021) <doi:10.1016/j.obhdp.2020.10.008>, which reviews linguistic models of concreteness in several domains. Here, we provide an implementation of the best-performing domain-general model (from Brysbaert et al., (2014) <doi:10.3758/s13428-013-0403-5>) as well as two pre-trained models for the feedback and plan-making domains.
Author: Mike Yeomans
Maintainer: Mike Yeomans <mk.yeomans@gmail.com>
Diff between doc2concrete versions 0.5.2 dated 2021-01-13 and 0.5.3 dated 2021-04-25
doc2concrete-0.5.2/doc2concrete/man/gramstem.Rd |only doc2concrete-0.5.2/doc2concrete/man/ngrammer.Rd |only doc2concrete-0.5.3/doc2concrete/DESCRIPTION | 10 - doc2concrete-0.5.3/doc2concrete/LICENSE | 2 doc2concrete-0.5.3/doc2concrete/MD5 | 21 +-- doc2concrete-0.5.3/doc2concrete/R/ngramComponents.R | 77 +++++-------- doc2concrete-0.5.3/doc2concrete/R/ngramTokens.R | 17 +- doc2concrete-0.5.3/doc2concrete/inst/doc/doc2concrete.R | 2 doc2concrete-0.5.3/doc2concrete/inst/doc/doc2concrete.Rmd | 6 - doc2concrete-0.5.3/doc2concrete/inst/doc/doc2concrete.html | 16 +- doc2concrete-0.5.3/doc2concrete/man/overlaps.Rd | 2 doc2concrete-0.5.3/doc2concrete/man/stemmer.Rd |only doc2concrete-0.5.3/doc2concrete/vignettes/doc2concrete.Rmd | 6 - 13 files changed, 76 insertions(+), 83 deletions(-)
Title: Simple Methods for Calculating Value at Risk and Expected
Shortfall
Description: Enables the user to calculate Value at Risk (VaR)
and Expected Shortfall (ES) by means of various types of historical
simulation. Currently plain-, age-, volatility-weighted- and filtered
historical simulation are implemented in this package. Volatility weighting
can be carried out via an exponentially weighted moving average model
(EWMA) or other GARCH-type models. The methods of the package are described in
Gurrola-Perez, P. and Murphy, D. (2015)
<https://EconPapers.repec.org/RePEc:boe:boeewp:0525>.
Author: Sebastian Letmathe [aut, cre] (Paderborn University, Germany)
Maintainer: Sebastian Letmathe <sebastian.letmathe@uni-paderborn.de>
Diff between quarks versions 1.0.5 dated 2021-03-01 and 1.0.6 dated 2021-04-25
DESCRIPTION | 18 ++-- MD5 | 35 ++++--- NAMESPACE | 1 NEWS.md | 8 + R/fhs.R |only R/hs.R | 9 +- R/plot.quarks.R | 2 R/rollcast.R | 136 +++++++++++++++++++++++-------- R/vwhs.R | 49 +++++++++-- README.md | 63 ++++++++++---- data/DAX30.rda |binary man/fhs.Rd |only man/figures/README-unnamed-chunk-2-1.png |binary man/figures/README-unnamed-chunk-3-1.png |binary man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |only man/figures/README-unnamed-chunk-6-1.png |only man/figures/README-unnamed-chunk-7-1.png |only man/hs.Rd | 8 - man/rollcast.Rd | 76 +++++++++++++---- man/vwhs.Rd | 26 ++++- 21 files changed, 319 insertions(+), 112 deletions(-)
Title: Administrative Boundaries of Spain
Description: Administrative Boundaries of Spain at several levels (CCAA,
Provinces, Municipalities) based on the GISCO Eurostat database
<https://ec.europa.eu/eurostat/web/gisco> and 'CartoBase SIANE'
from 'Instituto Geografico Nacional' <https://www.ign.es/>.
It also provides a 'leaflet' plugin and the ability of
downloading and processing static tiles.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>),
EuroGeographics [cph] (for the administrative boundaries.),
Instituto Geográfico Nacional [cph] (for the administrative
boundaries.)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between mapSpain versions 0.2.2 dated 2021-04-17 and 0.2.3 dated 2021-04-25
mapSpain-0.2.2/mapSpain/build |only mapSpain-0.2.2/mapSpain/inst/doc |only mapSpain-0.2.2/mapSpain/vignettes |only mapSpain-0.2.3/mapSpain/DESCRIPTION | 11 +--- mapSpain-0.2.3/mapSpain/MD5 | 37 +++++--------- mapSpain-0.2.3/mapSpain/NEWS.md | 18 ++++++ mapSpain-0.2.3/mapSpain/R/addProviderEspTiles.R | 7 +- mapSpain-0.2.3/mapSpain/R/esp_dict.R | 8 +++ mapSpain-0.2.3/mapSpain/R/esp_getTiles.R | 7 +- mapSpain-0.2.3/mapSpain/R/esp_get_can_box.R | 9 ++- mapSpain-0.2.3/mapSpain/R/esp_get_capimun.R | 4 + mapSpain-0.2.3/mapSpain/R/utils_names.R | 2 mapSpain-0.2.3/mapSpain/R/utils_tiles.R | 10 +++ mapSpain-0.2.3/mapSpain/inst/tinytest/test_esp_dict.R | 13 +++- mapSpain-0.2.3/mapSpain/inst/tinytest/test_esp_getTiles.R | 4 - mapSpain-0.2.3/mapSpain/man/addProviderEspTiles.Rd | 10 +-- mapSpain-0.2.3/mapSpain/man/esp_getTiles.Rd | 4 + mapSpain-0.2.3/mapSpain/man/esp_get_can_box.Rd | 9 ++- mapSpain-0.2.3/mapSpain/man/esp_get_capimun.Rd | 4 + 19 files changed, 102 insertions(+), 55 deletions(-)
Title: PKPD, PBPK, and Systems Pharmacology Modeling Tools
Description: Complete work flow for the analysis of pharmacokinetic pharmacodynamic (PKPD), physiologically-based pharmacokinetic (PBPK) and systems pharmacology models including: creation of ordinary differential equation-based models, pooled parameter estimation, individual/population based simulations, rule-based simulations for clinical trial design and modeling assays, deployment with a customizable 'Shiny' app, and non-compartmental analysis. System-specific analysis templates can be generated and each element includes integrated reporting with 'PowerPoint' and 'Word'.
Author: John Harrold [aut, cre] (<https://orcid.org/0000-0003-2052-4373>)
Maintainer: John Harrold <john.m.harrold@gmail.com>
Diff between ubiquity versions 1.0.4 dated 2021-04-18 and 1.0.5 dated 2021-04-25
DESCRIPTION | 6 +-- MD5 | 44 ++++++++++++------------ NAMESPACE | 2 + R/ubiquity.r | 54 ++++++++++++++++++++++++++++++ README.md | 24 +++++++------ build/partial.rdb |binary inst/doc/Deployment.html | 4 +- inst/doc/Estimation.html | 4 +- inst/doc/Language.Rmd | 43 ++++++++++++++++++++++-- inst/doc/Language.html | 30 +++++++++++++--- inst/doc/NCA.html | 42 +++++++++++------------ inst/doc/Reporting.Rmd | 35 ++++++------------- inst/doc/Reporting.html | 59 +++++++++++++++++++-------------- inst/doc/Simulation.Rmd | 2 - inst/doc/Simulation.html | 16 ++++---- inst/doc/Titration.html | 16 ++++---- inst/ubinc/perl/build_system.pl | 4 +- inst/ubinc/scripts/ubiquity_fcns.R | 54 ++++++++++++++++++++++++++++++ inst/ubinc/templates/ubiquity_server.R | 5 +- man/tic.Rd |only man/toc.Rd |only vignettes/Language.Rmd | 43 ++++++++++++++++++++++-- vignettes/Reporting.Rmd | 35 ++++++------------- vignettes/Simulation.Rmd | 2 - 24 files changed, 363 insertions(+), 161 deletions(-)
Title: Estimation of Entropy, Mutual Information and Related Quantities
Description: Implements various estimators of entropy for discrete random
variables, including the shrinkage estimator by Hausser and Strimmer (2009),
the maximum likelihood and the Millow-Madow estimator, various Bayesian
estimators, and the Chao-Shen estimator. It also offers an R interface to the
NSB estimator. Furthermore, the package provides functions for estimating the
Kullback-Leibler divergence, the chi-squared divergence, mutual information,
and the chi-squared divergence of independence. It also computes the
G statistic and the chi-squared statistic and corresponding p-values.
Furthermore, there are functions for discretizing continuous random variables.
Author: Jean Hausser and Korbinian Strimmer
Maintainer: Korbinian Strimmer <strimmerlab@gmail.com>
Diff between entropy versions 1.2.1 dated 2014-11-14 and 1.3.0 dated 2021-04-25
DESCRIPTION | 28 ++++++++++++----------- MD5 | 32 ++++++++++++++------------ NAMESPACE | 6 ++++- NEWS | 11 +++++++++ R/Gstat.R |only man/Gstat.Rd |only man/KL.plugin.Rd | 49 +++++++++++++++++++++++++--------------- man/discretize.Rd | 2 - man/entropy-internal.Rd | 10 +++++--- man/entropy.ChaoShen.Rd | 2 - man/entropy.Dirichlet.Rd | 14 +++++------ man/entropy.MillerMadow.Rd | 2 - man/entropy.Rd | 2 - man/entropy.empirical.Rd | 54 +++++++++++++++++++++++++++++---------------- man/entropy.package.Rd | 10 +++++--- man/entropy.plugin.Rd | 9 +++---- man/entropy.shrink.Rd | 16 ++++++------- man/mi.plugin.Rd | 16 ++++++------- 18 files changed, 157 insertions(+), 106 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-23 0.3.3
2021-02-17 0.3.2
2020-07-21 0.3.1
2020-07-09 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-22 0.4.1
2021-03-28 0.3.1
2021-03-27 0.3.0
2021-02-27 0.2.0
2021-02-01 0.1.0
2021-01-21 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-23 1.5.2
2020-07-27 1.5.1
2020-07-24 1.5.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-24 1.8
2021-01-27 1.7
2020-10-20 1.6.5
2020-01-30 1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-31 0.1.1
2021-03-30 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-27 0.1.1
2021-02-27 0.1.0
2021-02-01 0.0.2
2021-02-01 0.0.4
Title: Record Linkage and Epidemiological Case Definitions in R
Description: An R package for record linkage and implementing epidemiological case definitions in R.
Record linkage is implemented either through a multistage deterministic approach or a probabilistic approach.
Matching records are assigned to unique groups. There are mechanisms to address missing data and conflicting matches across linkage stages.
Track and assign events (e.g. sample collection) and periods (e.g. hospital admission) to unique groups based on a case definition.
The tracking process permits several options such as episode lengths and recurrence.
Duplicate events or records can then be identified for removal or further analyses.
Author: Olisaeloka Nsonwu
Maintainer: Olisaeloka Nsonwu <olisa.nsonwu@gmail.com>
Diff between diyar versions 0.2.0 dated 2020-09-17 and 0.3.0 dated 2021-04-25
diyar-0.2.0/diyar/man/combns.Rd |only diyar-0.2.0/diyar/man/to_s4.Rd |only diyar-0.3.0/diyar/DESCRIPTION | 31 diyar-0.3.0/diyar/MD5 | 114 - diyar-0.3.0/diyar/NAMESPACE | 46 diyar-0.3.0/diyar/NEWS.md | 261 ++- diyar-0.3.0/diyar/R/bridge_episode_group.R | 2 diyar-0.3.0/diyar/R/bridge_record_group.R | 40 diyar-0.3.0/diyar/R/classes.R | 972 +++++++++++- diyar-0.3.0/diyar/R/conv_funcs.R | 431 +++++ diyar-0.3.0/diyar/R/d_labels.R |only diyar-0.3.0/diyar/R/data.R | 8 diyar-0.3.0/diyar/R/dev_funcs.R | 2 diyar-0.3.0/diyar/R/episode_group.R | 1814 +++++++++++++++--------- diyar-0.3.0/diyar/R/err_checks.R | 1594 ++++++++++++++++----- diyar-0.3.0/diyar/R/number_line.R | 438 +++-- diyar-0.3.0/diyar/R/overlap.R | 241 ++- diyar-0.3.0/diyar/R/panes.R |only diyar-0.3.0/diyar/R/predefined_tests.R |only diyar-0.3.0/diyar/R/record_group.R | 1139 +++++++++------ diyar-0.3.0/diyar/R/schema.R |only diyar-0.3.0/diyar/R/set_operations.R | 30 diyar-0.3.0/diyar/R/sub_criteria.R |only diyar-0.3.0/diyar/R/to_s4.R | 124 - diyar-0.3.0/diyar/README.md | 241 +-- diyar-0.3.0/diyar/build/vignette.rds |binary diyar-0.3.0/diyar/data/overlap_methods.RData |only diyar-0.3.0/diyar/inst/doc/episodes.R | 1173 ++++++--------- diyar-0.3.0/diyar/inst/doc/episodes.Rmd | 1595 +++++++-------------- diyar-0.3.0/diyar/inst/doc/episodes.html | 1810 +++++++---------------- diyar-0.3.0/diyar/inst/doc/links.R | 635 +++----- diyar-0.3.0/diyar/inst/doc/links.Rmd | 699 ++++----- diyar-0.3.0/diyar/inst/doc/links.html | 1212 ++++++---------- diyar-0.3.0/diyar/inst/doc/number_line.R | 308 ---- diyar-0.3.0/diyar/inst/doc/number_line.Rmd | 427 ----- diyar-0.3.0/diyar/inst/doc/number_line.html | 451 +---- diyar-0.3.0/diyar/man/custom_sort.Rd | 56 diyar-0.3.0/diyar/man/diyar_label.Rd |only diyar-0.3.0/diyar/man/epid-class.Rd | 53 diyar-0.3.0/diyar/man/episodes.Rd | 206 +- diyar-0.3.0/diyar/man/links.Rd | 133 + diyar-0.3.0/diyar/man/links_wf_probabilistic.Rd |only diyar-0.3.0/diyar/man/number_line-class.Rd | 29 diyar-0.3.0/diyar/man/number_line.Rd | 130 - diyar-0.3.0/diyar/man/overlaps.Rd | 35 diyar-0.3.0/diyar/man/pane-class.Rd |only diyar-0.3.0/diyar/man/partitions.Rd |only diyar-0.3.0/diyar/man/patient_list.Rd | 8 diyar-0.3.0/diyar/man/pid-class.Rd | 41 diyar-0.3.0/diyar/man/predefined_tests.Rd | 60 diyar-0.3.0/diyar/man/schema.Rd |only diyar-0.3.0/diyar/man/set_operations.Rd | 28 diyar-0.3.0/diyar/man/sub_criteria.Rd | 95 - diyar-0.3.0/diyar/man/windows.Rd | 49 diyar-0.3.0/diyar/vignettes/episodes.Rmd | 1595 +++++++-------------- diyar-0.3.0/diyar/vignettes/fig_e1.png |only diyar-0.3.0/diyar/vignettes/fig_e10.png |only diyar-0.3.0/diyar/vignettes/fig_e11.png |only diyar-0.3.0/diyar/vignettes/fig_e12.png |only diyar-0.3.0/diyar/vignettes/fig_e2.png |only diyar-0.3.0/diyar/vignettes/fig_e3.png |only diyar-0.3.0/diyar/vignettes/fig_e4.png |only diyar-0.3.0/diyar/vignettes/fig_e5.png |only diyar-0.3.0/diyar/vignettes/fig_e6.png |only diyar-0.3.0/diyar/vignettes/fig_e7.png |only diyar-0.3.0/diyar/vignettes/fig_e8.png |only diyar-0.3.0/diyar/vignettes/fig_e9.png |only diyar-0.3.0/diyar/vignettes/fig_n1.png |only diyar-0.3.0/diyar/vignettes/fig_p1.png |only diyar-0.3.0/diyar/vignettes/fig_p2.png |only diyar-0.3.0/diyar/vignettes/links.Rmd | 699 ++++----- diyar-0.3.0/diyar/vignettes/number_line.Rmd | 427 ----- 72 files changed, 9755 insertions(+), 9727 deletions(-)
Title: Bayesian Inference of Vector Autoregressive Models
Description: Assists in the set-up of algorithms for Bayesian inference of vector autoregressive (VAR) models. Functions for posterior simulation, forecasting, impulse response analysis and forecast error variance decomposition are largely based on the introductory texts of Chan, Koop, Poirier and Tobias (2019, ISBN: 9781108437493), Koop and Korobilis (2010) <doi:10.1561/0800000013> and Luetkepohl (2006, ISBN: 9783540262398).
Author: Franz X. Mohr [aut, cre]
Maintainer: Franz X. Mohr <bvartools@outlook.com>
Diff between bvartools versions 0.1.0 dated 2020-09-18 and 0.2.0 dated 2021-04-25
DESCRIPTION | 26 + MD5 | 109 ++++--- NAMESPACE | 9 NEWS.md | 10 R/RcppExports.R | 14 R/add_priors.R | 603 ----------------------------------------- R/add_priors.bvarmodel.R |only R/add_priors.bvecmodel.R |only R/add_priors.dfmodel.R |only R/bvarpost.R | 8 R/bvartools.R | 14 R/bvecpost.R | 6 R/data.R | 24 + R/dfm.R |only R/dfmpost.R |only R/draw_posterior.R | 23 - R/gen_dfm.R |only R/inclusion_prior.R | 4 R/minnesota_prior.R | 2 R/plot.bvarirf.R | 3 R/plot.dfm.R |only R/predict.bvar.R | 32 +- R/ssvs_prior.R | 2 R/summary.dfm.R |only R/thin_posterior.dfm.R |only build/partial.rdb |only build/vignette.rds |binary data/bem_dfmdata.rda |only inst/doc/bvartools.Rmd | 2 inst/doc/bvartools.html | 96 +++--- inst/doc/bvec.html | 23 + inst/doc/model-comparison.html | 23 + inst/doc/ssvs.html | 23 + man/add_priors.Rd | 155 ---------- man/add_priors.bvarmodel.Rd |only man/add_priors.bvecmodel.Rd |only man/add_priors.dfmodel.Rd |only man/bem_dfmdata.Rd |only man/bvar.Rd | 4 man/bvarpost.Rd | 8 man/bvartools.Rd | 14 man/bvecpost.Rd | 6 man/bvs.Rd | 2 man/dfm.Rd |only man/dfmpost.Rd |only man/draw_posterior.Rd | 9 man/gen_dfm.Rd |only man/inclusion_prior.Rd | 4 man/irf.Rd | 3 man/kalman_dk.Rd | 2 man/minnesota_prior.Rd | 2 man/post_coint_kls.Rd | 2 man/post_coint_kls_sur.Rd | 2 man/ssvs.Rd | 2 man/ssvs_prior.Rd | 2 man/summary.dfm.Rd |only man/thin_posterior.dfm.Rd |only src/RcppExports.cpp | 12 src/bvs.cpp | 2 src/dfmalg.cpp |only src/kalman_dk.cpp | 2 src/post_coint_kls.cpp | 2 src/post_coint_kls_sur.cpp | 2 src/post_normal.cpp | 12 src/svss.cpp | 2 vignettes/bvartools.Rmd | 2 66 files changed, 388 insertions(+), 921 deletions(-)
Title: Analyses of Phylogenetics and Evolution
Description: Functions for reading, writing, plotting, and manipulating phylogenetic trees, analyses of comparative data in a phylogenetic framework, ancestral character analyses, analyses of diversification and macroevolution, computing distances from DNA sequences, reading and writing nucleotide sequences as well as importing from BioConductor, and several tools such as Mantel's test, generalized skyline plots, graphical exploration of phylogenetic data (alex, trex, kronoviz), estimation of absolute evolutionary rates and clock-like trees using mean path lengths and penalized likelihood, dating trees with non-contemporaneous sequences, translating DNA into AA sequences, and assessing sequence alignments. Phylogeny estimation can be done with the NJ, BIONJ, ME, MVR, SDM, and triangle methods, and several methods handling incomplete distance matrices (NJ*, BIONJ*, MVR*, and the corresponding triangle method). Some functions call external applications (PhyML, Clustal, T-Coffee, Muscle) whose results are returned into R.
Author: Emmanuel Paradis [aut, cre, cph]
(<https://orcid.org/0000-0003-3092-2199>),
Simon Blomberg [aut, cph] (<https://orcid.org/0000-0003-1062-0839>),
Ben Bolker [aut, cph] (<https://orcid.org/0000-0002-2127-0443>),
Joseph Brown [aut, cph] (<https://orcid.org/0000-0002-3835-8062>),
Santiago Claramunt [aut, cph] (<https://orcid.org/0000-0002-8926-5974>),
Julien Claude [aut, cph] (<https://orcid.org/0000-0002-9267-1228>),
Hoa Sien Cuong [aut, cph],
Richard Desper [aut, cph],
Gilles Didier [aut, cph] (<https://orcid.org/0000-0003-0596-9112>),
Benoit Durand [aut, cph],
Julien Dutheil [aut, cph] (<https://orcid.org/0000-0001-7753-4121>),
RJ Ewing [aut, cph],
Olivier Gascuel [aut, cph],
Thomas Guillerme [aut, cph] (<https://orcid.org/0000-0003-4325-1275>),
Christoph Heibl [aut, cph] (<https://orcid.org/0000-0002-7655-3299>),
Anthony Ives [aut, cph] (<https://orcid.org/0000-0001-9375-9523>),
Bradley Jones [aut, cph] (<https://orcid.org/0000-0003-4498-1069>),
Franz Krah [aut, cph] (<https://orcid.org/0000-0001-7866-7508>),
Daniel Lawson [aut, cph] (<https://orcid.org/0000-0002-5311-6213>),
Vincent Lefort [aut, cph],
Pierre Legendre [aut, cph] (<https://orcid.org/0000-0002-3838-3305>),
Jim Lemon [aut, cph],
Guillaume Louvel [aut, cph] (<https://orcid.org/0000-0002-7745-0785>),
Eric Marcon [aut, cph] (<https://orcid.org/0000-0002-5249-321X>),
Rosemary McCloskey [aut, cph] (<https://orcid.org/0000-0002-9772-8553>),
Johan Nylander [aut, cph],
Rainer Opgen-Rhein [aut, cph],
Andrei-Alin Popescu [aut, cph],
Manuela Royer-Carenzi [aut, cph],
Klaus Schliep [aut, cph] (<https://orcid.org/0000-0003-2941-0161>),
Korbinian Strimmer [aut, cph] (<https://orcid.org/0000-0001-7917-2056>),
Damien de Vienne [aut, cph] (<https://orcid.org/0000-0001-9532-5251>)
Maintainer: Emmanuel Paradis <Emmanuel.Paradis@ird.fr>
Diff between ape versions 5.4-1 dated 2020-08-13 and 5.5 dated 2021-04-25
DESCRIPTION | 26 +- MD5 | 135 ++++++----- NAMESPACE | 8 R/CADM.global.R | 52 ++-- R/CADM.post.R | 56 ++-- R/DNA.R | 55 ++-- R/as.bitsplits.R | 6 R/as.phylo.formula.R | 3 R/bind.tree.R | 7 R/biplot.pcoa.R | 8 R/corphylo.R | 4 R/dist.topo.R | 65 ++++- R/howmanytrees.R | 45 ++- R/is.binary.tree.R | 6 R/lmorigin.R | 20 - R/ltt.plot.R | 116 +++++---- R/multi2di.R | 6 R/nj.R | 19 - R/node.dating.R | 16 - R/nodelabels.R | 9 R/pcoa.R | 6 R/print.lmorigin.R | 6 R/read.tree.R | 6 R/root.R | 9 R/rtree.R | 142 +++++++++++ R/write.dna.R | 17 - README.md |only build/partial.rdb |only build/vignette.rds |binary inst/doc/DrawingPhylogenies.R |only inst/doc/DrawingPhylogenies.Rnw |only inst/doc/DrawingPhylogenies.pdf |only inst/doc/MoranI.R | 29 +- inst/doc/MoranI.Rnw | 32 +- inst/doc/MoranI.pdf |binary inst/doc/RandomTopologies.R |only inst/doc/RandomTopologies.Rnw |only inst/doc/RandomTopologies.pdf |only man/ape-internal.Rd | 4 man/as.bitsplits.Rd | 15 - man/as.phylo.Rd | 5 man/as.phylo.formula.Rd | 9 man/base.freq.Rd | 3 man/dist.topo.Rd | 11 man/howmanytrees.Rd | 30 +- man/ltt.plot.Rd | 13 - man/mcconwaysims.test.Rd | 3 man/nodelabels.Rd | 3 man/read.dna.Rd | 4 man/read.gff.Rd | 4 man/read.nexus.data.Rd | 2 man/root.Rd | 2 man/rtree.Rd | 22 + man/seg.sites.Rd | 3 man/slowinskiguyer.test.Rd | 3 man/write.dna.Rd | 2 man/write.nexus.data.Rd | 2 src/NNI.c | 14 - src/ape.c | 28 -- src/bionjs.c | 71 ----- src/bitsplits.c | 89 ------- src/dist_dna.c | 467 +++++++++++++++++++++------------------ src/mvrs.c | 70 ----- src/nj.c | 198 ++++++++-------- src/njs.c | 142 ----------- src/reorder_phylo.c | 79 ------ src/treePop.c | 87 ------- src/triangMtd.c | 70 ----- src/triangMtds.c | 12 - vignettes/DrawingPhylogenies.Rnw |only vignettes/MoranI.Rnw | 32 +- vignettes/RandomTopologies.Rnw |only vignettes/ape.bib | 110 ++++++--- vignettes/ape.sty |only 74 files changed, 1145 insertions(+), 1373 deletions(-)
Title: Operations to Ease Data Analyses Specific to Nigeria
Description: A set of convenience functions as well as geographical/political
data about Nigeria, aimed at simplifying work with data and information that
are specific to the country.
Author: Victor Ordu [aut, cre] (<https://orcid.org/0000-0003-3716-0668>)
Maintainer: Victor Ordu <victorordu@outlook.com>
Diff between naijR versions 0.1.4 dated 2020-08-25 and 0.2.1 dated 2021-04-25
naijR-0.1.4/naijR/R/lgas_nigeria.R |only naijR-0.1.4/naijR/R/political.R |only naijR-0.1.4/naijR/R/ward_data.R |only naijR-0.1.4/naijR/inst/extdata |only naijR-0.1.4/naijR/inst/ward_data.rda |only naijR-0.1.4/naijR/man/lgas_ng.Rd |only naijR-0.1.4/naijR/tests/testthat/test-lgas_nigeria.R |only naijR-0.1.4/naijR/tests/testthat/test-political.R |only naijR-0.2.1/naijR/DESCRIPTION | 21 naijR-0.2.1/naijR/MD5 | 60 - naijR-0.2.1/naijR/NAMESPACE | 9 naijR-0.2.1/naijR/NEWS.md | 23 naijR-0.2.1/naijR/R/map_nigeria.R | 507 ++++++++---- naijR-0.2.1/naijR/R/regions.R |only naijR-0.2.1/naijR/R/sysdata.rda |only naijR-0.2.1/naijR/README.md | 96 -- naijR-0.2.1/naijR/build/vignette.rds |binary naijR-0.2.1/naijR/data/lgas_nigeria.rda |binary naijR-0.2.1/naijR/inst/doc/nigeria-maps.R | 18 naijR-0.2.1/naijR/inst/doc/nigeria-maps.Rmd | 26 naijR-0.2.1/naijR/inst/doc/nigeria-maps.html | 316 +------ naijR-0.2.1/naijR/man/figures/logo.png |only naijR-0.2.1/naijR/man/fix_region.Rd |only naijR-0.2.1/naijR/man/is_lga.Rd |only naijR-0.2.1/naijR/man/is_state.Rd | 32 naijR-0.2.1/naijR/man/lgas.Rd |only naijR-0.2.1/naijR/man/lgas_nigeria.Rd | 2 naijR-0.2.1/naijR/man/map_ng.Rd | 67 - naijR-0.2.1/naijR/man/states.Rd | 20 naijR-0.2.1/naijR/tests/testthat/data/pvc2015.rds |binary naijR-0.2.1/naijR/tests/testthat/data/pvc2015_badcolumn.rds |only naijR-0.2.1/naijR/tests/testthat/test-map_nigeria.R | 241 ++--- naijR-0.2.1/naijR/tests/testthat/test-numbers.R | 6 naijR-0.2.1/naijR/tests/testthat/test-regions.R |only naijR-0.2.1/naijR/vignettes/nigeria-maps.Rmd | 26 35 files changed, 750 insertions(+), 720 deletions(-)
Title: Sequence Manipulation Utilities
Description: Supports reading and writing sequences for different formats (currently interleaved and sequential formats for 'FASTA' and 'PHYLIP'), file conversion, and manipulation (e.g. filter sequences that contain specify pattern, export consensus sequence from an alignment).
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between seqmagick versions 0.1.4 dated 2020-09-22 and 0.1.5 dated 2021-04-25
DESCRIPTION | 11 +--- MD5 | 8 +-- R/read.R | 40 +++++++++++++-- build/vignette.rds |binary inst/doc/seqmagick.html | 121 +++++++++++++++++------------------------------- 5 files changed, 86 insertions(+), 94 deletions(-)
Title: Portable Emissions (and Other Mobile) Measurement System
Utilities
Description: Utility functions for the handling, analysis and visualisation
of data from portable emissions measurement systems ('PEMS') and other
similar mobile activity monitoring devices. The package includes a dedicated
'pems' data class that manages many of the quality control, unit handling
and data archiving issues that can hinder efforts to standardise 'PEMS'
research.
Author: Karl Ropkins [aut, cre],
Adrian Felipe Ortega Calle [ctb]
Maintainer: Karl Ropkins <karl.ropkins@gmail.com>
Diff between pems.utils versions 0.2.26.4 dated 2018-11-18 and 0.2.29.1 dated 2021-04-25
pems.utils-0.2.26.4/pems.utils/R/conditioning.R |only pems.utils-0.2.26.4/pems.utils/man/2.2.1.generic.pems.handlers.Rd |only pems.utils-0.2.26.4/pems.utils/man/2.2.2.generic.pems.element.handlers.Rd |only pems.utils-0.2.26.4/pems.utils/man/2.2.pems.structure.Rd |only pems.utils-0.2.26.4/pems.utils/man/2.3.1.merge.data.pems.Rd |only pems.utils-0.2.26.4/pems.utils/man/2.3.2.conditioning.pems.data.Rd |only pems.utils-0.2.26.4/pems.utils/man/2.3.3.time.handlers.Rd |only pems.utils-0.2.26.4/pems.utils/man/2.3.4.unit.handlers.Rd |only pems.utils-0.2.26.4/pems.utils/man/3.1.1.common.calculations.Rd |only pems.utils-0.2.26.4/pems.utils/man/3.1.2.vsp.calculations.Rd |only pems.utils-0.2.26.4/pems.utils/man/3.1.3.emissions.calculations.Rd |only pems.utils-0.2.26.4/pems.utils/man/3.2.analysis.summary.reports.Rd |only pems.utils-0.2.26.4/pems.utils/man/3.3.pems.plots.Rd |only pems.utils-0.2.26.4/pems.utils/man/4.1.example.data.Rd |only pems.utils-0.2.26.4/pems.utils/man/4.2.look.up.tables.Rd |only pems.utils-0.2.26.4/pems.utils/man/5.1.1.check.functions.Rd |only pems.utils-0.2.26.4/pems.utils/man/5.1.2.corrections.Rd |only pems.utils-0.2.26.4/pems.utils/man/5.2.tidyverse.tools.Rd |only pems.utils-0.2.29.1/pems.utils/DESCRIPTION | 14 pems.utils-0.2.29.1/pems.utils/MD5 | 92 - pems.utils-0.2.29.1/pems.utils/NAMESPACE | 48 pems.utils-0.2.29.1/pems.utils/NEWS | 38 pems.utils-0.2.29.1/pems.utils/R/0pts.R | 3 pems.utils-0.2.29.1/pems.utils/R/calcColdStart.R |only pems.utils-0.2.29.1/pems.utils/R/calcSpeedEm.R |only pems.utils-0.2.29.1/pems.utils/R/calcVSP.R | 804 +++++++++- pems.utils-0.2.29.1/pems.utils/R/check.functions.R | 7 pems.utils-0.2.29.1/pems.utils/R/common.calculations.1.R | 11 pems.utils-0.2.29.1/pems.utils/R/export.pems.data.R | 214 +- pems.utils-0.2.29.1/pems.utils/R/generic.pems.element.handlers.R | 29 pems.utils-0.2.29.1/pems.utils/R/generic.pems.handlers.R | 77 pems.utils-0.2.29.1/pems.utils/R/import.pems.main.R | 53 pems.utils-0.2.29.1/pems.utils/R/make.pems.R | 58 pems.utils-0.2.29.1/pems.utils/R/merge.pems.R | 43 pems.utils-0.2.29.1/pems.utils/R/pems.plots.R | 359 +++- pems.utils-0.2.29.1/pems.utils/R/pems.structure.R | 127 + pems.utils-0.2.29.1/pems.utils/R/referencing.R |only pems.utils-0.2.29.1/pems.utils/R/tidyverse.tools.R | 26 pems.utils-0.2.29.1/pems.utils/R/unit.handlers.R | 11 pems.utils-0.2.29.1/pems.utils/data/pems.1.rda |binary pems.utils-0.2.29.1/pems.utils/data/pems.scheme.rda |binary pems.utils-0.2.29.1/pems.utils/data/ref.chem.rda |binary pems.utils-0.2.29.1/pems.utils/data/ref.diesel.rda |binary pems.utils-0.2.29.1/pems.utils/data/ref.petrol.rda |binary pems.utils-0.2.29.1/pems.utils/data/ref.unit.conversions.rda |binary pems.utils-0.2.29.1/pems.utils/man/1.1.make.import.data.Rd | 68 pems.utils-0.2.29.1/pems.utils/man/1.2.export.data.Rd | 74 pems.utils-0.2.29.1/pems.utils/man/2.1.pems.structure.Rd |only pems.utils-0.2.29.1/pems.utils/man/3.1.generic.pems.handlers.Rd |only pems.utils-0.2.29.1/pems.utils/man/3.2.generic.pems.element.handlers.Rd |only pems.utils-0.2.29.1/pems.utils/man/4.1.merge.data.pems.Rd |only pems.utils-0.2.29.1/pems.utils/man/4.2.referencing.pems.data.Rd |only pems.utils-0.2.29.1/pems.utils/man/4.3.time.handlers.Rd |only pems.utils-0.2.29.1/pems.utils/man/4.4.unit.handlers.Rd |only pems.utils-0.2.29.1/pems.utils/man/5.1.pems.plots.Rd |only pems.utils-0.2.29.1/pems.utils/man/6.1.common.calculations.Rd |only pems.utils-0.2.29.1/pems.utils/man/6.2.check.functions.Rd |only pems.utils-0.2.29.1/pems.utils/man/6.3.corrections.Rd |only pems.utils-0.2.29.1/pems.utils/man/6.4.analysis.summary.reports.Rd |only pems.utils-0.2.29.1/pems.utils/man/7.1.vsp.code.Rd |only pems.utils-0.2.29.1/pems.utils/man/7.2.emissions.code.Rd |only pems.utils-0.2.29.1/pems.utils/man/7.3.coldstart.code.Rd |only pems.utils-0.2.29.1/pems.utils/man/7.4.speed.em.code.Rd |only pems.utils-0.2.29.1/pems.utils/man/8.1.tidyverse.tools.Rd |only pems.utils-0.2.29.1/pems.utils/man/9.1.example.data.Rd |only pems.utils-0.2.29.1/pems.utils/man/9.2.look.up.tables.Rd |only pems.utils-0.2.29.1/pems.utils/man/pems.utils-package.Rd | 52 67 files changed, 1822 insertions(+), 386 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-07-05 1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-18 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-28 0.1.19
2020-07-20 0.1.17
2020-07-12 0.1.16
2020-07-11 0.1.15
2020-07-05 0.1.14
2020-07-03 0.1.13
Title: Bayesian Emulation of Computer Programs
Description: Allows one to estimate the output of a computer program,
as a function of the input parameters, without actually running it.
The computer program is assumed to be a Gaussian process, whose
parameters are estimated using Bayesian techniques that give a PDF of
expected program output. This PDF is conditional on a training set
of runs, each consisting of a point in parameter space and the model
output at that point. The emphasis is on complex codes that take
weeks or months to run, and that have a large number of undetermined
input parameters; many climate prediction models fall into this
class. The emulator essentially determines Bayesian posterior
estimates of the PDF of the output of a model, conditioned on results
from previous runs and a user-specified prior linear model. The
package includes functionality to evaluate quadratic forms
efficiently.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between emulator versions 1.2-20 dated 2019-03-19 and 1.2-21 dated 2021-04-25
DESCRIPTION | 15 +- MD5 | 24 +-- build/partial.rdb |binary build/vignette.rds |binary data/expert.estimates.rda |binary data/results.table.rda |binary data/toy.rda |binary inst/doc/emulex.pdf |binary inst/doc/quad_form_test.html | 284 +++++++++++++++++++++---------------------- inst/doc/uncertainty.bib | 6 man/betahat.fun.Rd | 2 man/corr.Rd | 2 vignettes/uncertainty.bib | 6 13 files changed, 166 insertions(+), 173 deletions(-)
Title: Cybersecurity MITRE Standards Data and Digraphs
Description: Extract, transform and load MITRE standards.
This package gives you an approach to cybersecurity data sets.
All data sets are build on runtime downloading raw data from MITRE public services.
MITRE <https://www.mitre.org/> is a government-funded research organization
based in Bedford and McLean. Current version includes most used standards as
data frames. It also provide a list of nodes and edges with all relationships.
Author: Humbert Costas [aut, cre]
Maintainer: Humbert Costas <humbert.costas@gmail.com>
Diff between mitre versions 0.5.2 dated 2021-03-22 and 0.6.0 dated 2021-04-24
DESCRIPTION | 7 - MD5 | 32 ++++---- NAMESPACE | 1 NEWS.md | 5 + R/attck.R | 20 +++-- R/cpe.R | 126 +++++++++++++++++++++++++++++++++-- R/cti.R | 20 +++-- R/cwe.R | 9 +- R/mitre.R | 96 ++++++++++++++++++++++++-- README.md | 6 - build/vignette.rds |binary man/buildAttckTactics.Rd | 4 - man/getAttckData.Rd | 8 +- man/getCPEData.Rd | 11 ++- man/getCWEData.Rd | 4 - man/parseRawData.Rd | 10 -- tests/testthat/test-standard-attck.R | 2 17 files changed, 293 insertions(+), 68 deletions(-)
Title: Tools for Matrix Algebra, Optimization and Inference
Description: Matrix is an universal and sometimes primary object/unit in applied mathematics and statistics. We provide a number of algorithms for selected problems in optimization and statistical inference. For general exposition to the topic with focus on statistical context, see the book by Banerjee and Roy (2014, ISBN:9781420095388).
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyoustat@gmail.com>
Diff between maotai versions 0.1.8 dated 2020-10-31 and 0.1.9 dated 2021-04-24
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NAMESPACE | 4 +--- NEWS.md | 4 ++++ R/aux_hiddenR.R | 2 +- R/later_install_scipy.R | 3 ++- R/package-maotai.R | 3 +-- build/partial.rdb |binary src/cpp_bmds.cpp | 2 +- 9 files changed, 23 insertions(+), 21 deletions(-)
Title: Behavioral Scientists' Analysis Toolkit
Description: Miscellaneous functions to simplify and expedite
analyses of experimental data. Examples include a function
that plots sample means of groups in a factorial experimental design,
a function that conducts robust regressions with bootstrapped samples,
and a function that conducts robust two-way analysis of variance.
Many of the functions will require installing package(s) listed
in the Selected References.
Selected References:
Canty & Ripley (2021) <https://CRAN.R-project.org/package=boot>.
Cohen (1988) <doi:10.4324/9780203771587>.
DeCarlo (1997) <doi:10.1037/1082-989X.2.3.292>.
Dinno (2018) <https://CRAN.R-project.org/package=paran>.
Doane & Seward (2011) <doi:10.1080/10691898.2011.11889611>.
Dowle et al. (2021) <https://CRAN.R-project.org/package=data.table>.
Edwards et al. (2020) <https://CRAN.R-project.org/package=lemon>.
Fox et al. (2020) <https://CRAN.R-project.org/package=car>.
Hester et al. (2020) <https://CRAN.R-project.org/package=remotes>.
Ioannidis (2005) <doi:10.1371/journal.pmed.0020124>
Kim (2021) <doi:10.5281/zenodo.4445388>.
Kim (2020) <https://CRAN.R-project.org/package=ezr>.
Long (2020) <https://CRAN.R-project.org/package=interactions>.
Mair & Wilcox (2021) <https://CRAN.R-project.org/package=WRS2>.
Pasek et al. (2020) <https://CRAN.R-project.org/package=weights>.
Simmons et al. (2011) <doi:10.1177/0956797611417632>.
Tingley et al. (2019) <https://CRAN.R-project.org/package=mediation>.
Torchiano (2020) <https://CRAN.R-project.org/package=effsize>.
Wickham et al. (2020) <https://CRAN.R-project.org/package=ggplot2>.
Wilke (2021) <https://CRAN.R-project.org/package=ggridges>.
Author: Jin Kim [aut, cre] (<https://orcid.org/0000-0002-5013-3958>)
Maintainer: Jin Kim <jin.m.kim@yale.edu>
Diff between kim versions 0.2.172 dated 2021-03-28 and 0.3.13 dated 2021-04-24
DESCRIPTION | 21 +++-- MD5 | 113 ++++++++++++++++------------- NAMESPACE | 13 +-- NEWS.md | 27 ++++++- R/barplot_for_counts.R | 16 +++- R/change_var_names.R |only R/check_req_pkg.R |only R/cohen_d.R | 32 +++++++- R/cohen_d_from_cohen_textbook.R | 2 R/cum_percent_plot.R | 15 +++ R/desc_stats.R | 4 - R/desc_stats_by_group.R | 8 -- R/floodlight_2_by_continuous.R | 40 +++++++++- R/ggsave_quick.R | 14 +++ R/globals.R |only R/histogram.R | 22 +++++ R/histogram_by_group.R | 40 +++++++++- R/histogram_w_outlier_bins.R | 16 +++- R/install_all_dependencies.R |only R/kurtosis.R |only R/mann_whitney.R | 4 - R/mediation_analysis.R | 34 +++++++- R/multiple_regression.R | 38 ++++++++- R/onAttach.R | 6 - R/parallel_analysis.R | 38 ++++++++- R/plot_group_means.R | 15 +++ R/prep.R | 8 +- R/regex_match.R | 1 R/robust_regression.R | 28 ++++++- R/round_flexibly.R |only R/scatterplot.R | 51 +++++++++++-- R/score_scale_items.R | 11 +- R/setwd_to_active_doc.R | 2 R/skewness.R |only R/start_kim.R | 30 +++++-- R/su.R |only R/t_test_pairwise.R | 52 +++++++++---- R/theme_kim.R | 49 +++++++++++- R/two_way_anova.R | 83 +++++++++++++++++++-- R/update_kim.R | 146 ++++++++++++++++++++++---------------- R/wilcoxon_rank_sum_test.R | 4 - README.md | 5 + build/partial.rdb |binary inst/CITATION | 8 +- man/change_var_names.Rd |only man/check_req_pkg.Rd |only man/cohen_d.Rd | 10 ++ man/floodlight_2_by_continuous.Rd | 8 +- man/histogram.Rd | 4 + man/histogram_by_group.Rd | 8 +- man/install_all_dependencies.Rd |only man/kurtosis.Rd |only man/mediation_analysis.Rd | 7 + man/multiple_regression.Rd | 12 ++- man/parallel_analysis.Rd | 8 +- man/robust_regression.Rd | 8 +- man/round_flexibly.Rd |only man/scatterplot.Rd | 9 ++ man/skewness.Rd |only man/start_kim.Rd | 25 +++++- man/su.Rd |only man/t_test_pairwise.Rd | 8 +- man/theme_kim.Rd | 11 ++ man/two_way_anova.Rd | 14 +++ man/update_kim.Rd | 16 +++- 65 files changed, 888 insertions(+), 256 deletions(-)
Title: Tools and Statistical Procedures in Plant Science
Description: The 'inti' package is part of the 'inkaverse' project for developing
different procedures and tools used in plant science and experimental designs.
The mean aim of the package is to support researchers during the planning of
experiments and data collection (tarpuy()), data analysis and graphics (yupana())
, and technical writing (rtciles()).
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] (<https://orcid.org/0000-0002-0714-669X>)
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between inti versions 0.2.0 dated 2021-04-14 and 0.3.0 dated 2021-04-24
inti-0.2.0/inti/R/info_figure.R |only inti-0.2.0/inti/R/info_table.R |only inti-0.2.0/inti/man/info_figure.Rd |only inti-0.2.0/inti/man/info_table.Rd |only inti-0.3.0/inti/DESCRIPTION | 14 inti-0.3.0/inti/MD5 | 100 - inti-0.3.0/inti/NAMESPACE | 2 inti-0.3.0/inti/NEWS.md | 19 inti-0.3.0/inti/R/fieldbook_design.R | 20 inti-0.3.0/inti/R/fieldbook_mvr.R | 36 inti-0.3.0/inti/R/fieldbook_report.R | 29 inti-0.3.0/inti/R/fieldbook_reshape.R | 28 inti-0.3.0/inti/R/fieldbook_summary.R | 27 inti-0.3.0/inti/R/fieldbook_varlist.R | 26 inti-0.3.0/inti/R/footnotes.R | 4 inti-0.3.0/inti/R/include_figure.R | 129 - inti-0.3.0/inti/R/include_table.R | 134 - inti-0.3.0/inti/R/jc_tombola.R | 34 inti-0.3.0/inti/R/mean_comparison.R | 71 inti-0.3.0/inti/R/metamorfosis.R | 32 inti-0.3.0/inti/R/plot_design.R | 33 inti-0.3.0/inti/R/plot_smr.R | 662 ++++---- inti-0.3.0/inti/R/web_table.R | 49 inti-0.3.0/inti/build/vignette.rds |binary inti-0.3.0/inti/inst/doc/apps.Rmd | 11 inti-0.3.0/inti/inst/doc/apps.html | 13 inti-0.3.0/inti/inst/doc/yupana.R |only inti-0.3.0/inti/inst/doc/yupana.Rmd |only inti-0.3.0/inti/inst/doc/yupana.html |only inti-0.3.0/inti/inst/rticles/rsconnect/shinyapps.io/flavjack/rticles.dcf | 5 inti-0.3.0/inti/inst/rticles/server.R | 12 inti-0.3.0/inti/inst/rticles/template/index.rmd | 796 +++++----- inti-0.3.0/inti/inst/rticles/www/bookdown.html | 40 inti-0.3.0/inti/inst/rticles/www/bookdown.rmd | 42 inti-0.3.0/inti/inst/yupana/rsconnect/shinyapps.io/flavjack/yupanapro.dcf | 5 inti-0.3.0/inti/inst/yupana/server.R | 8 inti-0.3.0/inti/inst/yupana/ui.R | 20 inti-0.3.0/inti/man/fieldbook_design.Rd | 21 inti-0.3.0/inti/man/fieldbook_mvr.Rd | 37 inti-0.3.0/inti/man/fieldbook_report.Rd | 29 inti-0.3.0/inti/man/fieldbook_reshape.Rd | 29 inti-0.3.0/inti/man/fieldbook_summary.Rd | 28 inti-0.3.0/inti/man/fieldbook_varlist.Rd | 27 inti-0.3.0/inti/man/include_figure.Rd | 29 inti-0.3.0/inti/man/include_table.Rd | 37 inti-0.3.0/inti/man/jc_tombola.Rd | 35 inti-0.3.0/inti/man/mean_comparison.Rd | 39 inti-0.3.0/inti/man/metamorphosis.Rd | 33 inti-0.3.0/inti/man/plot_design.Rd | 33 inti-0.3.0/inti/man/plot_smr.Rd | 78 inti-0.3.0/inti/man/web_table.Rd | 14 inti-0.3.0/inti/vignettes/apps.Rmd | 11 inti-0.3.0/inti/vignettes/files/graph-figure-grid.png |only inti-0.3.0/inti/vignettes/files/graph-figure.png |only inti-0.3.0/inti/vignettes/files/graph-table-grid.png |only inti-0.3.0/inti/vignettes/files/graph-table.png |only inti-0.3.0/inti/vignettes/yupana.Rmd |only 57 files changed, 1123 insertions(+), 1758 deletions(-)
Title: Shiny App. Idiograms with Marks and Karyotype Indices
Description: Plot idiograms of karyotypes, plasmids, circular chr. having a set of data.frames for chromosome data and optionally mark data. Two styles of chromosomes can be used: without or with visible chromatids (when not circular). Supports micrometers, cM and Mb or any unit. Three styles of centromeres are available: triangular, rounded and inProtein; and six styles of marks are available: square (squareLeft), dots, cM (cMLeft), cenStyle, upArrow (downArrow), exProtein (inProtein); its legend (label) can be drawn inline or to the right of karyotypes. Idiograms can also be plotted in concentric circles. It is possible to calculate chromosome indices by Levan et al. (1964) <doi:10.1111/j.1601-5223.1964.tb01953.x>, karyotype indices of Watanabe et al. (1999) <doi:10.1007/PL00013869> and Romero-Zarco (1986) <doi:10.2307/1221906> and classify chromosomes by morphology Guerra (1986) and Levan et al. (1964).
Author: Fernando Roa [aut, cre],
Mariana PC Telles [ctb]
Maintainer: Fernando Roa <froao@unal.edu.co>
Diff between idiogramFISH versions 2.0.3 dated 2021-04-13 and 2.0.4 dated 2021-04-24
DESCRIPTION | 8 MD5 | 80 - NEWS.md | 8 R/makedfMarkColor.R | 2 R/makedfMarkColorMycolors.R | 2 R/orientation.R | 10 R/plotIdiograms.R | 12 R/runBoard.R | 29 README.md | 16 inst/doc/index.R | 125 ++ inst/doc/index.Rmd | 341 ------ inst/doc/index.html | 28 inst/shinyApps/iBoard/obserNuccore.R | 51 inst/shinyApps/iBoard/obserPlot.R | 53 inst/shinyApps/iBoard/obserPresets.R | 23 inst/shinyApps/iBoard/outputNuccore.R | 65 - inst/shinyApps/iBoard/outputPanels.R | 543 +++++----- inst/shinyApps/iBoard/outputPlot.R | 42 inst/shinyApps/iBoard/outputTabs.R | 12 inst/shinyApps/iBoard/presetVals.R | 38 inst/shinyApps/iBoard/reactiveV.R | 5 inst/shinyApps/iBoard/server.R | 2 inst/shinyApps/iBoard/ui.R | 58 - inst/shinyApps/iBoard/www/DESCRIPTION | 4 inst/shinyApps/iBoard/www/man/figures/cranmanualbookdown.svg | 2 inst/shinyApps/iBoard/www/man/figures/cranversion.svg | 4 inst/shinyApps/iBoard/www/man/figures/develmanualvignette.svg | 2 inst/shinyApps/iBoard/www/man/figures/gitbadge.svg | 2 inst/shinyApps/iBoard/www/man/figures/pkgdownver.svg | 2 inst/shinyApps/iBoard/www/mystyle.css | 3 man/citrusSize.Rd | 128 +- man/figures/cranmanualbookdown.svg | 2 man/figures/cranversion.svg | 4 man/figures/develmanualvignette.svg | 2 man/figures/gitbadge.svg | 2 man/figures/manual.svg | 2 man/figures/pkgdownver.svg | 2 man/figures/shiny.jpg |binary man/namesToColumns.Rd | 21 man/plotIdiograms.Rd | 237 ---- vignettes/index.Rmd | 341 ------ 41 files changed, 981 insertions(+), 1332 deletions(-)
Title: Estimated Marginal Means, aka Least-Squares Means
Description: Obtain estimated marginal means (EMMs) for many linear, generalized
linear, and mixed models. Compute contrasts or linear functions of EMMs,
trends, and comparisons of slopes. Plots and other displays.
Least-squares means are discussed, and the term "estimated marginal means"
is suggested, in Searle, Speed, and Milliken (1980) Population marginal means
in the linear model: An alternative to least squares means, The American
Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
Author: Russell V. Lenth [aut, cre, cph],
Paul Buerkner [ctb],
Maxime Herve [ctb],
Jonathon Love [ctb],
Hannes Riebl [ctb],
Henrik Singmann [ctb]
Maintainer: Russell V. Lenth <russell-lenth@uiowa.edu>
Diff between emmeans versions 1.5.5-1 dated 2021-03-21 and 1.6.0 dated 2021-04-24
DESCRIPTION | 8 +-- MD5 | 82 ++++++++++++++++++------------------- NEWS.md | 27 ++++++++++++ R/contrast.R | 11 +++- R/emm-list.R | 7 ++- R/emmGrid-methods.R | 16 +++++-- R/multinom-support.R | 2 R/nested.R | 6 ++ R/qdrg.R | 7 ++- R/ref-grid.R | 54 ++++++++++++++++++++---- R/summary.R | 50 +++++++++++++++++----- R/test.R | 4 + build/vignette.rds |binary inst/doc/FAQs.html | 10 ++-- inst/doc/basics.R | 16 +++++++ inst/doc/basics.Rmd | 33 ++++++++++++++ inst/doc/basics.html | 69 ++++++++++++++++++++++++++++--- inst/doc/comparisons.html | 10 ++-- inst/doc/confidence-intervals.html | 8 +-- inst/doc/interactions.html | 18 ++++---- inst/doc/messy-data.html | 4 - inst/doc/models.Rmd | 9 +--- inst/doc/models.html | 17 ++++--- inst/doc/predictions.html | 9 +--- inst/doc/sophisticated.html | 5 -- inst/doc/transformations.html | 4 - inst/doc/utilities.Rmd | 2 inst/doc/utilities.html | 6 +- inst/doc/vignette-topics.Rmd | 18 ++++++-- inst/doc/vignette-topics.html | 23 ++++++---- inst/doc/xplanations.html | 4 - inst/doc/xtending.html | 8 +-- man/emmGrid-methods.Rd | 10 ++++ man/emm_list-object.Rd | 6 ++ man/emm_options.Rd | 3 - man/ref_grid.Rd | 38 ++++++++++++++--- man/summary.emmGrid.Rd | 13 +++++ tests/testthat/test-ref_grid.R | 11 ++++ vignettes/basics.Rmd | 33 ++++++++++++++ vignettes/models.Rmd | 9 +--- vignettes/utilities.Rmd | 2 vignettes/vignette-topics.Rmd | 18 ++++++-- 42 files changed, 520 insertions(+), 170 deletions(-)
Title: Search and Retrieve Data from the BC Data Catalogue
Description: Search, query, and download tabular and
'geospatial' data from the British Columbia Data Catalogue
(<https://catalogue.data.gov.bc.ca/>). Search catalogue data records
based on keywords, data licence, sector, data format, and B.C.
government organization. View metadata directly in R, download many
data formats, and query 'geospatial' data available via the B.C.
government Web Feature Service ('WFS') using 'dplyr' syntax.
Author: Andy Teucher [aut, cre] (<https://orcid.org/0000-0002-7840-692X>),
Sam Albers [aut, ctb] (<https://orcid.org/0000-0002-9270-7884>),
Stephanie Hazlitt [aut, ctb] (<https://orcid.org/0000-0002-3161-2304>),
Province of British Columbia [cph]
Maintainer: Andy Teucher <andy.teucher@gov.bc.ca>
Diff between bcdata versions 0.2.2 dated 2021-03-12 and 0.2.3 dated 2021-04-24
DESCRIPTION | 18 MD5 | 186 - NAMESPACE | 195 - NEWS.md | 169 - R/bcdata-package.R | 40 R/bcdc-web-services.R | 490 ++-- R/bcdc_browse.R | 170 - R/bcdc_options.R | 227 +- R/bcdc_search.R | 704 +++--- R/cli.R |only R/cql-geom-predicates.R | 589 +++-- R/cql-translator.R | 396 +-- R/describe-feature.R | 269 +- R/get_data.R | 514 ++--- R/utils-as_tibble.R | 44 R/utils-classes.R | 1015 +++++----- R/utils-collect.R | 44 R/utils-filter.R | 44 R/utils-is.R | 68 R/utils-mutate.R | 44 R/utils-pipe.R | 44 R/utils-select.R | 44 R/utils-show-query.R | 44 R/utils.R | 818 ++++---- R/zzz.R | 44 README.md | 302 +- build/vignette.rds |binary inst/CITATION | 46 inst/doc/bcdata.Rmd | 860 ++++---- inst/doc/bcdata.html | 1007 ++++----- inst/doc/efficiently-query-spatial-data-in-the-bc-data-catalogue.Rmd | 863 ++++---- inst/doc/efficiently-query-spatial-data-in-the-bc-data-catalogue.html | 973 ++++----- inst/doc/explore-silviculture-data-using-bcdata.Rmd | 604 ++--- inst/doc/explore-silviculture-data-using-bcdata.html | 769 +++---- man/CQL.Rd | 48 man/bcdata-package.Rd | 88 man/bcdc_browse.Rd | 138 - man/bcdc_check_geom_size.Rd |only man/bcdc_describe_feature.Rd | 93 man/bcdc_get_data.Rd | 214 +- man/bcdc_get_record.Rd | 88 man/bcdc_list.Rd | 42 man/bcdc_list_group_records.Rd | 56 man/bcdc_options.Rd | 119 - man/bcdc_preview.Rd | 80 man/bcdc_query_geodata.Rd | 180 - man/bcdc_read_functions.Rd | 28 man/bcdc_search.Rd | 108 - man/bcdc_search_facets.Rd | 58 man/bcdc_tidy_resources.Rd | 80 man/collect-methods.Rd | 82 man/cql_geom_predicates.Rd | 138 - man/filter.Rd | 94 man/mutate.Rd | 76 man/pipe.Rd | 24 man/select.Rd | 110 - man/show_query.Rd | 96 man/wfsConnection-class.Rd | 34 tests/testthat.R | 34 tests/testthat/helper-bcdata.R | 36 tests/testthat/setup.R | 52 tests/testthat/teardown.R | 26 tests/testthat/test-browse.R | 46 tests/testthat/test-cql-string.R | 194 - tests/testthat/test-describe-feature.R | 142 - tests/testthat/test-edge-cases.R | 34 tests/testthat/test-geom-operators.R | 292 +- tests/testthat/test-get-data.R | 342 +-- tests/testthat/test-get_record.R | 258 +- tests/testthat/test-options.R | 81 tests/testthat/test-print-methods.R | 114 - tests/testthat/test-query-geodata-collect.R | 208 +- tests/testthat/test-query-geodata-filter.R | 604 ++--- tests/testthat/test-query-geodata-head-tail.R | 120 - tests/testthat/test-query-geodata-mutate.R | 46 tests/testthat/test-query-geodata-select.R | 164 - tests/testthat/test-query-geodata.R | 136 - tests/testthat/test-search.R | 54 tests/testthat/test-utils.R | 116 - vignettes/bcdata.Rmd | 860 ++++---- vignettes/bcdata.Rmd.orig | 431 ++-- vignettes/efficiently-query-spatial-data-in-the-bc-data-catalogue.Rmd | 863 ++++---- vignettes/efficiently-query-spatial-data-in-the-bc-data-catalogue.Rmd.orig | 449 ++-- vignettes/explore-silviculture-data-using-bcdata.Rmd | 604 ++--- vignettes/explore-silviculture-data-using-bcdata.Rmd.orig | 445 ++-- vignettes/precompile.R | 102 - vignettes/vignette-fig-bbox-1.png |binary vignettes/vignette-fig-district_parks-1.png |binary vignettes/vignette-fig-districts-1.png |binary vignettes/vignette-fig-dp_join-1.png |binary vignettes/vignette-fig-map-larch-plantations-dpg-1.png |binary vignettes/vignette-fig-plot-dpg-1.png |binary vignettes/vignette-fig-regional_districts-1.png |binary vignettes/vignette-fig-unnamed-chunk-1-1.png |binary vignettes/vignette-fig-unnamed-chunk-3-1.png |binary 95 files changed, 10310 insertions(+), 10261 deletions(-)
Title: Help for Writing Unit Tests Based on Function Examples
Description: Take the examples written in your documentation of
functions and use them to create shells (skeletons which must be
manually completed by the user) of test files to be tested with the
'testthat' package. Sort of like python 'doctests' for R.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>),
Sergi Padilla-Parra [ths] (<https://orcid.org/0000-0002-8010-9481>),
Thomas Quinn [rev] (<https://orcid.org/0000-0003-0286-6329>),
Laurent Gatto [rev] (<https://orcid.org/0000-0002-1520-2268>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between exampletestr versions 1.6.2 dated 2020-11-17 and 1.6.3 dated 2021-04-24
DESCRIPTION | 9 +-- MD5 | 10 ++-- NEWS.md | 6 ++ inst/doc/one-file-at-a-time.html | 86 ++++++----------------------------- inst/doc/one-function-at-a-time.html | 71 +++------------------------- inst/doc/whole-package.html | 75 ++++-------------------------- 6 files changed, 52 insertions(+), 205 deletions(-)
Title: An Improved Version of WA-PLS
Description: The goal of this package is to provide an improved version of
WA-PLS (Weighted Averaging Partial Least Squares) by including the
tolerances of taxa and the frequency of the sampled climate variable.
This package also provides a way of leave-out cross-validation that
removes both the test site and sites that are both geographically
close and climatically close for each cycle, to avoid the risk of
pseudo-replication.
Author: Mengmeng Liu [aut] (<https://orcid.org/0000-0001-6250-0148>),
Iain Colin Prentice [aut] (<https://orcid.org/0000-0002-1296-6764>),
Cajo J. F. ter Braak [aut] (<https://orcid.org/0000-0002-0414-8745>),
Sandy P. Harrison [aut] (<https://orcid.org/0000-0001-5687-1903>),
Roberto Villegas-Diaz [aut, cre]
(<https://orcid.org/0000-0001-5036-8661>),
SPECIAL Research Group @ University of Reading [cph]
Maintainer: Roberto Villegas-Diaz <r.villegas-diaz@reading.ac.uk>
Diff between fxTWAPLS versions 0.0.5 dated 2021-01-29 and 0.0.6 dated 2021-04-24
fxTWAPLS-0.0.5/fxTWAPLS/tests |only fxTWAPLS-0.0.6/fxTWAPLS/DESCRIPTION | 11 ++-- fxTWAPLS-0.0.6/fxTWAPLS/MD5 | 10 +--- fxTWAPLS-0.0.6/fxTWAPLS/NAMESPACE | 3 - fxTWAPLS-0.0.6/fxTWAPLS/NEWS.md | 5 ++ fxTWAPLS-0.0.6/fxTWAPLS/R/utils.R | 86 ------------------------------------ 6 files changed, 14 insertions(+), 101 deletions(-)
Title: Semi-Automatic Preprocessing of Messy Data with Change Tracking
for Dataset Cleaning
Description: Tools for assessing data quality, performing exploratory analysis, and
semi-automatic preprocessing of messy data with change tracking for integral dataset cleaning.
Author: David Hervas Marin
Maintainer: David Hervas Marin <ddhervas@yahoo.es>
Diff between clickR versions 0.6.64 dated 2021-03-12 and 0.7.35 dated 2021-04-24
clickR-0.6.64/clickR/R/deprecated.R |only clickR-0.6.64/clickR/man/clickR-deprecated.Rd |only clickR-0.6.64/clickR/man/matrixPaste.Rd |only clickR-0.6.64/clickR/man/report.betareg.Rd |only clickR-0.6.64/clickR/man/report.brmsfit.Rd |only clickR-0.6.64/clickR/man/report.clm.Rd |only clickR-0.6.64/clickR/man/report.clmm.Rd |only clickR-0.6.64/clickR/man/report.coxph.Rd |only clickR-0.6.64/clickR/man/report.data.frame.Rd |only clickR-0.6.64/clickR/man/report.factor.Rd |only clickR-0.6.64/clickR/man/report.glm.Rd |only clickR-0.6.64/clickR/man/report.glmerMod.Rd |only clickR-0.6.64/clickR/man/report.glmmadmb.Rd |only clickR-0.6.64/clickR/man/report.glmnet.Rd |only clickR-0.6.64/clickR/man/report.lm.Rd |only clickR-0.6.64/clickR/man/report.lmerMod.Rd |only clickR-0.6.64/clickR/man/report.lqmm.Rd |only clickR-0.6.64/clickR/man/report.merModLmerTest.Rd |only clickR-0.6.64/clickR/man/report.numeric.Rd |only clickR-0.6.64/clickR/man/report.rlm.Rd |only clickR-0.6.64/clickR/man/report.rq.Rd |only clickR-0.6.64/clickR/man/set_noms.Rd |only clickR-0.7.35/clickR/DESCRIPTION | 10 clickR-0.7.35/clickR/MD5 | 87 - clickR-0.7.35/clickR/NAMESPACE | 42 clickR-0.7.35/clickR/NEWS | 16 clickR-0.7.35/clickR/R/check_quality.R | 50 clickR-0.7.35/clickR/R/defunct.R |only clickR-0.7.35/clickR/R/descriptive.R | 170 ++- clickR-0.7.35/clickR/R/fix_functions.R | 143 +- clickR-0.7.35/clickR/R/report_model.R | 1120 +--------------------- clickR-0.7.35/clickR/README.md | 2 clickR-0.7.35/clickR/man/GK_assoc.Rd | 2 clickR-0.7.35/clickR/man/VarCorr.Rd | 17 clickR-0.7.35/clickR/man/bivariate_outliers.Rd |only clickR-0.7.35/clickR/man/clickR-defunct.Rd |only clickR-0.7.35/clickR/man/coefplot.Rd | 60 - clickR-0.7.35/clickR/man/descriptive.Rd | 4 clickR-0.7.35/clickR/man/fix_NA.Rd | 7 clickR-0.7.35/clickR/man/fix_dates.Rd | 9 clickR-0.7.35/clickR/man/fix_factors.Rd | 3 clickR-0.7.35/clickR/man/fix_levels.Rd | 12 clickR-0.7.35/clickR/man/fix_numerics.Rd | 5 clickR-0.7.35/clickR/man/make_csv_table.Rd | 17 clickR-0.7.35/clickR/man/make_latex_table.Rd | 15 clickR-0.7.35/clickR/man/make_table.Rd | 21 clickR-0.7.35/clickR/man/make_word_table.Rd | 19 clickR-0.7.35/clickR/man/nice_names.Rd | 45 clickR-0.7.35/clickR/man/outliers.Rd | 4 clickR-0.7.35/clickR/man/plot.reportmodel.Rd | 18 clickR-0.7.35/clickR/man/report.Rd | 20 clickR-0.7.35/clickR/man/report.default.Rd | 15 clickR-0.7.35/clickR/man/restore_changes.Rd | 2 clickR-0.7.35/clickR/man/rob.ci.Rd | 19 clickR-0.7.35/clickR/man/rob.pvals.Rd | 13 clickR-0.7.35/clickR/man/track_changes.Rd | 2 clickR-0.7.35/clickR/man/ttrue.Rd | 2 57 files changed, 448 insertions(+), 1523 deletions(-)
Title: A Project Infrastructure for Researchers
Description: Provides a project infrastructure with a focus on
manuscript creation. Creates a project folder with a single command,
containing subdirectories for specific components, templates for
manuscripts, and so on.
Author: Nik Krieger [aut, cre],
Adam Perzynski [aut],
Jarrod Dalton [aut]
Maintainer: Nik Krieger <nk@case.edu>
Diff between projects versions 2.1.1 dated 2020-05-29 and 2.1.3 dated 2021-04-24
DESCRIPTION | 9 ++---- MD5 | 22 +++++++-------- NEWS.md | 12 ++++++++ R/file_management.R | 6 ++-- R/getters.R | 8 +++-- R/metadata_manipulation.R | 12 ++++---- R/setup.R | 4 +- R/update.R | 2 - README.md | 50 ++++++++++++++++++------------------ inst/templates/04_report.Rmd | 2 - inst/templates/CONSORT_protocol.Rmd | 3 -- inst/templates/STROBE_protocol.Rmd | 3 -- 12 files changed, 69 insertions(+), 64 deletions(-)
Title: Extended Structural Equation Modelling
Description: Create structural equation models that can be manipulated programmatically.
Models may be specified with matrices or paths (LISREL or RAM)
Example models include confirmatory factor, multiple group, mixture
distribution, categorical threshold, modern test theory, differential
Fit functions include full information maximum likelihood, maximum likelihood, and weighted least squares.
equations, state space, and many others.
Support and advanced package binaries available at <http://openmx.ssri.psu.edu>.
The software is described in Neale, Hunter, Pritikin, Zahery, Brick,
Kirkpatrick, Estabrook, Bates, Maes, & Boker (2016) <doi:10.1007/s11336-014-9435-8>.
Author: Steven M. Boker [aut],
Michael C. Neale [aut],
Hermine H. Maes [aut],
Michael J. Wilde [ctb],
Michael Spiegel [aut],
Timothy R. Brick [aut],
Ryne Estabrook [aut],
Timothy C. Bates [aut],
Paras Mehta [ctb],
Timo von Oertzen [ctb],
Ross J. Gore [aut],
Michael D. Hunter [aut],
Daniel C. Hackett [ctb],
Julian Karch [ctb],
Andreas M. Brandmaier [ctb],
Joshua N. Pritikin [aut, cre],
Mahsa Zahery [aut],
Robert M. Kirkpatrick [aut],
Yang Wang [ctb],
Ben Goodrich [ctb],
Charles Driver [ctb],
Massachusetts Institute of Technology [cph],
S. G. Johnson [cph],
Association for Computing Machinery [cph],
Dieter Kraft [cph],
Stefan Wilhelm [cph],
Sarah Medland [cph],
Carl F. Falk [cph],
Matt Keller [cph],
Manjunath B G [cph],
The Regents of the University of California [cph],
Lester Ingber [cph],
Wong Shao Voon [cph],
Juan Palacios [cph],
Jiang Yang [cph],
Gael Guennebaud [cph],
Jitse Niesen [cph]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>
Diff between OpenMx versions 2.19.1 dated 2021-03-08 and 2.19.5 dated 2021-04-24
DESCRIPTION | 10 MD5 | 236 +++++----- R/MxApply.R | 12 R/MxData.R | 11 R/MxDataWLS.R | 2 R/MxExpectationLISREL.R | 11 R/MxExpectationNormal.R | 15 R/MxExpectationRAM.R | 12 R/MxFitFunctionGREML.R | 8 R/MxModel.R | 2 R/MxModelFunctions.R | 1 R/MxRename.R | 8 R/MxRestore.R | 4 R/MxRun.R | 15 R/MxSummary.R | 218 ++++----- R/MxVersion.R | 2 build/OpenMx.pdf |binary inst/CITATION | 2 inst/models/nightly/LegacyContinuousOnlyWLSTest.R | 7 inst/models/passing/ContinuousOnlyWLSTest.R | 28 - inst/models/passing/IntroSEM-BivariateStd.R | 3 inst/models/passing/SaturatedWLSTest.R | 2 inst/models/passing/WeightedWLS.R | 4 inst/models/passing/acov_regression_test.R | 2 inst/models/passing/exoPredWLS.R | 8 inst/models/passing/jointFactorWls.R | 6 man/MxFitFunctionGREML-class.Rd | 9 man/imxEvalByName.Rd | 4 man/imxSfClient.Rd | 2 man/mxAlgebra.Rd | 11 man/mxData.Rd | 14 man/mxFitFunctionWLS.Rd | 47 +- man/summary.MxModel.Rd | 2 src/Compute.cpp | 261 +++++------ src/Compute.h | 17 src/ComputeGD.cpp | 120 ++--- src/ComputeGD.h | 4 src/ComputeNM.cpp | 10 src/ComputeNR.cpp | 30 - src/ComputeSD.cpp | 2 src/ComputeSD.h | 4 src/Connectedness.h | 10 src/EnableWarnings.h | 1 src/LoadDataAPI.h | 14 src/Makevars.in | 4 src/MarkovExpectation.cpp | 14 src/MarkovFF.cpp | 5 src/RAMInternal.h | 44 - src/SelfAdjointEigenSolverNosort.h | 16 src/algebraOp.h | 4 src/asa.c | 2 src/asa.h | 8 src/asa_usr_asa.h | 6 src/asubnp.cpp | 2 src/autoTune.h | 8 src/ba81quad.cpp | 14 src/ba81quad.h | 16 src/dmvnorm.h | 4 src/finiteDifferences.h | 22 src/fitMultigroup.h | 4 src/general.c | 2 src/glue.cpp | 14 src/glue.h | 6 src/matrix.h | 6 src/minicsv.h | 2 src/multi_normal_sufficient.hpp | 20 src/nanotimer.cpp | 6 src/nanotimer_rtposix.h | 8 src/nlopt-internal.h | 2 src/nlopt-util.h | 4 src/nlopt.h | 20 src/nr.h | 8 src/omxAlgebra.cpp | 4 src/omxAlgebra.h | 6 src/omxAlgebraFitFunction.cpp | 4 src/omxBVN.h | 4 src/omxCsolnp.h | 6 src/omxData.cpp | 500 ++++++++++------------ src/omxData.h | 50 +- src/omxDefines.h | 23 - src/omxExpectation.cpp | 8 src/omxExpectation.h | 14 src/omxExpectationBA81.cpp | 38 - src/omxExpectationBA81.h | 20 src/omxExportBackendState.h | 6 src/omxFIMLFitFunction.cpp | 12 src/omxFIMLFitFunction.h | 46 +- src/omxFitFunction.h | 6 src/omxFitFunctionBA81.cpp | 52 +- src/omxGREMLfitfunction.cpp | 248 +++++----- src/omxHessianCalculation.cpp | 10 src/omxImportFrontendState.cpp | 2 src/omxImportFrontendState.h | 6 src/omxLISRELExpectation.cpp | 12 src/omxLISRELExpectation.h | 6 src/omxMLFitFunction.cpp | 22 src/omxMatrix.h | 10 src/omxNLopt.h | 4 src/omxNPSOLSpecific.h | 6 src/omxNormalExpectation.cpp | 8 src/omxRAMExpectation.cpp | 26 - src/omxRFitFunction.h | 6 src/omxRowFitFunction.cpp | 4 src/omxRowFitFunction.h | 6 src/omxSadmvnWrapper.h | 24 - src/omxState.cpp | 18 src/omxState.h | 20 src/omxStateSpaceExpectation.cpp | 12 src/omxWLSFitFunction.cpp | 14 src/path.h | 62 +- src/polynomial.h | 20 src/povRAM.cpp | 10 src/slsqp.c | 5 src/ssMLFit.cpp | 6 tests/testthat/test-LegacyMultipleGroupWLS.R | 8 tests/testthat/test-WLS-acov.R | 8 tests/testthat/test-discrete.R | 2 tests/testthat/test-pearsonSel.R | 2 tools/wls-regression | 2 119 files changed, 1455 insertions(+), 1395 deletions(-)
Title: Play a Game of 2048 in the Console
Description: Generates a game of 2048 that can be played in the
console. Supports grids of arbitrary sizes, undoing the last move,
and resuming a game that was exited during the current session.
Author: Alexander Rossell Hayes [aut, cre, cph]
(<https://orcid.org/0000-0001-9412-0457>)
Maintainer: Alexander Rossell Hayes <alexander@rossellhayes.com>
Diff between twenty48 versions 0.1.0 dated 2020-09-23 and 0.2.0 dated 2021-04-24
DESCRIPTION | 9 ++-- MD5 | 20 +++++----- NAMESPACE | 1 NEWS.md |only R/Twenty48_class.R | 80 +++++++++++++++++++++++++++++++---------- R/play_2048.R | 65 +++++++++++++++++++++++++++------ R/twenty48-package.R | 1 README.md | 38 +++++++++---------- man/figures/recording.gif |binary man/figures/recording_16x9.gif |only man/play_2048.Rd | 11 ++++- man/twenty48-package.Rd | 2 - 12 files changed, 159 insertions(+), 68 deletions(-)
Title: Fitting Second-Order Tensor Data
Description: An implementation of fitting generalized linear models on
second-order tensor type data. The functions within this package mainly focus on
parameter estimation, including parameter coefficients and standard deviation.
Author: Mark Chen [aut, cre],
Sheng-Mao Chang [aut],
Wenbin Lu [aut],
Jung-Ying Tzeng [aut]
Maintainer: Mark Chen <l501l501l@gmail.com>
Diff between TensorTest2D versions 1.0.1 dated 2021-04-18 and 1.0.2 dated 2021-04-24
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- data/omics.RData |binary 3 files changed, 6 insertions(+), 7 deletions(-)
More information about survivalAnalysis at CRAN
Permanent link
Title: IEX Stocks and Market Data
Description: Retrieves efficiently and reliably Investors Exchange ('IEX') stock and market data using 'IEX Cloud API'. The platform is offered by Investors Exchange Group (IEX Group).
Main goal is to leverage 'R' capabilities including existing packages to effectively provide financial and statistical analysis as well as visualization in support of fact-based decisions.
In addition, continuously improve and enhance 'Riex' by applying best practices and being in tune with users' feedback and requirements.
Please, make sure to review and acknowledge Investors Exchange Group (IEX Group) terms and conditions before using 'Riex' (<https://iexcloud.io/terms/>).
Author: Myriam Ibrahim [aut, cre]
Maintainer: Myriam Ibrahim <ibrahimmyriam7@gmail.com>
Diff between Riex versions 1.0.1 dated 2019-05-05 and 1.0.2 dated 2021-04-24
.Rinstignore |only DESCRIPTION | 12 - MD5 | 43 ++- NAMESPACE | 2 NEWS.md |only R/IEX_Market_Data.R | 195 ++++++++++++---- README.md | 20 - build/vignette.rds |binary inst/doc/iex_stocks_and_market_data.R | 17 + inst/doc/iex_stocks_and_market_data.Rmd | 25 +- inst/doc/iex_stocks_and_market_data.html | 371 +++++++++---------------------- man/crypto.Rd | 8 man/crypto_symbols.Rd | 8 man/financials.Rd | 8 man/iex.book.Rd | 8 man/iex.chart.Rd | 6 man/iex.company.Rd | 6 man/iex.earnings.Rd | 6 man/iex.intraday.Rd |only man/iex.most.active.Rd | 2 man/iex.stats.Rd | 6 man/logo.Rd | 6 vignettes/.install_extras |only vignettes/HadleyWickham_Quote.png |only vignettes/TSLA.png |only vignettes/TSLA_6M_Chart.png |only vignettes/iex_stocks_and_market_data.Rmd | 25 +- 27 files changed, 394 insertions(+), 380 deletions(-)
Title: Downloading, Reading and Analysing PNS Microdata
Description: Provides tools for downloading, reading and analysing the PNS,
a household survey from Brazilian Institute of Geography and Statistics - IBGE.
The data must be downloaded from the official website <https://www.ibge.gov.br/>.
Further analysis must be made using package 'survey'.
Author: Gabriel Assuncao [aut, cre],
Luna Hidalgo [aut],
Douglas Braga [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between PNSIBGE versions 0.1.1 dated 2021-01-31 and 0.1.2 dated 2021-04-24
DESCRIPTION | 11 +++++------ MD5 | 22 +++++++++++----------- NAMESPACE | 2 ++ R/example.R | 4 ++-- R/get_pns.R | 34 ++++++++++++++++++++++------------ R/pns_deflator.R | 6 +++--- R/pns_design.R | 10 +++++----- R/pns_labeller.R | 4 ++-- R/read_pns.R | 4 ++-- man/get_pns.Rd | 6 +++--- man/pns_design.Rd | 4 ++-- man/pns_example.Rd | 2 +- 12 files changed, 60 insertions(+), 49 deletions(-)
Title: Various Utilities for Library Science/Assessment and Cataloging
Description: Provides functions for validating and normalizing bibliographic
codes such as ISBN, ISSN, and LCCN. Also includes functions to communicate
with the WorldCat API, translate Call numbers (Library of Congress and
Dewey Decimal) to their subject classifications or subclassifications,
and provides various loadable data files such call number / subject
crosswalks and code tables.
Author: Tony Fischetti [aut, cre]
Maintainer: Tony Fischetti <tony.fischetti@gmail.com>
Diff between libbib versions 1.0 dated 2021-04-15 and 1.5 dated 2021-04-24
libbib-1.0/libbib/R/lccall-subject.R |only libbib-1.0/libbib/tests/testthat/test-lccall-subject.R |only libbib-1.5/libbib/DESCRIPTION | 16 libbib-1.5/libbib/MD5 | 106 +++- libbib-1.5/libbib/NAMESPACE | 30 + libbib-1.5/libbib/NEWS.md |only libbib-1.5/libbib/R/bibcodes.R | 30 + libbib-1.5/libbib/R/books_serials_etc_sample_data.R |only libbib-1.5/libbib/R/call-numbers-and-subject.R |only libbib-1.5/libbib/R/dewey_subject_crosswalk-data.R |only libbib-1.5/libbib/R/marc-field-deconstruction.R |only libbib-1.5/libbib/R/other-code-translations.R |only libbib-1.5/libbib/R/split-map-filter-reduce.R |only libbib-1.5/libbib/R/the-web.R | 77 +++ libbib-1.5/libbib/R/utilities.R |only libbib-1.5/libbib/R/worldcat-api.R |only libbib-1.5/libbib/README.md | 226 +++++++++- libbib-1.5/libbib/data/books_serials_etc_sample.rda |only libbib-1.5/libbib/data/dewey_subject_crosswalk.rda |only libbib-1.5/libbib/data/lc_subject_classification.rda |binary libbib-1.5/libbib/data/lc_subject_subclassification.rda |binary libbib-1.5/libbib/man/books_serials_etc_sample.Rd |only libbib-1.5/libbib/man/car.Rd |only libbib-1.5/libbib/man/check_isbn_10_check_digit.Rd | 6 libbib-1.5/libbib/man/check_isbn_13_check_digit.Rd | 6 libbib-1.5/libbib/man/check_issn_check_digit.Rd | 6 libbib-1.5/libbib/man/convert_to_isbn_13.Rd | 6 libbib-1.5/libbib/man/dewey_subject_crosswalk.Rd |only libbib-1.5/libbib/man/dt_add_to_col_names.Rd |only libbib-1.5/libbib/man/dt_counts_and_percents.Rd |only libbib-1.5/libbib/man/dt_del_cols.Rd |only libbib-1.5/libbib/man/dt_keep_cols.Rd |only libbib-1.5/libbib/man/dt_percent_not_na.Rd |only libbib-1.5/libbib/man/dt_set_clean_names.Rd |only libbib-1.5/libbib/man/get_all_lc_call_subject_letters.Rd | 8 libbib-1.5/libbib/man/get_clean_names.Rd |only libbib-1.5/libbib/man/get_country_from_code.Rd |only libbib-1.5/libbib/man/get_dewey_decimal_subject_class.Rd |only libbib-1.5/libbib/man/get_dewey_decimal_subject_division.Rd |only libbib-1.5/libbib/man/get_dewey_decimal_subject_section.Rd |only libbib-1.5/libbib/man/get_isbn_10_check_digit.Rd | 6 libbib-1.5/libbib/man/get_isbn_13_check_digit.Rd | 6 libbib-1.5/libbib/man/get_issn_check_digit.Rd | 6 libbib-1.5/libbib/man/get_language_from_code.Rd |only libbib-1.5/libbib/man/get_lc_call_first_letter.Rd | 8 libbib-1.5/libbib/man/get_lc_call_subject_classification.Rd | 13 libbib-1.5/libbib/man/is_valid_isbn_10.Rd | 6 libbib-1.5/libbib/man/is_valid_isbn_13.Rd | 3 libbib-1.5/libbib/man/is_valid_issn.Rd | 6 libbib-1.5/libbib/man/is_valid_lc_call.Rd | 8 libbib-1.5/libbib/man/loc_permalink_from_lccn.Rd | 13 libbib-1.5/libbib/man/marc_008_get_info.Rd |only libbib-1.5/libbib/man/marc_leader_get_info.Rd |only libbib-1.5/libbib/man/normalize_isbn.Rd | 6 libbib-1.5/libbib/man/normalize_isbn_10.Rd | 6 libbib-1.5/libbib/man/normalize_isbn_13.Rd | 3 libbib-1.5/libbib/man/normalize_issn.Rd | 6 libbib-1.5/libbib/man/normalize_lccn.Rd | 2 libbib-1.5/libbib/man/oclc_classify_link_from_standard_num.Rd |only libbib-1.5/libbib/man/recombine_with_sep_closure.Rd |only libbib-1.5/libbib/man/remove_duplicates_and_nas.Rd |only libbib-1.5/libbib/man/split_map_filter_reduce.Rd |only libbib-1.5/libbib/man/worldcat_api_bib_read_info_by.Rd |only libbib-1.5/libbib/man/worldcat_api_classify_by.Rd |only libbib-1.5/libbib/man/worldcat_api_locations_by.Rd |only libbib-1.5/libbib/man/worldcat_api_search.Rd |only libbib-1.5/libbib/man/worldcat_permalink_from_isbn.Rd | 2 libbib-1.5/libbib/man/worldcat_permalink_from_issn.Rd | 2 libbib-1.5/libbib/man/worldcat_permalink_from_oclc_number.Rd | 1 libbib-1.5/libbib/tests/testthat/test-call-numbers-and-subject.R |only libbib-1.5/libbib/tests/testthat/test-marc-field-deconstruction.R |only libbib-1.5/libbib/tests/testthat/test-other-code-translations.R |only libbib-1.5/libbib/tests/testthat/test-split-map-filter-reduce.R |only libbib-1.5/libbib/tests/testthat/test-the-web.R | 29 + libbib-1.5/libbib/tests/testthat/test-utilities.R |only libbib-1.5/libbib/tests/testthat/test-worldcat-api.R |only 76 files changed, 548 insertions(+), 101 deletions(-)
Title: SEC Filings Access
Description: A set of methods to access and parse live filing information from the
U.S. Securities and Exchange Commission (SEC - <https://www.sec.gov/>) including
company and fund filings along with all associated metadata.
Author: Micah J Waldstein [aut, cre]
Maintainer: Micah J Waldstein <micah@waldste.in>
Diff between edgarWebR versions 1.0.3 dated 2020-09-28 and 1.1.0 dated 2021-04-24
edgarWebR-1.0.3/edgarWebR/tests/cache/EDGAR_MainAccess.jsp-374e92.html |only edgarWebR-1.0.3/edgarWebR/tests/cache/EDGAR_MainAccess.jsp-7edfa4.html |only edgarWebR-1.0.3/edgarWebR/tests/cache/browse-edgar-475140.html |only edgarWebR-1.1.0/edgarWebR/DESCRIPTION | 10 edgarWebR-1.1.0/edgarWebR/MD5 | 200 edgarWebR-1.1.0/edgarWebR/R/browse_edgar.R | 2 edgarWebR-1.1.0/edgarWebR/R/cik_search.R | 7 edgarWebR-1.1.0/edgarWebR/R/company_details.R | 2 edgarWebR-1.1.0/edgarWebR/R/company_filings.R | 2 edgarWebR-1.1.0/edgarWebR/R/company_information.R | 2 edgarWebR-1.1.0/edgarWebR/R/company_search.R | 7 edgarWebR-1.1.0/edgarWebR/R/current_events.R | 7 edgarWebR-1.1.0/edgarWebR/R/effectiveness.R | 7 edgarWebR-1.1.0/edgarWebR/R/filing_details.R | 2 edgarWebR-1.1.0/edgarWebR/R/filing_documents.R | 2 edgarWebR-1.1.0/edgarWebR/R/filing_filers.R | 2 edgarWebR-1.1.0/edgarWebR/R/filing_funds.R | 2 edgarWebR-1.1.0/edgarWebR/R/filing_information.R | 2 edgarWebR-1.1.0/edgarWebR/R/full_text.R | 174 edgarWebR-1.1.0/edgarWebR/R/fund_search.R | 4 edgarWebR-1.1.0/edgarWebR/R/header_search.R | 8 edgarWebR-1.1.0/edgarWebR/R/latest_filings.R | 7 edgarWebR-1.1.0/edgarWebR/R/parse_filing.R | 8 edgarWebR-1.1.0/edgarWebR/R/parse_submission.R | 8 edgarWebR-1.1.0/edgarWebR/R/series_search.R | 5 edgarWebR-1.1.0/edgarWebR/R/sic_codes.R | 2 edgarWebR-1.1.0/edgarWebR/R/user_agent.R |only edgarWebR-1.1.0/edgarWebR/R/utils.R | 9 edgarWebR-1.1.0/edgarWebR/R/variable_insurance_search.R | 4 edgarWebR-1.1.0/edgarWebR/README.md | 68 edgarWebR-1.1.0/edgarWebR/inst/doc/edgarWebR.html | 132 edgarWebR-1.1.0/edgarWebR/inst/doc/parsing.html | 19 edgarWebR-1.1.0/edgarWebR/inst/httptest/redact.R | 1 edgarWebR-1.1.0/edgarWebR/inst/httptest/request.R | 1 edgarWebR-1.1.0/edgarWebR/man/cik_search.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/company_details.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/company_filings.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/company_information.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/company_search.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/current_events.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/effectiveness.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/filing_details.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/filing_documents.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/filing_filers.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/filing_funds.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/filing_information.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/full_text.Rd | 32 edgarWebR-1.1.0/edgarWebR/man/fund_search.Rd | 4 edgarWebR-1.1.0/edgarWebR/man/header_search.Rd | 3 edgarWebR-1.1.0/edgarWebR/man/latest_filings.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/parse_filing.Rd | 4 edgarWebR-1.1.0/edgarWebR/man/parse_submission.Rd | 8 edgarWebR-1.1.0/edgarWebR/man/parse_text_filing.Rd | 4 edgarWebR-1.1.0/edgarWebR/man/sic_codes.Rd | 2 edgarWebR-1.1.0/edgarWebR/man/variable_insurance_search.Rd | 4 edgarWebR-1.1.0/edgarWebR/tests/cache/1333712/000156218017002633/0001562180-17-002633-index.htm.html | 1 edgarWebR-1.1.0/edgarWebR/tests/cache/920760/000162828017000327/0001628280-17-000327-index.htm.html | 1 edgarWebR-1.1.0/edgarWebR/tests/cache/933691/000093369117000309/0000933691-17-000309-index.htm.html | 1 edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-11457c.R | 9462 ++++------ edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-3731bc.R | 8290 ++++---- edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-4f7d04.R | 352 edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-63ab6a.html |only edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-85a602.R | 3427 +-- edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-959b74.R | 9274 ++++----- edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-b970eb.html | 266 edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-c0b437.R | 190 edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-d798f7.R | 132 edgarWebR-1.1.0/edgarWebR/tests/cache/browse-edgar-ea17e0.R | 44 edgarWebR-1.1.0/edgarWebR/tests/cache/cik_lookup-523580.html | 8 edgarWebR-1.1.0/edgarWebR/tests/cache/cik_lookup-8208af.html | 2 edgarWebR-1.1.0/edgarWebR/tests/cache/cik_lookup-f91e78.html | 2 edgarWebR-1.1.0/edgarWebR/tests/cache/current-1eb469.html | 28 edgarWebR-1.1.0/edgarWebR/tests/cache/search-index-1c3188-POST.json |only edgarWebR-1.1.0/edgarWebR/tests/cache/search-index-37d955-POST.json |only edgarWebR-1.1.0/edgarWebR/tests/cache/search-index-797cb5-POST.json |only edgarWebR-1.1.0/edgarWebR/tests/cache/series-26a524.html | 2 edgarWebR-1.1.0/edgarWebR/tests/cache/series-29f0ec.html | 2 edgarWebR-1.1.0/edgarWebR/tests/cache/series-66d077.html | 9 edgarWebR-1.1.0/edgarWebR/tests/cache/series-68e025.html | 2 edgarWebR-1.1.0/edgarWebR/tests/cache/series-6e8028.html | 9 edgarWebR-1.1.0/edgarWebR/tests/cache/series-a5a977.html | 2 edgarWebR-1.1.0/edgarWebR/tests/cache/srch-edgar-3ad08d.html | 6 edgarWebR-1.1.0/edgarWebR/tests/cache/srch-edgar-de72a2.html | 8 edgarWebR-1.1.0/edgarWebR/tests/testthat/helper_mock.R | 4 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_browse_edgar.R | 6 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_cik_search.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_company_details.R | 4 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_company_filings.R | 4 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_company_information.R | 4 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_company_search.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_current_events.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_effectiveness.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_filing_details.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_filing_documents.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_filing_filers.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_filing_funds.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_filing_information.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_full_text.R | 36 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_fund_search.R | 8 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_header_search.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_latest_filings.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_parse_filing.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_parse_submission.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_parse_text_filing.R | 2 edgarWebR-1.1.0/edgarWebR/tests/testthat/test_variable_insurance_search.R | 8 105 files changed, 16404 insertions(+), 16011 deletions(-)
More information about covidregionaldata at CRAN
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Title: Analyze Cricket Performances Based on Data from Cricsheet
Description: Analyzing performances of cricketers and cricket teams
based on 'yaml' match data from Cricsheet <https://cricsheet.org/>.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between yorkr versions 0.0.21 dated 2021-04-18 and 0.0.22 dated 2021-04-24
DESCRIPTION | 8 ++++---- MD5 | 10 ++++++---- NAMESPACE | 1 + R/batsmanRunsAgainstOpposition.R | 4 ++-- R/plotWinLossBetweenTeams.R | 30 +++++++----------------------- R/plotWinLossTeamVsAllTeams.R |only man/plotWinLossTeamVsAllTeams.Rd |only 7 files changed, 20 insertions(+), 33 deletions(-)
Title: A Soil Survey Toolkit
Description: Miscellaneous soil data management, summary, visualization, and conversion utilities to support soil survey.
Author: Dylan Beaudette [cre, aut],
Jay Skovlin [aut],
Stephen Roecker [aut],
USDA-NRCS Soil Survey Staff [ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>
Diff between sharpshootR versions 1.7 dated 2021-01-27 and 1.8 dated 2021-04-24
sharpshootR-1.7/sharpshootR/R/water-balance.R |only sharpshootR-1.8/sharpshootR/DESCRIPTION | 20 sharpshootR-1.8/sharpshootR/MD5 | 79 - sharpshootR-1.8/sharpshootR/NAMESPACE | 12 sharpshootR-1.8/sharpshootR/R/CDEC_StationInfo.R | 209 ++- sharpshootR-1.8/sharpshootR/R/CDECquery.R | 510 ++++----- sharpshootR-1.8/sharpshootR/R/PLSS2LL.R | 130 -- sharpshootR-1.8/sharpshootR/R/SoilTaxonomyDendrogram.R | 188 +++ sharpshootR-1.8/sharpshootR/R/colorMixtureVenn.R |only sharpshootR-1.8/sharpshootR/R/dailyWB.R |only sharpshootR-1.8/sharpshootR/R/dailyWB_SSURGO.R |only sharpshootR-1.8/sharpshootR/R/estimateSoilMoistureState.R |only sharpshootR-1.8/sharpshootR/R/geomorphBySoilSeries-SSURGO.R | 528 +++++----- sharpshootR-1.8/sharpshootR/R/huePositionPlot.R | 7 sharpshootR-1.8/sharpshootR/R/isMineralSoilMaterial.R |only sharpshootR-1.8/sharpshootR/R/moistureStateProportions.R |only sharpshootR-1.8/sharpshootR/R/moistureStateThreshold.R |only sharpshootR-1.8/sharpshootR/R/monthlyWB.R |only sharpshootR-1.8/sharpshootR/R/plotAvailWater.R | 82 + sharpshootR-1.8/sharpshootR/R/plotSoilRelationGraph.R | 124 ++ sharpshootR-1.8/sharpshootR/R/plotWB.R |only sharpshootR-1.8/sharpshootR/R/prepareDailyClimateData.R |only sharpshootR-1.8/sharpshootR/R/prepare_SSURGO_hydro_data.R |only sharpshootR-1.8/sharpshootR/R/simpleWB.R |only sharpshootR-1.8/sharpshootR/R/transect-functions.R | 137 ++ sharpshootR-1.8/sharpshootR/R/vizAnnualClimate.R | 88 + sharpshootR-1.8/sharpshootR/man/CDEC_StationInfo.Rd | 78 - sharpshootR-1.8/sharpshootR/man/CDECquery.Rd | 4 sharpshootR-1.8/sharpshootR/man/LL2PLSS.Rd | 20 sharpshootR-1.8/sharpshootR/man/PLSS2LL.Rd | 26 sharpshootR-1.8/sharpshootR/man/SoilTaxonomyDendrogram.Rd | 278 +++-- sharpshootR-1.8/sharpshootR/man/colorMixtureVenn.Rd |only sharpshootR-1.8/sharpshootR/man/dailyWB.Rd |only sharpshootR-1.8/sharpshootR/man/dailyWB_SSURGO.Rd |only sharpshootR-1.8/sharpshootR/man/estimateSoilMoistureState.Rd |only sharpshootR-1.8/sharpshootR/man/formatPLSS.Rd | 3 sharpshootR-1.8/sharpshootR/man/huePositionPlot.Rd | 6 sharpshootR-1.8/sharpshootR/man/isMineralSoilMaterial.Rd |only sharpshootR-1.8/sharpshootR/man/moistureStateProportions.Rd |only sharpshootR-1.8/sharpshootR/man/moistureStateThreshold.Rd |only sharpshootR-1.8/sharpshootR/man/monthlyWB.Rd | 22 sharpshootR-1.8/sharpshootR/man/plotAvailWater.Rd | 189 +-- sharpshootR-1.8/sharpshootR/man/plotSoilRelationGraph.Rd | 254 ++-- sharpshootR-1.8/sharpshootR/man/plotTransect.Rd | 244 ++-- sharpshootR-1.8/sharpshootR/man/plotWB.Rd | 2 sharpshootR-1.8/sharpshootR/man/prepareDailyClimateData.Rd |only sharpshootR-1.8/sharpshootR/man/prepare_SSURGO_hydro_data.Rd |only sharpshootR-1.8/sharpshootR/man/simpleWB.Rd |only sharpshootR-1.8/sharpshootR/man/vizAnnualClimate.Rd | 206 +-- sharpshootR-1.8/sharpshootR/tests/testthat/test-PLSS2LL.R | 9 sharpshootR-1.8/sharpshootR/tests/testthat/test-SoilTaxonomyDendrogram.R | 8 sharpshootR-1.8/sharpshootR/tests/testthat/test-plotProfileDendrogram.R | 6 52 files changed, 2141 insertions(+), 1328 deletions(-)
Title: Joint Frailty-Copula Models for Tumour Progression and Death in
Meta-Analysis
Description: Fit survival data and perform dynamic prediction under joint frailty-copula models for tumour progression and death.
Likelihood-based methods are employed for estimating model parameters, where the baseline hazard functions are modeled by the cubic M-spline or the Weibull model.
The methods are applicable for meta-analytic data containing individual-patient information from several studies.
Survival outcomes need information on both terminal event time (e.g., time-to-death) and non-terminal event time (e.g., time-to-tumour progression).
Methodologies were published in
Emura et al. (2017) <doi:10.1177/0962280215604510>, Emura et al. (2018) <doi:10.1177/0962280216688032>,
Emura et al. (2020) <doi:10.1177/0962280219892295>, Shinohara et al. (2020) <doi:10.1080/03610918.2020.1855449>
and Wu et al. (2020) <doi:10.1007/s00180-020-00977-1>.
See also the book of Emura et al. (2019) <doi:10.1007/978-981-13-3516-7>.
Survival data from ovarian cancer patients are also available.
Author: Takeshi Emura
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
Diff between joint.Cox versions 3.10 dated 2020-12-08 and 3.11 dated 2021-04-24
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/jointCox.Weibull.reg.R | 28 ++++++++++++++++------------ R/jointCox.reg.R | 25 +++++++++++++------------ man/joint.Cox-package.Rd | 4 ++-- man/jointCox.Weibull.reg.Rd | 8 +++----- man/jointCox.reg.Rd | 4 +++- 7 files changed, 47 insertions(+), 42 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Contains functions for the classification and ranking of top candidate features, reconstruction of networks from
adjacency matrices and data frames, analysis of the topology of the network
and calculation of centrality measures, and identification of the most
influential nodes. Also, a function is provided for running SIRIR model, which
is the combination of leave-one-out cross validation technique and the conventional SIR model, on a network to unsupervisedly rank the true influence of vertices. Additionally, some functions have been provided for the assessment
of dependence and correlation of two network centrality measures as well as
the conditional probability of deviation from their corresponding means in opposite direction.
Fred Viole and David Nawrocki (2013, ISBN:1490523995).
Csardi G, Nepusz T (2006). "The igraph software package for complex network research." InterJournal, Complex Systems, 1695.
Adopted algorithms and sources are referenced in function document.
Author: Adrian (Abbas) Salavaty [aut, cre], Mirana Ramialison [ths], Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 2.2.0 dated 2021-04-17 and 2.2.1 dated 2021-04-24
DESCRIPTION | 9 MD5 | 32 NEWS.md | 19 R/functions.R | 18 README.md | 22 inst/ShinyApps/ExIR/app.R | 1756 ++++++++++++++++++++++----------------------- inst/ShinyApps/IVI/app.R | 2 inst/doc/Vignettes.Rmd | 4 inst/doc/Vignettes.html | 8 man/cent_network.vis.Rd | 2 man/comp_manipulate.Rd | 2 man/exir.Rd | 2 man/exir.vis.Rd | 2 man/influential-package.Rd | 2 man/ivi.Rd | 2 man/ivi.from.indices.Rd | 2 vignettes/Vignettes.Rmd | 4 17 files changed, 959 insertions(+), 929 deletions(-)
More information about geneExpressionFromGEO at CRAN
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Title: Fit Continuous-Time State-Space and Latent Variable Models for
Quality Control of Argos Satellite (and Other) Telemetry Data
and for Estimating Movement Behaviour
Description: Fits continuous-time random walk and correlated random walk state-space models for quality control animal tracking data ('Argos', processed light-level 'geolocation', 'GPS'). Template Model Builder ('TMB') is used for fast estimation. The 'Argos' data can be: (older) least squares-based locations; (newer) Kalman filter-based locations with error ellipse information; or a mixture of both. The models estimate two sets of location states corresponding to: 1) each observation, which are (usually) irregularly timed; and 2) user-specified time intervals (regular or irregular). Latent variable models are provided to estimate move persistence along tracks as an index of behaviour. Track simulation functions are provided. 'Jonsen I', 'McMahon CR', 'Patterson TA', 'Auger-Méthé M', 'Harcourt R', 'Hindell MA', 'Bestley S' (2019) Movement responses to environment: fast inference of variation among southern elephant seals with a mixed effects model. Ecology 100:e02566 <doi:10.1002/ecy.2566>.
Author: Ian Jonsen [aut, cre, cph],
Toby Patterson [aut, ctb]
Maintainer: Ian Jonsen <ian.jonsen@mq.edu.au>
Diff between foieGras versions 0.6-9 dated 2020-07-22 and 0.7-5 dated 2021-04-24
foieGras-0.6-9/foieGras/data/ellies.RData |only foieGras-0.6-9/foieGras/man/ellies.Rd |only foieGras-0.7-5/foieGras/DESCRIPTION | 20 foieGras-0.7-5/foieGras/MD5 | 140 ++- foieGras-0.7-5/foieGras/NAMESPACE | 32 foieGras-0.7-5/foieGras/NEWS.md | 25 foieGras-0.7-5/foieGras/R/fit_mpm.R | 100 +- foieGras-0.7-5/foieGras/R/fit_ssm.R | 77 + foieGras-0.7-5/foieGras/R/fmap.R | 223 +++-- foieGras-0.7-5/foieGras/R/foieGras-package.R | 49 - foieGras-0.7-5/foieGras/R/grab.R | 19 foieGras-0.7-5/foieGras/R/mpm_control.R |only foieGras-0.7-5/foieGras/R/mpmf.R | 90 -- foieGras-0.7-5/foieGras/R/osar.r | 15 foieGras-0.7-5/foieGras/R/plot.fG_mpm.R | 129 ++- foieGras-0.7-5/foieGras/R/plot.fG_osar.R | 104 +- foieGras-0.7-5/foieGras/R/plot.fG_sim.R |only foieGras-0.7-5/foieGras/R/plot.fG_simfit.R |only foieGras-0.7-5/foieGras/R/plot.fG_ssm.R | 417 +++++----- foieGras-0.7-5/foieGras/R/prefilter.R | 6 foieGras-0.7-5/foieGras/R/print.ssm.R | 12 foieGras-0.7-5/foieGras/R/rtnorm.R |only foieGras-0.7-5/foieGras/R/sfilter.R | 190 ++-- foieGras-0.7-5/foieGras/R/sim.R |only foieGras-0.7-5/foieGras/R/simfit.R |only foieGras-0.7-5/foieGras/R/ssm_control.R |only foieGras-0.7-5/foieGras/README.md | 74 - foieGras-0.7-5/foieGras/build/vignette.rds |binary foieGras-0.7-5/foieGras/data/res.RData |only foieGras-0.7-5/foieGras/data/sese.RData |only foieGras-0.7-5/foieGras/data/sese1.RData |only foieGras-0.7-5/foieGras/data/xm.RData |binary foieGras-0.7-5/foieGras/data/xs.RData |binary foieGras-0.7-5/foieGras/inst/CITATION | 2 foieGras-0.7-5/foieGras/inst/doc/basics.R | 44 - foieGras-0.7-5/foieGras/inst/doc/basics.Rmd | 61 + foieGras-0.7-5/foieGras/inst/doc/basics.html | 149 ++- foieGras-0.7-5/foieGras/inst/extdata |only foieGras-0.7-5/foieGras/man/argos_lc.Rd |only foieGras-0.7-5/foieGras/man/ellie.Rd | 2 foieGras-0.7-5/foieGras/man/ellp.par.Rd |only foieGras-0.7-5/foieGras/man/emf.Rd | 2 foieGras-0.7-5/foieGras/man/figures/README-example-1.png |binary foieGras-0.7-5/foieGras/man/figures/README-example-2.png |binary foieGras-0.7-5/foieGras/man/figures/README-example-3.png |binary foieGras-0.7-5/foieGras/man/figures/lifecycle-archived.svg |only foieGras-0.7-5/foieGras/man/figures/lifecycle-defunct.svg |only foieGras-0.7-5/foieGras/man/figures/lifecycle-deprecated.svg |only foieGras-0.7-5/foieGras/man/figures/lifecycle-experimental.svg |only foieGras-0.7-5/foieGras/man/figures/lifecycle-maturing.svg |only foieGras-0.7-5/foieGras/man/figures/lifecycle-questioning.svg |only foieGras-0.7-5/foieGras/man/figures/lifecycle-stable.svg |only foieGras-0.7-5/foieGras/man/figures/lifecycle-superseded.svg |only foieGras-0.7-5/foieGras/man/fit_mpm.Rd | 46 - foieGras-0.7-5/foieGras/man/fit_ssm.Rd | 67 - foieGras-0.7-5/foieGras/man/fmap.Rd | 31 foieGras-0.7-5/foieGras/man/grab.Rd | 6 foieGras-0.7-5/foieGras/man/join.Rd | 4 foieGras-0.7-5/foieGras/man/mpm_control.Rd |only foieGras-0.7-5/foieGras/man/mpmf.Rd | 19 foieGras-0.7-5/foieGras/man/osar.Rd | 2 foieGras-0.7-5/foieGras/man/plot.fG_mpm.Rd | 29 foieGras-0.7-5/foieGras/man/plot.fG_osar.Rd | 22 foieGras-0.7-5/foieGras/man/plot.fG_sim.Rd |only foieGras-0.7-5/foieGras/man/plot.fG_simfit.Rd |only foieGras-0.7-5/foieGras/man/plot.fG_ssm.Rd | 21 foieGras-0.7-5/foieGras/man/prefilter.Rd | 2 foieGras-0.7-5/foieGras/man/res.Rd |only foieGras-0.7-5/foieGras/man/rtnorm.Rd |only foieGras-0.7-5/foieGras/man/sese.Rd |only foieGras-0.7-5/foieGras/man/sese1.Rd |only foieGras-0.7-5/foieGras/man/sfilter.Rd | 22 foieGras-0.7-5/foieGras/man/sim.Rd |only foieGras-0.7-5/foieGras/man/simfit.Rd |only foieGras-0.7-5/foieGras/man/ssm_control.Rd |only foieGras-0.7-5/foieGras/man/xm.Rd | 2 foieGras-0.7-5/foieGras/src/TMB/sub/crw.hpp | 20 foieGras-0.7-5/foieGras/src/TMB/sub/rw.hpp | 6 foieGras-0.7-5/foieGras/tests/testthat/test-emf.R | 5 foieGras-0.7-5/foieGras/tests/testthat/test-fit_mpm.R | 22 foieGras-0.7-5/foieGras/tests/testthat/test-fit_ssm.R | 46 - foieGras-0.7-5/foieGras/tests/testthat/test-fmap.R | 2 foieGras-0.7-5/foieGras/tests/testthat/test-osar.R | 35 foieGras-0.7-5/foieGras/tests/testthat/test-plot_mpm.R | 27 foieGras-0.7-5/foieGras/tests/testthat/test-plot_sim.R |only foieGras-0.7-5/foieGras/tests/testthat/test-plot_simfit.R |only foieGras-0.7-5/foieGras/tests/testthat/test-plot_ssm.R | 31 foieGras-0.7-5/foieGras/tests/testthat/test-sim.R |only foieGras-0.7-5/foieGras/vignettes/basics.Rmd | 61 + 89 files changed, 1599 insertions(+), 911 deletions(-)
Title: R Functions for Directed Acyclic Graphs
Description: Functions to draw, manipulate, evaluate directed
acyclic graphs and simulate corresponding data.
Author: Lutz P Breitling
Maintainer: Lutz P Breitling <l.breitling@posteo.de>
Diff between dagR versions 1.1.3 dated 2014-01-09 and 1.2.0 dated 2021-04-24
DESCRIPTION | 14 +++--- MD5 | 100 ++++++++++++++++++++++++++----------------------- NAMESPACE | 9 ++++ NEWS | 10 +++- R/dag.letter2.R |only R/dagR2dagitty.R |only R/plot.dagRdag.R |only R/print.dagRdag.R |only R/summary.dagRdag.R |only man/add.arc.Rd | 2 man/add.node.Rd | 2 man/addAngle.Rd | 2 man/allCombs.Rd | 2 man/angle.Rd | 2 man/anglePoint.Rd | 2 man/assoc.exists.Rd | 2 man/brute.search.Rd | 2 man/dag.adjust.Rd | 2 man/dag.adjustment.Rd | 2 man/dag.ancestors.Rd | 2 man/dag.draw.Rd | 8 +-- man/dag.init.Rd | 2 man/dag.legend.Rd | 2 man/dag.letter.Rd | 2 man/dag.letter2.Rd |only man/dag.move.Rd | 2 man/dag.search.Rd | 2 man/dag.sim.Rd | 24 +++++------ man/dagR-package.Rd | 30 ++++++-------- man/dagR2dagitty.Rd |only man/demo.dag0.Rd | 2 man/demo.dag1.Rd | 2 man/demo.dag2.Rd | 2 man/demo.dag3.Rd | 4 - man/demo.dag4.Rd | 2 man/demo.dag5.Rd | 2 man/demo.dag6.Rd | 2 man/demo.dag7.Rd | 4 - man/distPoints.Rd | 2 man/eval.paths.Rd | 2 man/find.paths.Rd | 2 man/garrows.Rd | 2 man/inAngle.Rd | 2 man/is.acyclic.Rd | 2 man/is.in.Rd | 2 man/is.unknown.Rd | 2 man/msas.Rd | 2 man/plot.dagRdag.Rd |only man/print.dagRdag.Rd |only man/rm.arc.Rd | 2 man/rm.node.Rd | 2 man/smoothArc.Rd | 2 man/summary.dagRdag.Rd |only man/summary_dagRdag.Rd | 13 +++--- man/viv.Rd | 2 man/write.paths.Rd | 2 56 files changed, 157 insertions(+), 131 deletions(-)
Title: Bitwise Operations
Description: Functions for bitwise operations on integer vectors.
Author: S original by Steve Dutky <sdutky@terpalum.umd.edu> initial R
port and extensions by Martin Maechler; revised and modified
by Steve Dutky
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between bitops versions 1.0-6 dated 2013-08-18 and 1.0-7 dated 2021-04-24
ChangeLog | 29 +++++ DESCRIPTION | 10 + MD5 | 25 ++-- NAMESPACE | 4 R/bitops.R | 25 ++-- README.md | 16 +++ man/bitAnd.Rd | 28 +++-- man/bitFlip.Rd | 21 +++- man/bitShiftL.Rd | 52 ++++++++-- src/bit-ops.c | 188 ++++++++++++++++++------------------ src/bit-ops.h | 4 src/cksum.c | 2 src/init.c |only tests/consistency.R | 267 +++++++++++++++++++++++++++------------------------- 14 files changed, 399 insertions(+), 272 deletions(-)
Title: Weighted Subspace Random Forest for Classification
Description: A parallel implementation of Weighted Subspace Random Forest. The
Weighted Subspace Random Forest algorithm was proposed in the
International Journal of Data Warehousing and Mining by Baoxun Xu,
Joshua Zhexue Huang, Graham Williams, Qiang Wang, and Yunming Ye
(2012) <DOI:10.4018/jdwm.2012040103>. The algorithm can classify
very high-dimensional data with random forests built using small
subspaces. A novel variable weighting method is used for variable
subspace selection in place of the traditional random variable
sampling.This new approach is particularly useful in building
models from high-dimensional data.
Author: Qinghan Meng [aut],
He Zhao [aut, cre] (<https://orcid.org/0000-0001-5763-9743>),
Graham J. Williams [aut] (<https://orcid.org/0000-0001-7041-4127>),
Junchao Lv [aut],
Baoxun Xu [aut],
Joshua Zhexue Huang [aut] (<https://orcid.org/0000-0002-6797-2571>)
Maintainer: He Zhao <Simon.Yansen.Zhao@gmail.com>
Diff between wsrf versions 1.7.17 dated 2017-09-25 and 1.7.20 dated 2021-04-24
DESCRIPTION | 28 +- MD5 | 16 - README.md | 2 build/vignette.rds |binary inst/NEWS.Rd | 35 ++ inst/doc/wsrf-guide.R | 28 +- inst/doc/wsrf-guide.html | 637 +++++++++++++++++++++++++++++++++++----------- src/c4_5_var_selector.cpp | 2 vignettes/wsrf-guide.bib | 2 9 files changed, 564 insertions(+), 186 deletions(-)
Title: A General-Purpose Package for Dynamic Report Generation in R
Description: Provides a general-purpose tool for dynamic report generation in R
using Literate Programming techniques.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Abhraneel Sarma [ctb],
Adam Vogt [ctb],
Alastair Andrew [ctb],
Alex Zvoleff [ctb],
Andre Simon [ctb] (the CSS files under inst/themes/ were derived from
the Highlight package http://www.andre-simon.de),
Aron Atkins [ctb],
Aaron Wolen [ctb],
Ashley Manton [ctb],
Atsushi Yasumoto [ctb] (<https://orcid.org/0000-0002-8335-495X>),
Ben Baumer [ctb],
Brian Diggs [ctb],
Brian Zhang [ctb],
Bulat Yapparov [ctb],
Cassio Pereira [ctb],
Christophe Dervieux [ctb],
David Hall [ctb],
David Hugh-Jones [ctb],
David Robinson [ctb],
Doug Hemken [ctb],
Duncan Murdoch [ctb],
Elio Campitelli [ctb],
Ellis Hughes [ctb],
Emily Riederer [ctb],
Fabian Hirschmann [ctb],
Fitch Simeon [ctb],
Forest Fang [ctb],
Frank E Harrell Jr [ctb] (the Sweavel package at inst/misc/Sweavel.sty),
Garrick Aden-Buie [ctb],
Gregoire Detrez [ctb],
Hadley Wickham [ctb],
Hao Zhu [ctb],
Heewon Jeon [ctb],
Henrik Bengtsson [ctb],
Hiroaki Yutani [ctb],
Ian Lyttle [ctb],
Hodges Daniel [ctb],
Jake Burkhead [ctb],
James Manton [ctb],
Jared Lander [ctb],
Jason Punyon [ctb],
Javier Luraschi [ctb],
Jeff Arnold [ctb],
Jenny Bryan [ctb],
Jeremy Ashkenas [ctb, cph] (the CSS file at
inst/misc/docco-classic.css),
Jeremy Stephens [ctb],
Jim Hester [ctb],
Joe Cheng [ctb],
Johannes Ranke [ctb],
John Honaker [ctb],
John Muschelli [ctb],
Jonathan Keane [ctb],
JJ Allaire [ctb],
Johan Toloe [ctb],
Jonathan Sidi [ctb],
Joseph Larmarange [ctb],
Julien Barnier [ctb],
Kaiyin Zhong [ctb],
Kamil Slowikowski [ctb],
Karl Forner [ctb],
Kevin K. Smith [ctb],
Kirill Mueller [ctb],
Kohske Takahashi [ctb],
Lorenz Walthert [ctb],
Lucas Gallindo [ctb],
Marius Hofert [ctb],
Martin Modrák [ctb],
Michael Chirico [ctb],
Michael Friendly [ctb],
Michal Bojanowski [ctb],
Michel Kuhlmann [ctb],
Miller Patrick [ctb],
Nacho Caballero [ctb],
Nick Salkowski [ctb],
Niels Richard Hansen [ctb],
Noam Ross [ctb],
Obada Mahdi [ctb],
Pavel N. Krivitsky [ctb] (<https://orcid.org/0000-0002-9101-3362>),
Qiang Li [ctb],
Ramnath Vaidyanathan [ctb],
Richard Cotton [ctb],
Robert Krzyzanowski [ctb],
Romain Francois [ctb],
Ruaridh Williamson [ctb],
Scott Kostyshak [ctb],
Sebastian Meyer [ctb],
Sietse Brouwer [ctb],
Simon de Bernard [ctb],
Sylvain Rousseau [ctb],
Taiyun Wei [ctb],
Thibaut Assus [ctb],
Thibaut Lamadon [ctb],
Thomas Leeper [ctb],
Tim Mastny [ctb],
Tom Torsney-Weir [ctb],
Trevor Davis [ctb],
Viktoras Veitas [ctb],
Weicheng Zhu [ctb],
Wush Wu [ctb],
Zachary Foster [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between knitr versions 1.32 dated 2021-04-14 and 1.33 dated 2021-04-24
DESCRIPTION | 8 +++-- MD5 | 42 ++++++++++++++++-------------- NAMESPACE | 27 ++++++++++--------- R/block.R | 12 ++++---- R/engine.R | 24 ++++++++++------- R/output.R | 59 +++++++++++++++++++++++++++++-------------- R/plot.R | 32 ++++++++++++++++++++--- R/table.R | 19 ++++++++++--- R/utils-conversion.R | 19 +++++-------- R/utils-vignettes.R | 6 ++-- R/utils.R | 24 +++++++++++------ inst/doc/knit_expand.html | 4 +- inst/doc/knit_print.html | 12 ++++---- inst/doc/knitr-intro.html | 10 +++---- inst/doc/knitr-markdown.html | 2 - inst/doc/knitr-refcard.pdf |binary man/engine_output.Rd | 11 +++----- man/is_low_change.Rd |only man/knit2html.Rd | 2 - man/plot_crop.Rd | 2 - man/sew.Rd |only tests/testit/test-hooks-md.R | 2 - tests/testit/test-table.R | 13 +++++++++ 23 files changed, 209 insertions(+), 121 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-10 0.1.1
Title: R Bindings for Calling the 'Earth Engine' API
Description: Earth Engine <https://earthengine.google.com/> client library for R. All
of the 'Earth Engine' API classes, modules, and functions are made available. Additional
functions implemented include importing (exporting) of Earth Engine spatial objects,
extraction of time series, interactive map display, assets management interface,
and metadata display. See <https://r-spatial.github.io/rgee/> for further details.
Author: Cesar Aybar [aut, cre] (<https://orcid.org/0000-0003-2745-9535>),
Wu Qiusheng [ctb] (<https://orcid.org/0000-0001-5437-4073>),
Lesly Bautista [ctb] (<https://orcid.org/0000-0003-3523-8687>),
Roy Yali [ctb] (<https://orcid.org/0000-0003-4542-3755>),
Antony Barja [ctb] (<https://orcid.org/0000-0001-5921-2858>),
Kevin Ushey [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Tim Appelhans [ctb],
JJ Allaire [ctb],
Yuan Tang [ctb],
Samapriya Roy [ctb],
MariaElena Adauto [ctb] (<https://orcid.org/0000-0002-2154-2429>),
Gabriel Carrasco [ctb] (<https://orcid.org/0000-0002-6945-0419>),
Henrik Bengtsson [ctb],
Jeffrey Hollister [rev] (Hollister reviewed the package for JOSS, see
https://github.com/openjournals/joss-reviews/issues/2272/),
Gennadii Donchyts [rev] (Gena reviewed the package for JOSS, see
https://github.com/openjournals/joss-reviews/issues/2272/),
Marius Appel [rev] (Appel reviewed the package for JOSS, see
https://github.com/openjournals/joss-reviews/issues/2272/)
Maintainer: Cesar Aybar <csaybar@gmail.com>
Diff between rgee versions 1.0.8 dated 2021-01-27 and 1.0.9 dated 2021-04-24
rgee-1.0.8/rgee/R/Map.R |only rgee-1.0.8/rgee/man/ee_utils_search_display.Rd |only rgee-1.0.8/rgee/man/null-default.Rd |only rgee-1.0.8/rgee/tests/credentials |only rgee-1.0.9/rgee/DESCRIPTION | 30 rgee-1.0.9/rgee/MD5 | 186 - rgee-1.0.9/rgee/NAMESPACE | 16 rgee-1.0.9/rgee/NEWS.md | 30 rgee-1.0.9/rgee/R/Deprecated.R | 1016 ++++++++++ rgee-1.0.9/rgee/R/Map_operators.R | 95 rgee-1.0.9/rgee/R/R6Map.R |only rgee-1.0.9/rgee/R/ee_Date.R | 17 rgee-1.0.9/rgee/R/ee_Initialize.R | 73 rgee-1.0.9/rgee/R/ee_as_sf.R | 111 - rgee-1.0.9/rgee/R/ee_as_thumbnail.R | 38 rgee-1.0.9/rgee/R/ee_check.R | 2 rgee-1.0.9/rgee/R/ee_clean.R | 90 rgee-1.0.9/rgee/R/ee_download.R | 116 - rgee-1.0.9/rgee/R/ee_extract.R | 265 ++ rgee-1.0.9/rgee/R/ee_get.R | 84 rgee-1.0.9/rgee/R/ee_help.R | 5 rgee-1.0.9/rgee/R/ee_image.R | 76 rgee-1.0.9/rgee/R/ee_imagecollection.R | 29 rgee-1.0.9/rgee/R/ee_install.R | 249 ++ rgee-1.0.9/rgee/R/ee_manage.R | 10 rgee-1.0.9/rgee/R/ee_module.R | 4 rgee-1.0.9/rgee/R/ee_print.R | 50 rgee-1.0.9/rgee/R/ee_utils.R | 341 --- rgee-1.0.9/rgee/R/ee_version.R | 4 rgee-1.0.9/rgee/R/print.R | 1 rgee-1.0.9/rgee/R/rgee-package.R | 250 ++ rgee-1.0.9/rgee/R/sf_as_ee.R | 13 rgee-1.0.9/rgee/R/utils-R6Map.R |only rgee-1.0.9/rgee/R/utils-download.R | 4 rgee-1.0.9/rgee/R/utils-upload.R | 75 rgee-1.0.9/rgee/inst/dataset.json |only rgee-1.0.9/rgee/inst/doc/rgee01.R | 5 rgee-1.0.9/rgee/inst/doc/rgee01.Rmd | 68 rgee-1.0.9/rgee/inst/doc/rgee01.html | 127 - rgee-1.0.9/rgee/inst/doc/rgee02.Rmd | 55 rgee-1.0.9/rgee/inst/doc/rgee02.html | 115 - rgee-1.0.9/rgee/inst/doc/rgee03.Rmd | 63 rgee-1.0.9/rgee/inst/doc/rgee03.html | 131 - rgee-1.0.9/rgee/inst/python/ee_extract.py | 2 rgee-1.0.9/rgee/man/Map.Rd | 30 rgee-1.0.9/rgee/man/Math-methods.Rd |only rgee-1.0.9/rgee/man/Ops-methods.Rd |only rgee-1.0.9/rgee/man/R6Map.Rd |only rgee-1.0.9/rgee/man/Summary-methods.Rd |only rgee-1.0.9/rgee/man/ee.Rd | 4 rgee-1.0.9/rgee/man/ee_Initialize.Rd | 19 rgee-1.0.9/rgee/man/ee_as_raster.Rd | 34 rgee-1.0.9/rgee/man/ee_as_sf.Rd | 50 rgee-1.0.9/rgee/man/ee_as_stars.Rd | 32 rgee-1.0.9/rgee/man/ee_as_thumbnail.Rd | 33 rgee-1.0.9/rgee/man/ee_check-tools.Rd | 2 rgee-1.0.9/rgee/man/ee_clean_container.Rd | 11 rgee-1.0.9/rgee/man/ee_clean_credentials.Rd | 2 rgee-1.0.9/rgee/man/ee_clean_pyenv.Rd | 12 rgee-1.0.9/rgee/man/ee_drive_to_local.Rd | 37 rgee-1.0.9/rgee/man/ee_extract.Rd | 90 rgee-1.0.9/rgee/man/ee_gcs_to_local.Rd | 32 rgee-1.0.9/rgee/man/ee_get.Rd | 10 rgee-1.0.9/rgee/man/ee_get_assethome.Rd | 1 rgee-1.0.9/rgee/man/ee_get_date_ic.Rd | 6 rgee-1.0.9/rgee/man/ee_get_date_img.Rd | 4 rgee-1.0.9/rgee/man/ee_get_earthengine_path.Rd | 2 rgee-1.0.9/rgee/man/ee_image_info.Rd | 10 rgee-1.0.9/rgee/man/ee_image_to_asset.Rd | 10 rgee-1.0.9/rgee/man/ee_image_to_drive.Rd | 23 rgee-1.0.9/rgee/man/ee_image_to_gcs.Rd | 12 rgee-1.0.9/rgee/man/ee_imagecollection_to_local.Rd | 29 rgee-1.0.9/rgee/man/ee_install_set_pyenv.Rd | 28 rgee-1.0.9/rgee/man/ee_length.Rd |only rgee-1.0.9/rgee/man/ee_length_ic.Rd |only rgee-1.0.9/rgee/man/ee_manage-tools.Rd | 10 rgee-1.0.9/rgee/man/ee_monitoring.Rd | 4 rgee-1.0.9/rgee/man/ee_name.Rd |only rgee-1.0.9/rgee/man/ee_print.Rd | 9 rgee-1.0.9/rgee/man/ee_subsetting.Rd |only rgee-1.0.9/rgee/man/ee_utils_create_json.Rd | 4 rgee-1.0.9/rgee/man/ee_utils_create_manifest_image.Rd | 14 rgee-1.0.9/rgee/man/ee_utils_create_manifest_table.Rd | 8 rgee-1.0.9/rgee/man/ee_utils_dataset_display.Rd |only rgee-1.0.9/rgee/man/ee_utils_gif_annotate.Rd | 2 rgee-1.0.9/rgee/man/ee_utils_gif_creator.Rd | 2 rgee-1.0.9/rgee/man/ee_utils_gif_save.Rd | 8 rgee-1.0.9/rgee/man/ee_utils_shp_to_zip.Rd | 6 rgee-1.0.9/rgee/man/eedate_to_rdate.Rd | 13 rgee-1.0.9/rgee/man/gcs_to_ee_image.Rd | 49 rgee-1.0.9/rgee/man/local_to_gcs.Rd | 2 rgee-1.0.9/rgee/man/map-operator.Rd |only rgee-1.0.9/rgee/man/print.ee.computedobject.ComputedObject.Rd | 1 rgee-1.0.9/rgee/man/rdate_to_eedate.Rd | 4 rgee-1.0.9/rgee/man/rgee-package.Rd | 291 ++ rgee-1.0.9/rgee/man/sf_as_ee.Rd | 4 rgee-1.0.9/rgee/tests/testthat/test-ee_extract.R | 56 rgee-1.0.9/rgee/tests/testthat/test-map.R | 81 rgee-1.0.9/rgee/tests/testthat/test-operators.R |only rgee-1.0.9/rgee/vignettes/rgee01.Rmd | 68 rgee-1.0.9/rgee/vignettes/rgee02.Rmd | 55 rgee-1.0.9/rgee/vignettes/rgee03.Rmd | 63 102 files changed, 3573 insertions(+), 1550 deletions(-)
Title: Bayesian Modelling of Extremal Dependence in Time Series
Description: Characterisation of the extremal dependence structure of time series, avoiding pre-processing and filtering as done typically with peaks-over-threshold methods. It uses the conditional approach of Heffernan and Tawn (2004) <DOI:10.1111/j.1467-9868.2004.02050.x> which is very flexible in terms of extremal and asymptotic dependence structures, and Bayesian methods improve efficiency and allow for deriving measures of uncertainty. For example, the extremal index, related to the size of clusters in time, can be estimated and samples from its posterior distribution obtained.
Author: Thomas Lugrin
Maintainer: Thomas Lugrin <thomas.lugrin@alumni.epfl.ch>
Diff between tsxtreme versions 0.3.2 dated 2018-12-21 and 0.3.3 dated 2021-04-23
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/etfit.R | 4 ++-- R/tictoc.R | 25 ++++++++----------------- build/partial.rdb |binary 6 files changed, 24 insertions(+), 29 deletions(-)
Title: Mediation Analysis for Count and Zero-Inflated Count Data
Description: Performs causal mediation analysis for count and zero-inflated
count data without or with a post-treatment confounder; calculates power
to detect prespecified causal mediation effects, direct effects, and
total effects; performs sensitivity analysis when there is a treatment-
induced mediator-outcome confounder as described by Cheng, J., Cheng, N.F.,
Guo, Z., Gregorich, S., Ismail, A.I., Gansky, S.A. (2018)
<doi:10.1177/0962280216686131>. Implements Instrumental Variable (IV)
method to estimate the controlled (natural) direct and mediation effects,
and compute the bootstrap Confidence Intervals as described by Guo, Z.,
Small, D.S., Gansky, S.A., Cheng, J. (2018) <doi:10.1111/rssc.12233>. This
software was made possible by Grant R03DE028410 from the The National
Institute of Dental and Craniofacial Research, a component of the National
Institutes of Health.
Author: Nancy Cheng, Zijian Guo, Jing Cheng
Maintainer: Nancy Cheng <Nancy.Cheng@ucsf.edu>
Diff between maczic versions 0.1.0 dated 2020-11-09 and 0.2.0 dated 2021-04-23
DESCRIPTION | 11 +++++++---- MD5 | 7 ++++--- NEWS.md |only R/maczic_power.R | 13 ++++++------- build/maczic.pdf |binary 5 files changed, 17 insertions(+), 14 deletions(-)
Title: 'WebSocket' Client Library
Description: Provides a 'WebSocket' client interface for R.
'WebSocket' is a protocol for low-overhead real-time communication:
<https://en.wikipedia.org/wiki/WebSocket>.
Author: Winston Chang [aut, cre],
Joe Cheng [aut],
Alan Dipert [aut],
Barbara Borges [aut],
RStudio [cph],
Peter Thorson [ctb, cph] (WebSocket++ library),
René Nyffenegger [ctb, cph] (Base 64 library),
Micael Hildenborg [ctb, cph] (SHA1 library),
Aladdin Enterprises [cph] (MD5 library),
Bjoern Hoehrmann [ctb, cph] (UTF8 Validation library)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between websocket versions 1.3.2 dated 2021-02-10 and 1.4.0 dated 2021-04-23
websocket-1.3.2/websocket/R/RcppExports.R |only websocket-1.3.2/websocket/src/RcppExports.cpp |only websocket-1.4.0/websocket/DESCRIPTION | 14 +- websocket-1.4.0/websocket/MD5 | 30 ++--- websocket-1.4.0/websocket/NAMESPACE | 1 websocket-1.4.0/websocket/NEWS.md | 5 websocket-1.4.0/websocket/R/cpp11.R |only websocket-1.4.0/websocket/R/websocket.R | 2 websocket-1.4.0/websocket/build/vignette.rds |binary websocket-1.4.0/websocket/inst/doc/overview.html | 9 + websocket-1.4.0/websocket/src/Makevars.in | 2 websocket-1.4.0/websocket/src/Makevars.win | 3 websocket-1.4.0/websocket/src/client.hpp | 10 - websocket-1.4.0/websocket/src/cpp11.cpp |only websocket-1.4.0/websocket/src/websocket.cpp | 44 +++----- websocket-1.4.0/websocket/src/websocket_connection.cpp | 86 +++++++++++------ websocket-1.4.0/websocket/src/websocket_connection.h | 25 ++-- websocket-1.4.0/websocket/src/websocket_task.h | 8 - 18 files changed, 134 insertions(+), 105 deletions(-)
Title: Tools for Temporal Social Network Analysis
Description: Temporal SNA tools for continuous- and discrete-time longitudinal networks having vertex, edge, and attribute dynamics stored in the 'networkDynamic' format. This work was supported by grant R01HD68395 from the National Institute of Health.
Author: Skye Bender-deMoll [aut, cre],
Martina Morris [aut],
James Moody [ctb]
Maintainer: Skye Bender-deMoll <skyebend@uw.edu>
Diff between tsna versions 0.3.1 dated 2020-01-20 and 0.3.3 dated 2021-04-23
ChangeLog | 4 DESCRIPTION | 12 - MD5 | 14 +- README.md | 4 build/vignette.rds |binary inst/doc/tsna_vignette.Rmd | 10 - inst/doc/tsna_vignette.html | 294 ++++++++++++++------------------------------ vignettes/tsna_vignette.Rmd | 10 - 8 files changed, 128 insertions(+), 220 deletions(-)
Title: Predict the Race and Gender of a Given Name Using Census and
Social Security Administration Data
Description: Predicts the most common race of a surname and based on U.S. Census
data, and the most common first named based on U.S. Social Security Administration data.
Author: Jacob Kaplan [aut, cre] (<https://orcid.org/0000-0002-0601-0387>)
Maintainer: Jacob Kaplan <jkkaplan6@gmail.com>
Diff between predictrace versions 1.2.1 dated 2020-09-16 and 2.0.0 dated 2021-04-23
DESCRIPTION | 15 - MD5 | 38 +-- NAMESPACE | 1 NEWS.md | 8 R/data.R | 41 +++ R/main.R | 100 ++++++++ R/sysdata.rda |binary README.md | 170 ++++++++++++--- build/vignette.rds |binary data/first_names_gender.rda |only data/first_names_race.rda |only data/surnames_race.rda |binary inst/doc/Predict-race-of-surname.R | 33 ++ inst/doc/Predict-race-of-surname.Rmd | 77 ++++++ inst/doc/Predict-race-of-surname.html | 361 ++++++++++---------------------- man/first_names_gender.Rd |only man/first_names_race.Rd |only man/predict_gender.Rd |only man/predict_race.Rd | 20 + tests/testthat/test-error-silent-stop.R | 63 +++++ tests/testthat/test-race.R | 91 +++++++- tests/testthat/test-test-gender.R |only vignettes/Predict-race-of-surname.Rmd | 77 ++++++ 23 files changed, 783 insertions(+), 312 deletions(-)
Title: Import and Export 'SPSS', 'Stata' and 'SAS' Files
Description: Import foreign statistical formats into R via the embedded
'ReadStat' C library, <https://github.com/WizardMac/ReadStat>.
Author: Hadley Wickham [aut, cre],
Evan Miller [aut, cph] (Author of included ReadStat code),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between haven versions 2.4.0 dated 2021-04-14 and 2.4.1 dated 2021-04-23
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 4 ++++ R/labelled.R | 2 +- build/vignette.rds |binary inst/doc/semantics.html | 30 +++++++++++++++--------------- tests/testthat/test-labelled.R | 8 ++++++++ 7 files changed, 37 insertions(+), 25 deletions(-)
Title: HTTP and WebSocket Server Library
Description: Provides low-level socket and protocol support for handling
HTTP and WebSocket requests directly from within R. It is primarily
intended as a building block for other packages, rather than making it
particularly easy to create complete web applications using httpuv alone.
httpuv is built on top of the libuv and http-parser C libraries, both of
which were developed by Joyent, Inc. (See LICENSE file for libuv and
http-parser license information.)
Author: Joe Cheng [aut],
Winston Chang [aut, cre],
RStudio, PBC [cph],
Hector Corrada Bravo [ctb],
Jeroen Ooms [ctb],
Andrzej Krzemienski [cph] (optional.hpp)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between httpuv versions 1.5.5 dated 2021-01-13 and 1.6.0 dated 2021-04-23
DESCRIPTION | 16 +++--- LICENSE | 36 +++++++++++++++ MD5 | 55 ++++++++++++----------- NEWS.md | 5 ++ src/auto_deleter.h | 4 - src/callback.cpp | 6 +- src/callback.h | 12 ++--- src/callbackqueue.cpp | 6 +- src/callbackqueue.h | 6 +- src/http.cpp | 29 ++++++------ src/http.h | 36 +++++++-------- src/httprequest.cpp | 105 ++++++++++++++++++++++----------------------- src/httprequest.h | 48 +++++++++----------- src/httpresponse.cpp | 14 +++--- src/httpresponse.h | 15 +++--- src/httpuv.cpp | 64 +++++++++++++-------------- src/optional.h |only src/socket.cpp | 8 +-- src/socket.h | 12 ++--- src/staticpath.cpp | 57 ++++++++++++------------ src/staticpath.h | 32 ++++++------- src/timegm.cpp |only src/timegm.h |only src/utils.cpp | 113 +++++++++++++++++++++++++++++++++++++++++++++++++ src/utils.h | 85 ++++++------------------------------ src/uvutil.h | 10 ++-- src/webapplication.cpp | 107 ++++++++++++++++++++++------------------------ src/webapplication.h | 62 +++++++++++++------------- src/websockets.cpp | 6 -- src/websockets.h | 8 +-- 30 files changed, 521 insertions(+), 436 deletions(-)
Title: Multivariate Data Analysis for Chemometrics
Description: Projection based methods for preprocessing,
exploring and analysis of multivariate data used in chemometrics.
S. Kucheryavskiy (2020) <doi: 10.1016/j.chemolab.2020.103937>.
Author: Sergey Kucheryavskiy (<https://orcid.org/0000-0002-3145-7244>)
Maintainer: Sergey Kucheryavskiy <svkucheryavski@gmail.com>
Diff between mdatools versions 0.11.3 dated 2021-01-22 and 0.11.4 dated 2021-04-23
DESCRIPTION | 8 +- MD5 | 36 ++++----- NEWS.md | 14 +++ R/constraints.R | 8 +- R/ipls.R | 175 +++++++++++++++++++++++++--------------------- R/mcrals.R | 78 +++++++++++++++++--- R/mcrpure.R | 1 R/pca.R | 3 R/pls.R | 2 R/prep.R | 2 R/regmodel.R | 4 - README.md | 6 - man/ipls.Rd | 6 + man/ipls.backward.Rd | 6 + man/ipls.forward.Rd | 6 + man/mcrals.Rd | 39 +++++++++- man/mcrals.cal.Rd | 6 + man/plotRMSE.ipls.Rd | 2 man/plotSelection.ipls.Rd | 2 19 files changed, 280 insertions(+), 124 deletions(-)
Title: Build Error Correction Models
Description: Functions for easy building of error correction models (ECM) for time series regression.
Author: Gaurav Bansal
Maintainer: Gaurav Bansal <gaurbans@gmail.com>
Diff between ecm versions 5.1.0 dated 2021-02-10 and 6.1.0 dated 2021-04-23
DESCRIPTION | 10 ++--- MD5 | 28 +++++++------- R/ecm.R | 102 ++++++++++++++++++++++++++++++++++++++++-------------- R/ecmave.R | 1 R/ecmaveback.r | 2 + R/ecmback.r | 2 + R/ecmpredict.r | 69 ++++++++++++++++++++---------------- R/lmave.R | 7 ++- README.md | 2 - man/ecm.Rd | 43 +++++++++++++++++++--- man/ecmave.Rd | 4 +- man/ecmaveback.Rd | 4 +- man/ecmback.Rd | 4 +- man/ecmpredict.Rd | 4 +- man/lmave.Rd | 8 ++-- 15 files changed, 198 insertions(+), 92 deletions(-)
Title: Analysis of Selection Index in Plant Breeding
Description: The aim of most plant breeding programmes is simultaneous improvement of several characters. An objective method involving simultaneous selection for several attributes then becomes necessary. It has been recognised that most rapid improvements in the economic value is expected from selection applied simultaneously to all the characters which determine the economic value of a plant, and appropriate assigned weights to each character according to their economic importance, heritability and correlations between characters. So the selection for economic value is a complex matter. If the component characters are combined together into an index in such a way that when selection is applied to the index, as if index is the character to be improved, most rapid improvement of economic value is expected. Such an index was first proposed by Smith (1937 <doi:10.1111/j.1469-1809.1936.tb02143.x>) based on the Fisher's (1936 <doi:10.1111/j.1469-1809.1936.tb02137.x>) "discriminant function" Dabholkar (1999 <https://books.google.co.in/books?id=mlFtumAXQ0oC&lpg=PA4&ots=Xgxp1qLuxS&dq=elements%20of%20biometrical%20genetics&lr&pg=PP1#v=onepage&q&f=false>). In this package selection index is calculated based on the Smith (1937) selection index method.
Author: Zankrut Goyani [aut, cre, cph],
Alok Shrivastva [aut],
Yogesh Garde [aut],
Arvind Chaudhary [aut]
Maintainer: Zankrut Goyani <zankrut20@gmail.com>
Diff between selection.index versions 1.0.0 dated 2021-04-06 and 1.1.0 dated 2021-04-23
selection.index-1.0.0/selection.index/R/rank.index.R |only selection.index-1.0.0/selection.index/man/rank.index.Rd |only selection.index-1.0.0/selection.index/tests/testthat/test-rank.index.R |only selection.index-1.1.0/selection.index/DESCRIPTION | 27 - selection.index-1.1.0/selection.index/MD5 | 37 - selection.index-1.1.0/selection.index/NAMESPACE | 19 selection.index-1.1.0/selection.index/NEWS.md |only selection.index-1.1.0/selection.index/R/comb.indices.R |only selection.index-1.1.0/selection.index/R/phen.varcov.R | 2 selection.index-1.1.0/selection.index/README.md | 39 - selection.index-1.1.0/selection.index/build/vignette.rds |binary selection.index-1.1.0/selection.index/inst/doc/Examples.R | 33 - selection.index-1.1.0/selection.index/inst/doc/Examples.Rmd | 42 - selection.index-1.1.0/selection.index/inst/doc/Examples.html | 225 ++++++---- selection.index-1.1.0/selection.index/man/comb.indices.Rd |only selection.index-1.1.0/selection.index/man/gen.varcov.Rd | 48 +- selection.index-1.1.0/selection.index/man/phen.varcov.Rd | 48 +- selection.index-1.1.0/selection.index/man/sel.score.rank.Rd | 48 +- selection.index-1.1.0/selection.index/man/seldata.Rd | 58 +- selection.index-1.1.0/selection.index/man/weight.Rd | 44 - selection.index-1.1.0/selection.index/man/weight.mat.Rd | 40 - selection.index-1.1.0/selection.index/tests/testthat/test-comb.indices.R |only selection.index-1.1.0/selection.index/vignettes/Examples.Rmd | 42 - 23 files changed, 389 insertions(+), 363 deletions(-)
More information about selection.index at CRAN
Permanent link
Title: Generalized Pairwise Comparisons
Description: Implementation of the Generalized Pairwise Comparisons (GPC)
as defined in Buyse (2010) <doi:10.1002/sim.3923> for complete observations,
and extended in Peron (2018) <doi:10.1177/0962280216658320> to deal with right-censoring.
GPC compare two groups of observations (intervention vs. control group)
regarding several prioritized endpoints to estimate the probability that a random observation drawn from
one group performs better than a random observation drawn from the other group (Mann-Whitney parameter).
The net benefit and win ratio statistics,
i.e. the difference and ratio between the probabilities relative to the intervention and control groups,
can then also be estimated. Confidence intervals and p-values are obtained using permutations, a non-parametric bootstrap, or the asymptotic theory.
The software enables the use of thresholds of minimal importance difference,
stratification, non-prioritized endpoints (O'Brien test), and can handle right-censoring and competing-risks.
Author: Brice Ozenne [aut, cre] (<https://orcid.org/0000-0001-9694-2956>),
Julien Peron [ctb],
Eva Cantagallo [aut]
Maintainer: Brice Ozenne <brice.mh.ozenne@gmail.com>
Diff between BuyseTest versions 2.2.6 dated 2021-03-16 and 2.3.0 dated 2021-04-23
DESCRIPTION | 22 MD5 | 223 +-- NAMESPACE | 133 +- NEWS | 371 ++--- R/0-onLoad.R | 16 R/1-setGeneric.R | 118 - R/BuyseTTEM.R | 1290 +++++++++---------- R/BuyseTest-Peron.R | 630 ++++----- R/BuyseTest-check.R | 916 ++++++------- R/BuyseTest-inference.R | 882 ++++++------- R/BuyseTest-initialization.R | 1355 ++++++++++---------- R/BuyseTest-package.R | 91 - R/BuyseTest-print.R | 316 ++-- R/BuyseTest.R | 1354 ++++++++++---------- R/BuyseTest.options.R | 208 +-- R/PairScore.R | 106 - R/RcppExports.R | 414 +++--- R/S4-BuysePower-show.R | 88 - R/S4-BuysePower-summary.R | 402 +++--- R/S4-BuysePower.R | 134 +- R/S4-BuyseTest-coef.R | 306 ++-- R/S4-BuyseTest-confint.R | 1518 +++++++++++----------- R/S4-BuyseTest-get.R | 1287 +++++++++---------- R/S4-BuyseTest-sensitivity.R |only R/S4-BuyseTest-show.R | 98 - R/S4-BuyseTest-summary.R | 1056 +++++++-------- R/S4-BuyseTest.R | 541 ++++---- R/S4-BuyseTest.options.R | 424 +++--- R/auc.R | 584 ++++---- R/constStrata.R | 176 +- R/discreteRoot.R | 532 ++++---- R/iid.prodlim.R | 372 ++--- R/normexp.R | 416 +++--- R/powerBuyseTest.R | 956 +++++++------- R/simBuyseTest.R | 1076 ++++++++-------- R/simCompetingRisks.R | 282 ++-- R/valid.R | 950 +++++++------- build/vignette.rds |binary inst/CITATION | 96 - inst/doc/overview.pdf |binary inst/doc/overview.pdf.asis | 10 inst/optim-iid/FCT_calcOnePair.h | 1724 +++++++++++++------------- man/BuyseTTEM.Rd | 148 +- man/BuyseTest-package.Rd | 74 - man/BuyseTest.Rd | 582 ++++---- man/BuyseTest.options-class.Rd | 36 man/BuyseTest.options-methods.Rd | 44 man/BuyseTest.options.Rd | 70 - man/GPC_cpp.Rd | 336 ++--- man/S4BuysePower-class.Rd | 36 man/S4BuysePower-show.Rd | 50 man/S4BuysePower-summary.Rd | 118 - man/S4BuyseTest-class.Rd | 36 man/S4BuyseTest-coef.Rd | 96 - man/S4BuyseTest-confint.Rd | 224 +-- man/S4BuyseTest-getCount.Rd | 56 man/S4BuyseTest-getIid.Rd | 94 - man/S4BuyseTest-getPairScore.Rd | 286 ++-- man/S4BuyseTest-getPseudovalue.Rd | 138 +- man/S4BuyseTest-getSurvival.Rd | 116 - man/S4BuyseTest-sensitivity.Rd |only man/S4BuyseTest-show.Rd | 50 man/S4BuyseTest-summary.Rd | 284 ++-- man/auc.Rd | 140 +- man/autoplot.sensitivity.Rd |only man/boot2pvalue.Rd | 170 +- man/calcIntegralSurv2_cpp.Rd | 94 - man/coef.BuyseTestAuc.Rd | 38 man/confint.BuyseTestAuc.Rd | 38 man/constStrata.Rd | 120 - man/discreteRoot.Rd | 62 man/dot-calcIntegralCif_cpp.Rd | 98 - man/dot-calcIntegralSurv_cpp.Rd | 84 - man/dot-colCenter_cpp.Rd | 38 man/dot-colMultiply_cpp.Rd | 38 man/dot-colScale_cpp.Rd | 38 man/dot-rowCenter_cpp.Rd | 38 man/dot-rowCumProd_cpp.Rd | 34 man/dot-rowCumSum_cpp.Rd | 34 man/dot-rowMultiply_cpp.Rd | 38 man/dot-rowScale_cpp.Rd | 38 man/iid.prodlim.Rd | 82 - man/internal-initialization.Rd | 242 +-- man/internal-print.Rd | 82 - man/pnormexp.Rd | 58 man/pnormweibull.Rd | 64 man/powerBuyseTest.Rd | 206 +-- man/predict.BuyseTTEM.Rd | 52 man/qnormexp.Rd | 46 man/qnormweibull.Rd | 76 - man/simCompetingRisks.Rd | 208 +-- man/simulation.Rd | 292 ++-- man/testArgs.Rd | 86 - man/validFCTs.Rd | 310 ++-- tests/testthat.R | 81 - tests/testthat/test-BuysePower.R | 394 ++--- tests/testthat/test-BuyseTTEM.R | 504 +++---- tests/testthat/test-BuyseTest-CR.R | 466 +++---- tests/testthat/test-BuyseTest-PairScore.R | 238 +-- tests/testthat/test-BuyseTest-Pairs.R | 1194 +++++++++--------- tests/testthat/test-BuyseTest-checkValues.R | 1002 +++++++-------- tests/testthat/test-BuyseTest-correctionTTE.R | 446 +++--- tests/testthat/test-BuyseTest-engine.R | 208 +-- tests/testthat/test-BuyseTest-iid.R | 1432 ++++++++++----------- tests/testthat/test-BuyseTest-neutralAsUnif.R | 204 +-- tests/testthat/test-BuyseTest-operator.R | 199 +-- tests/testthat/test-BuyseTest-previousBug.R | 988 +++++++------- tests/testthat/test-BuyseTest-resampling.R | 1198 +++++++++--------- tests/testthat/test-auc.R | 170 +- tests/testthat/test-initSurvival.R | 438 +++--- tests/testthat/test-initThreshold.R | 168 +- tests/testthat/test-otherPackages.R | 296 ++-- vignettes/overview.pdf.asis | 10 vignettes/vignette_CR.Rmd | 146 +- 114 files changed, 18617 insertions(+), 18456 deletions(-)
Title: Functions to Work with NCBI Accessions and Taxonomy
Description: Functions for assigning taxonomy to NCBI accession numbers and taxon IDs based on NCBI's accession2taxid and taxdump files. This package allows the user to downloads NCBI data dumps and create a local database for fast and local taxonomic assignment.
Author: Scott Sherrill-Mix [aut, cre]
Maintainer: Scott Sherrill-Mix <shescott@upenn.edu>
Diff between taxonomizr versions 0.6.0 dated 2021-02-08 and 0.7.1 dated 2021-04-23
taxonomizr-0.6.0/taxonomizr/tests/testthat/fakeNamesNodes.tar.gz |only taxonomizr-0.7.1/taxonomizr/DESCRIPTION | 8 taxonomizr-0.7.1/taxonomizr/MD5 | 31 +- taxonomizr-0.7.1/taxonomizr/NAMESPACE | 1 taxonomizr-0.7.1/taxonomizr/R/taxa.R | 153 ++++++++-- taxonomizr-0.7.1/taxonomizr/README.md | 60 +++ taxonomizr-0.7.1/taxonomizr/build/vignette.rds |binary taxonomizr-0.7.1/taxonomizr/inst/doc/usage.R | 3 taxonomizr-0.7.1/taxonomizr/inst/doc/usage.Rmd | 59 +++ taxonomizr-0.7.1/taxonomizr/inst/doc/usage.html | 76 ++++ taxonomizr-0.7.1/taxonomizr/inst/testdata |only taxonomizr-0.7.1/taxonomizr/man/getRawTaxonomy.Rd |only taxonomizr-0.7.1/taxonomizr/man/prepareDatabase.Rd | 10 taxonomizr-0.7.1/taxonomizr/man/read.accession2taxid.Rd | 2 taxonomizr-0.7.1/taxonomizr/man/taxonomizr-package.Rd | 2 taxonomizr-0.7.1/taxonomizr/man/taxonomizrSwitch.Rd | 4 taxonomizr-0.7.1/taxonomizr/tests/testthat/test_taxa.R | 110 ++++++- taxonomizr-0.7.1/taxonomizr/vignettes/usage.Rmd | 59 +++ 18 files changed, 514 insertions(+), 64 deletions(-)
Title: Utilities for Scheduling Functions to Execute Later with Event
Loops
Description: Executes arbitrary R or C functions some time after the current
time, after the R execution stack has emptied. The functions are scheduled
in an event loop.
Author: Winston Chang [aut, cre],
Joe Cheng [aut],
RStudio [cph],
Marcus Geelnard [ctb, cph] (TinyCThread library,
https://tinycthread.github.io/),
Evan Nemerson [ctb, cph] (TinyCThread library,
https://tinycthread.github.io/)
Maintainer: Winston Chang <winston@rstudio.com>
Diff between later versions 1.1.0.1 dated 2020-06-05 and 1.2.0 dated 2021-04-23
DESCRIPTION | 25 +- LICENSE |only MD5 | 51 ++--- NEWS.md | 10 + R/RcppExports.R | 4 README.md | 11 - build/vignette.rds |binary configure | 9 inst/doc/later-cpp.html | 407 ++++++++++++++++++------------------------ inst/include/later.h | 15 + src/Makevars.in | 2 src/RcppExports.cpp | 10 + src/callback_registry.cpp | 41 +--- src/callback_registry.h | 19 - src/callback_registry_table.h | 13 - src/debug.cpp | 10 + src/init.c | 6 src/later.cpp | 10 - src/later.h | 8 src/later_posix.cpp | 66 +++++- src/later_win32.cpp | 4 src/optional.h | 21 +- src/threadutils.h | 26 +- src/timer_posix.cpp | 10 - src/timer_posix.h | 12 - src/timestamp.h | 10 - tests/testthat/test-run_now.R | 9 27 files changed, 438 insertions(+), 371 deletions(-)
Title: Easily Work with 'Font Awesome' Icons
Description: Easily and flexibly insert 'Font Awesome' icons into 'R Markdown'
documents and 'Shiny' apps. These icons can be inserted into HTML content
through inline 'SVG' tags or 'i' tags. There is also a utility function for
exporting 'Font Awesome' icons as 'PNG' images for those situations where
raster graphics are needed.
Author: Richard Iannone [aut, cre] (<https://orcid.org/0000-0003-3925-190X>),
Christophe Dervieux [ctb] (<https://orcid.org/0000-0003-4474-2498>),
Winston Chang [ctb],
Dave Gandy [ctb, cph] (Font-Awesome font),
RStudio [cph, fnd]
Maintainer: Richard Iannone <rich@rstudio.com>
Diff between fontawesome versions 0.2.0 dated 2021-03-28 and 0.2.1 dated 2021-04-23
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/fa.R | 24 +++++++++++++----------- man/fa.Rd | 15 ++++++++------- tests/testthat/test-fa_icon.R | 4 ++-- 6 files changed, 35 insertions(+), 28 deletions(-)
Title: RUV-III-C
Description: Variations of Remove Unwanted Variation-III (RUV-III) known as RUV-III-C (RUV-III Complete). RUV-III performs normalisation using negative control variables and replication. RUV-III-C extends this method to cases where the data contains missing values, by applying RUV-III to complete subsets of the data. Originally designed for SWATH-MS proteomics datasets.
Poulos et al. (2020) <doi:10.1038/s41467-020-17641-3>.
Author: Rohan Shah [aut, cre],
Sean Peters [ctb],
Qing Zhong [ctb],
Children's Medical Research Institute [cph]
Maintainer: Rohan Shah <rshah@cmri.org.au>
Diff between RUVIIIC versions 1.0.18 dated 2021-04-10 and 1.0.19 dated 2021-04-23
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/RUVIIIC.cpp | 2 +- src/RUVIIIC_Varying.cpp | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Quantile-Quantile Plot Extensions for 'ggplot2'
Description: Extensions of 'ggplot2' Q-Q plot functionalities.
Author: Alexandre Almeida [aut],
Adam Loy [aut, cre],
Heike Hofmann [aut]
Maintainer: Adam Loy <loyad01@gmail.com>
Diff between qqplotr versions 0.0.4 dated 2020-02-04 and 0.0.5 dated 2021-04-23
qqplotr-0.0.4/qqplotr/README.md |only qqplotr-0.0.5/qqplotr/DESCRIPTION | 12 qqplotr-0.0.5/qqplotr/MD5 | 74 - qqplotr-0.0.5/qqplotr/NEWS.md | 6 qqplotr-0.0.5/qqplotr/R/stat_pp_point.R | 8 qqplotr-0.0.5/qqplotr/R/stat_qq_band.R | 4 qqplotr-0.0.5/qqplotr/R/stat_qq_line.R | 2 qqplotr-0.0.5/qqplotr/R/stat_qq_point.R | 17 qqplotr-0.0.5/qqplotr/build/vignette.rds |binary qqplotr-0.0.5/qqplotr/inst/CITATION | 21 qqplotr-0.0.5/qqplotr/inst/doc/introduction.Rmd | 6 qqplotr-0.0.5/qqplotr/inst/doc/introduction.html | 450 +++------- qqplotr-0.0.5/qqplotr/man/GeomQqBand.Rd | 4 qqplotr-0.0.5/qqplotr/man/StatPpBand.Rd | 4 qqplotr-0.0.5/qqplotr/man/StatPpLine.Rd | 4 qqplotr-0.0.5/qqplotr/man/StatPpPoint.Rd | 4 qqplotr-0.0.5/qqplotr/man/StatQqBand.Rd | 4 qqplotr-0.0.5/qqplotr/man/StatQqLine.Rd | 4 qqplotr-0.0.5/qqplotr/man/StatQqPoint.Rd | 4 qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-10-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-11-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-12-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-13-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-14-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-6-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-7-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-8-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/README-unnamed-chunk-9-1.png |binary qqplotr-0.0.5/qqplotr/man/figures/logo.png |only qqplotr-0.0.5/qqplotr/man/iowa.Rd | 6 qqplotr-0.0.5/qqplotr/man/longjump.Rd | 6 qqplotr-0.0.5/qqplotr/man/qqplotr.Rd | 1 qqplotr-0.0.5/qqplotr/man/stat_pp_band.Rd | 32 qqplotr-0.0.5/qqplotr/man/stat_pp_line.Rd | 27 qqplotr-0.0.5/qqplotr/man/stat_pp_point.Rd | 31 qqplotr-0.0.5/qqplotr/man/stat_qq_band.Rd | 72 + qqplotr-0.0.5/qqplotr/man/stat_qq_line.Rd | 35 qqplotr-0.0.5/qqplotr/man/stat_qq_point.Rd | 35 qqplotr-0.0.5/qqplotr/vignettes/introduction.Rmd | 6 39 files changed, 421 insertions(+), 458 deletions(-)
Title: Estimation and Prediction Methods for High-Dimensional Mixed
Frequency Time Series Data
Description: The 'midasml' package implements estimation and prediction methods for high-dimensional mixed-frequency (MIDAS) time-series and panel data regression models. The regularized MIDAS models are estimated using orthogonal (e.g. Legendre) polynomials and sparse-group LASSO (sg-LASSO) estimator. For more information on the `midasml' approach see Babii, Ghysels, and Striaukas (2021, JBES forthcoming) <doi:10.1080/07350015.2021.1899933>. The package is equipped with the fast implementation of the sg-LASSO estimator by means of proximal block coordinate descent. High-dimensional mixed frequency time-series data can also be easily manipulated with functions provided in the package.
Author: Jonas Striaukas [cre, aut],
Andrii Babii [aut],
Eric Ghysels [aut],
Alex Kostrov [ctb] (Contributions to analytical gradients for
non-linear low-dimensional MIDAS estimation code)
Maintainer: Jonas Striaukas <jonas.striaukas@gmail.com>
Diff between midasml versions 0.1.3 dated 2021-04-22 and 0.1.4 dated 2021-04-23
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/sglfit.R | 2 +- man/sglfit.Rd | 2 +- src/maxlambda.f90 | 6 +++--- src/sglfitF.f90 | 12 ++++++------ 6 files changed, 19 insertions(+), 19 deletions(-)
Title: Markov Chain-Based Cost-Optimal Control Charts
Description: Functions for cost-optimal control charts with a focus on health care applications. Compared to assumptions in traditional control chart theory, here, we allow random shift sizes, random repair and random sampling times. The package focuses on X-bar charts with a sample size of 1 (representing the monitoring of a single patient at a time). The methods are described in Zempleni et al. (2004) <doi:10.1002/asmb.521>, Dobi and Zempleni (2019) <doi:10.1002/qre.2518> and Dobi and Zempleni (2019) <http://ac.inf.elte.hu/Vol_049_2019/129_49.pdf>.
Author: Balazs Dobi & Andras Zempleni
Maintainer: Balazs Dobi <dobibalazs@inf.elte.hu>
Diff between Markovchart versions 1.1.1 dated 2020-12-16 and 2.0.0 dated 2021-04-23
Markovchart-1.1.1/Markovchart/R/Markovchart_functions_20201216.r |only Markovchart-1.1.1/Markovchart/man/Markovcontour.Rd |only Markovchart-2.0.0/Markovchart/DESCRIPTION | 9 Markovchart-2.0.0/Markovchart/MD5 | 13 Markovchart-2.0.0/Markovchart/NAMESPACE | 4 Markovchart-2.0.0/Markovchart/R/Markovchart_functions_20210310.r |only Markovchart-2.0.0/Markovchart/man/Markovchart.Rd | 167 ++-------- Markovchart-2.0.0/Markovchart/man/Markovsim.Rd | 14 Markovchart-2.0.0/Markovchart/man/Markovstat.Rd |only Markovchart-2.0.0/Markovchart/man/plot.Markov_grid.Rd |only 10 files changed, 69 insertions(+), 138 deletions(-)
Title: KMunicate-Style Kaplan–Meier Plots
Description: Produce Kaplan–Meier plots in the style recommended
following the KMunicate study by Morris et al. (2019)
<doi:10.1136/bmjopen-2019-030215>. The KMunicate style consists of
Kaplan-Meier curves with confidence intervals to quantify uncertainty
and an extended risk table (per treatment arm) depicting the number of
study subjects at risk, events, and censored observations over time.
The resulting plots are built using 'ggplot2' and can be further
customised to a certain extent, including themes, fonts, and colour
scales.
Author: Alessandro Gasparini [aut, cre, cph]
(<https://orcid.org/0000-0002-8319-7624>),
Ary Serpa Neto [ctb]
Maintainer: Alessandro Gasparini <alessandro.gasparini@ki.se>
Diff between KMunicate versions 0.2.0 dated 2020-11-16 and 0.2.1 dated 2021-04-23
DESCRIPTION | 55 ++-- MD5 | 36 +- NEWS.md | 6 README.md | 8 build/partial.rdb |binary build/vignette.rds |binary inst/doc/KMunicate.R | 13 - inst/doc/KMunicate.Rmd | 20 - inst/doc/KMunicate.html | 343 ++++------------------------ man/figures/README-brcancer-1.png |binary man/figures/README-brcancer-KMunicate-1.png |binary man/figures/README-brcancer-NULL-1.png |binary man/figures/README-brcancer-reverse-1.png |binary man/figures/README-brcancer-survfit-1.png |binary man/figures/README-cancer-1.png |binary man/figures/README-cancer-single-1.png |binary man/figures/README-cancer-single-ff-1.png |binary tests/testthat/test-output.R | 12 vignettes/KMunicate.Rmd | 20 - 19 files changed, 130 insertions(+), 383 deletions(-)
Title: Identification of Parental Lines via Genomic Prediction
Description: Combining genomic prediction with Monte Carlo simulation, three different
strategies are implemented to select parental lines for multiple traits in plant
breeding. The selection strategies include (i) GEBV-O considers only genomic
estimated breeding values (GEBVs) of the candidate individuals; (ii) GD-O
considers only genomic diversity (GD) of the candidate individuals; and (iii)
GEBV-GD considers both GEBV and GD. The above method can be seen in Chung PY,
Liao CT (2020) <doi:10.1371/journal.pone.0243159>. Multi-trait genomic best
linear unbiased prediction (MT-GBLUP) model is used to simultaneously estimate
GEBVs of the target traits, and then a selection index is adopted to evaluate
the composite performance of an individual.
Author: Ping-Yuan Chung [cre],
Chen-Tuo Liao [aut]
Maintainer: Ping-Yuan Chung <r06621204@ntu.edu.tw>
Diff between IPLGP versions 1.1.0 dated 2021-04-20 and 1.2.0 dated 2021-04-23
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/output.best.R | 2 +- R/simu.GDO.R | 5 +++-- R/simu.GEBVGD.R | 5 +++-- R/simu.GEBVO.R | 5 +++-- man/simu.GDO.Rd | 2 +- man/simu.GEBVGD.Rd | 2 +- man/simu.GEBVO.Rd | 2 +- 9 files changed, 24 insertions(+), 21 deletions(-)
Title: Easy Use of 'GADM' Maps
Description: Manipulate, assemble, export <https://gadm.org/> maps. Create 'choropleth', 'isopleth', dots plot, proportional dots,
dot-density and more.
Author: Jean Pierre Decorps [aut, cre]
Maintainer: Jean Pierre Decorps <jean.pierre.decorps@gmail.com>
Diff between GADMTools versions 3.8-1 dated 2020-03-05 and 3.8-2 dated 2021-04-23
DESCRIPTION | 8 MD5 | 28 NEWS | 5 README.md | 8 inst/doc/GADMTools_GRAPHICS.R | 8 inst/doc/GADMTools_GRAPHICS.pdf |binary inst/doc/GADMTools_ISO_3166-1_alpha-3.R | 6 inst/doc/GADMTools_ISO_3166-1_alpha-3.Rmd | 4 inst/doc/GADMTools_ISO_3166-1_alpha-3.pdf | 440 +-- inst/doc/GADMTools_Manipulating_Shapefiles.R | 36 inst/doc/GADMTools_Manipulating_Shapefiles.Rmd | 12 inst/doc/GADMTools_Manipulating_Shapefiles.pdf | 3227 ++++++++++++------------ man/GADMTools-package.Rd | 4 vignettes/GADMTools_ISO_3166-1_alpha-3.Rmd | 4 vignettes/GADMTools_Manipulating_Shapefiles.Rmd | 12 15 files changed, 2011 insertions(+), 1791 deletions(-)
Title: Efficient Determination of Sample Size in Balanced Design of
Experiments
Description: For a balanced design of experiments, this package calculates the sample size required to detect a certain standardized effect size, under a significance level. This package also provides three graphs; detectable standardized effect size vs power, sample size vs detectable standardized effect size, and sample size vs power, which show the mutual relationship between the sample size, power and the detectable standardized effect size. The detailed procedure is described in R. V. Lenth (2006-9) <https://homepage.divms.uiowa.edu/~rlenth/Power/>, Y. B. Lim (1998), M. A. Kastenbaum, D. G. Hoel and K. O. Bowman (1970) <doi:10.2307/2334851>, and Douglas C. Montgomery (2013, ISBN: 0849323312).
Author: Jong Hee Chung [aut, cre],
Yong Bin Lim [aut],
Donghoh Kim [ctb]
Maintainer: Jong Hee Chung <jochung947@gmail.com>
Diff between BDEsize versions 1.2 dated 2019-11-01 and 1.5 dated 2021-04-23
BDEsize-1.2/BDEsize/R/BDEsizeApp.R |only BDEsize-1.2/BDEsize/man/BDEsizeApp.Rd |only BDEsize-1.2/BDEsize/man/fsize.Rd |only BDEsize-1.2/BDEsize/man/sizelist.Rd |only BDEsize-1.2/BDEsize/man/sizelist.split.Rd |only BDEsize-1.5/BDEsize/DESCRIPTION | 27 - BDEsize-1.5/BDEsize/MD5 | 48 +- BDEsize-1.5/BDEsize/NAMESPACE | 19 - BDEsize-1.5/BDEsize/R/Size.2levFr.R | 192 +++++----- BDEsize-1.5/BDEsize/R/Size.Block.R | 199 ++++------- BDEsize-1.5/BDEsize/R/Size.Full.R | 197 ++++------- BDEsize-1.5/BDEsize/R/Size.Split.R | 285 +++++++--------- BDEsize-1.5/BDEsize/R/fsize.R | 40 -- BDEsize-1.5/BDEsize/R/plots.2levFr.R | 319 +++++++----------- BDEsize-1.5/BDEsize/R/plots.Block.R | 366 ++++++++++---------- BDEsize-1.5/BDEsize/R/plots.Full.R | 366 ++++++++++---------- BDEsize-1.5/BDEsize/R/plots.Split.R | 489 +++++++++++++++------------- BDEsize-1.5/BDEsize/R/sizelist.R | 68 --- BDEsize-1.5/BDEsize/R/sizelist.split.R | 121 +----- BDEsize-1.5/BDEsize/man/BDEsize-internal.Rd |only BDEsize-1.5/BDEsize/man/Size.2levFr.Rd | 85 ++-- BDEsize-1.5/BDEsize/man/Size.Block.Rd | 86 ++-- BDEsize-1.5/BDEsize/man/Size.Full.Rd | 80 ++-- BDEsize-1.5/BDEsize/man/Size.Split.Rd | 95 ++--- BDEsize-1.5/BDEsize/man/plots.2levFr.Rd | 66 +-- BDEsize-1.5/BDEsize/man/plots.Block.Rd | 88 ++--- BDEsize-1.5/BDEsize/man/plots.Full.Rd | 87 ++-- BDEsize-1.5/BDEsize/man/plots.Split.Rd | 77 ++-- 28 files changed, 1576 insertions(+), 1824 deletions(-)
Title: Basic R Input Output
Description: Functions to handle basic input output, these functions always
read and write UTF-8 (8-bit Unicode Transformation Format) files and provide
more explicit control over line endings.
Author: Jim Hester [aut, cre] (<https://orcid.org/0000-0002-2739-7082>),
RStudio [cph, fnd]
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between brio versions 1.1.1 dated 2021-01-20 and 1.1.2 dated 2021-04-23
DESCRIPTION | 7 +++---- MD5 | 23 ++++++++++++----------- NEWS.md | 6 ++++++ README.md | 28 ++++++++++++++++------------ src/brio.c | 15 ++++++++------- src/brio.h | 4 ++-- src/file_line_endings.c | 6 ++---- src/read_file.c | 17 ++++++++++------- src/read_file_raw.c | 20 +++++++++++++------- src/read_lines.c | 17 ++++++++++++----- src/write_file.c | 6 ++---- src/write_lines.c | 6 ++---- tests/testthat/test-utf8.R |only 13 files changed, 88 insertions(+), 67 deletions(-)
More information about materialmodifier at CRAN
Permanent link
Title: 'NetCDF' Geometry and Time Series
Description: Tools to create time series and geometry 'NetCDF' files.
Author: David Blodgett [aut, cre],
Luke Winslow [ctb]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between ncdfgeom versions 1.1.0 dated 2019-08-28 and 1.1.1 dated 2021-04-23
DESCRIPTION | 17 MD5 | 64 NEWS.md | 12 R/read_timeseries_dsg.R | 463 +++---- R/write_attribute_data.R | 4 R/write_geometry.R | 2 R/write_point_dsg.R | 228 +-- R/write_timeseries_dsg.R | 486 +++---- README.md | 100 - build/vignette.rds |binary inst/doc/geometry.R | 94 - inst/doc/geometry.Rmd | 166 +- inst/doc/geometry.html | 1561 ++++++++++-------------- inst/doc/ncdfgeom.R | 430 +++--- inst/doc/ncdfgeom.Rmd | 584 ++++---- inst/doc/ncdfgeom.html | 1196 +++++++----------- inst/doc/timeseries.R | 162 +- inst/doc/timeseries.html | 773 ++++------- man/read_timeseries_dsg.Rd | 6 man/write_attribute_data.Rd | 11 man/write_geometry.Rd | 10 man/write_timeseries_dsg.Rd | 26 tests/testthat/data/geom_examples.md | 816 ++++++------ tests/testthat/helper-functions.R | 264 ++-- tests/testthat/test_check_ncdf.R | 3 tests/testthat/test_geom_examples.R | 78 - tests/testthat/test_line.R | 2 tests/testthat/test_poly.R | 500 +++---- tests/testthat/test_read-write_timeseries_dsg.R | 658 +++++----- vignettes/geometry.Rmd | 166 +- vignettes/geometry_cache |only vignettes/ncdfgeom.Rmd | 584 ++++---- 32 files changed, 4543 insertions(+), 4923 deletions(-)
Title: Shadow Text Grob and Layer
Description: Implement shadowtextGrob() for 'grid' and geom_shadowtext() layer for 'ggplot2'.
These functions create/draw text grob with background shadow.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between shadowtext versions 0.0.7 dated 2019-11-06 and 0.0.8 dated 2021-04-23
DESCRIPTION | 11 ++-- MD5 | 14 ++--- build/vignette.rds |binary inst/doc/shadowtext.R | 8 +-- inst/doc/shadowtext.html | 115 +++++++++++++++++++++++----------------------- man/element_shadowtext.Rd | 18 +++++-- man/geom_shadowtext.Rd | 18 +++++-- man/shadowtextGrob.Rd | 43 +++++++++++++---- 8 files changed, 135 insertions(+), 92 deletions(-)
Title: Scatter Pie Plot
Description: Creates scatterpie plots, especially useful for plotting pies on a map.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between scatterpie versions 0.1.5 dated 2020-09-09 and 0.1.6 dated 2021-04-23
DESCRIPTION | 9 +-- MD5 | 6 +- build/vignette.rds |binary inst/doc/scatterpie.html | 141 ++++++++++++++++++----------------------------- 4 files changed, 61 insertions(+), 95 deletions(-)
Title: Indices and Graphics for Assess Seed Germination Process
Description: A collection of different indices and visualization techniques for evaluate the seed germination process in ecophysiological studies (Lozano-Isla et al. 2019) <doi:10.1111/1440-1703.1275>.
Author: Flavio Lozano-Isla [aut, cre] (<https://orcid.org/0000-0002-0714-669X>),
Omar Benites Alfaro [aut] (<https://orcid.org/0000-0002-6852-9598>),
Denise Garcia de Santana [aut],
Marli A. Ranal [aut],
Marcelo F. Pompelli [aut, ths]
(<https://orcid.org/0000-0002-4408-6374>),
Federal University of Pernambuco [cph] (Register of application),
Federal Rural University of Pernambuco [cph] (Post Graduate Program)
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between GerminaR versions 2.0.1 dated 2020-10-25 and 2.1.1 dated 2021-04-23
GerminaR-2.0.1/GerminaR/inst/doc/coding.R |only GerminaR-2.0.1/GerminaR/inst/doc/coding.Rmd |only GerminaR-2.0.1/GerminaR/inst/doc/coding.html |only GerminaR-2.0.1/GerminaR/vignettes/coding.Rmd |only GerminaR-2.1.1/GerminaR/DESCRIPTION | 16 GerminaR-2.1.1/GerminaR/LICENSE | 4 GerminaR-2.1.1/GerminaR/MD5 | 81 GerminaR-2.1.1/GerminaR/NAMESPACE | 27 GerminaR-2.1.1/GerminaR/NEWS.md | 34 GerminaR-2.1.1/GerminaR/R/GerminaQuant.R | 27 GerminaR-2.1.1/GerminaR/R/fplot.R | 450 +- GerminaR-2.1.1/GerminaR/R/ger_boxp.R | 181 - GerminaR-2.1.1/GerminaR/R/ger_indices.R | 620 +-- GerminaR-2.1.1/GerminaR/R/ger_intime.R | 204 - GerminaR-2.1.1/GerminaR/R/ger_summary.R | 6 GerminaR-2.1.1/GerminaR/R/ger_testcomp.R | 260 - GerminaR-2.1.1/GerminaR/R/osmp.R | 88 GerminaR-2.1.1/GerminaR/R/prosopis.R | 38 GerminaR-2.1.1/GerminaR/R/utils.R | 34 GerminaR-2.1.1/GerminaR/R/webTable.R |only GerminaR-2.1.1/GerminaR/README.md | 13 GerminaR-2.1.1/GerminaR/build/vignette.rds |binary GerminaR-2.1.1/GerminaR/inst/CITATION | 42 GerminaR-2.1.1/GerminaR/inst/GerminaQuant/pkgs.R |only GerminaR-2.1.1/GerminaR/inst/GerminaQuant/rsconnect/shinyapps.io/flavjack/germinaquant.dcf | 4 GerminaR-2.1.1/GerminaR/inst/GerminaQuant/server.R | 624 +-- GerminaR-2.1.1/GerminaR/inst/GerminaQuant/ui.R | 802 ++-- GerminaR-2.1.1/GerminaR/inst/GerminaQuant/www/analytics.html | 17 GerminaR-2.1.1/GerminaR/inst/GerminaQuant/www/custom.css | 10 GerminaR-2.1.1/GerminaR/inst/doc/GerminaQuant.R |only GerminaR-2.1.1/GerminaR/inst/doc/GerminaQuant.Rmd |only GerminaR-2.1.1/GerminaR/inst/doc/GerminaQuant.html |only GerminaR-2.1.1/GerminaR/inst/doc/GerminaR.R | 297 + GerminaR-2.1.1/GerminaR/inst/doc/GerminaR.Rmd | 304 + GerminaR-2.1.1/GerminaR/inst/doc/GerminaR.html | 1716 +++++++--- GerminaR-2.1.1/GerminaR/inst/doc/intro.R |only GerminaR-2.1.1/GerminaR/inst/doc/intro.Rmd |only GerminaR-2.1.1/GerminaR/inst/doc/intro.html |only GerminaR-2.1.1/GerminaR/inst/rstudio/addins.dcf | 6 GerminaR-2.1.1/GerminaR/man/GerminaQuant.Rd | 13 GerminaR-2.1.1/GerminaR/man/fplot.Rd | 80 GerminaR-2.1.1/GerminaR/man/ger_boxp.Rd | 51 GerminaR-2.1.1/GerminaR/man/ger_summary.Rd | 4 GerminaR-2.1.1/GerminaR/man/webTable.Rd |only GerminaR-2.1.1/GerminaR/vignettes/GerminaQuant.Rmd |only GerminaR-2.1.1/GerminaR/vignettes/GerminaR.Rmd | 304 + GerminaR-2.1.1/GerminaR/vignettes/files/book.bib | 542 +-- GerminaR-2.1.1/GerminaR/vignettes/files/pkgs.bib | 738 ++-- GerminaR-2.1.1/GerminaR/vignettes/intro.Rmd |only 49 files changed, 4412 insertions(+), 3225 deletions(-)
Title: Landscape Visualizations in R and 'Unity'
Description: Functions for the retrieval, manipulation, and visualization of
'geospatial' data, with an aim towards producing '3D' landscape
visualizations in the 'Unity' '3D' rendering engine. Functions are also
provided for retrieving elevation data and base map tiles from the 'USGS'
National Map ('<https://apps.nationalmap.gov/services/>').
Author: Michael Mahoney [aut, cre] (<https://orcid.org/0000-0003-2402-304X>),
Mike Johnson [rev] (Mike reviewed the package (v. 0.2.1) for rOpenSci,
see <https://github.com/ropensci/software-review/issues/416>),
Sydney Foks [rev] (Sydney reviewed the package (v. 0.2.1) for rOpenSci,
see <https://github.com/ropensci/software-review/issues/416>)
Maintainer: Michael Mahoney <mike.mahoney.218@gmail.com>
Diff between terrainr versions 0.3.1 dated 2021-02-23 and 0.4.0 dated 2021-04-23
DESCRIPTION | 7 - MD5 | 42 +++---- NEWS.md | 36 ++++++ R/add_bbox_buffer.R | 2 R/calc_haversine_distance.R | 11 -- R/geom_spatial_rgb.R | 1 R/get_tiles.R | 53 +++++---- R/hit_api.R | 6 - R/merge_rasters.R | 143 +++++++++++++++++++++++++- R/vector_to_overlay.R | 34 ++---- README.md | 27 ++-- build/vignette.rds |binary inst/doc/overview.html | 9 + inst/doc/unity_instructions.Rmd | 2 inst/doc/unity_instructions.html | 11 +- man/calc_haversine_distance.Rd | 6 - man/get_tiles.Rd | 12 -- man/vector_to_overlay.Rd | 12 +- tests/testthat/test-2-get_tiles_3dep.R | 33 ++++++ tests/testthat/test-calc_haversine_distance.R | 11 -- tests/testthat/test-vector_to_overlay.R | 14 ++ vignettes/unity_instructions.Rmd | 2 22 files changed, 337 insertions(+), 137 deletions(-)
Title: Download and Merge Single-Cell RNA-Seq Data from the PanglaoDB
Database
Description: Download and merge labeled single-cell RNA-seq data from the PanglaoDB <https://panglaodb.se/> into a Seurat object.
Author: Daniel Osorio [aut, cre] (<https://orcid.org/0000-0003-4424-8422>),
Marieke Kuijjer [aut] (<https://orcid.org/0000-0001-6280-3130>),
James J. Cai [aut] (<https://orcid.org/0000-0002-8081-6725>)
Maintainer: Daniel Osorio <daniecos@uio.no>
Diff between rPanglaoDB versions 0.1.0 dated 2021-04-15 and 0.2.0 dated 2021-04-23
DESCRIPTION | 7 +- MD5 | 12 ++- R/getSamples.R | 33 ++++++++- README.md | 182 ++++++++++++++++++++++++++++++++++++++++++++++++++++-- inst |only man/getSamples.Rd | 6 + 6 files changed, 225 insertions(+), 15 deletions(-)
Title: 3D Visualization Using OpenGL
Description: Provides medium to high level functions for 3D interactive graphics, including
functions modelled on base graphics (plot3d(), etc.) as well as functions for
constructing representations of geometric objects (cube3d(), etc.). Output
may be on screen using OpenGL, or to various standard 3D file formats including
WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Duncan Murdoch [aut, cre],
Daniel Adler [aut],
Oleg Nenadic [ctb],
Simon Urbanek [ctb],
Ming Chen [ctb],
Albrecht Gebhardt [ctb],
Ben Bolker [ctb],
Gabor Csardi [ctb],
Adam Strzelecki [ctb],
Alexander Senger [ctb],
The R Core Team [ctb, cph],
Dirk Eddelbuettel [ctb],
The authors of Shiny [cph],
The authors of knitr [cph],
Jeroen Ooms [ctb],
Yohann Demont [ctb],
Joshua Ulrich [ctb],
Xavier Fernandez i Marin [ctb],
George Helffrich [ctb],
Ivan Krylov [ctb]
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Diff between rgl versions 0.106.6 dated 2021-04-17 and 0.106.8 dated 2021-04-23
DESCRIPTION | 6 +-- MD5 | 28 +++++++------- NEWS.md | 16 ++++++++ R/clipMesh3d.R | 2 - R/merge.mesh3d.R | 22 ++++++++--- R/mesh3d.R | 19 +++++---- configure | 16 ++++---- configure.ac | 15 ++++--- inst/doc/WebGL.html | 26 ++++++------- inst/doc/pkgdown.html | 4 +- inst/doc/rgl.html | 36 +++++++++--------- inst/doc/transparency.html | 16 ++++---- inst/htmlwidgets/lib/CanvasMatrix/CanvasMatrix.min.js |only inst/htmlwidgets/lib/rglClass/rglClass.min.js |only src/Makevars.ucrt | 33 +++++----------- src/Makevars.win | 4 +- 16 files changed, 131 insertions(+), 112 deletions(-)
Title: Create Meme
Description: The word 'Meme' was originated from the book, 'The Selfish Gene', authored by Richard Dawkins (1976).
It is a unit of culture that is passed from one generation to another and correlates to the gene, the unit of physical heredity.
The internet memes are captioned photos that are intended to be funny, ridiculous.
Memes behave like infectious viruses and travel from person to person quickly through social media.
The 'meme' package allows users to make custom memes.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between meme versions 0.2.2 dated 2019-08-05 and 0.2.3 dated 2021-04-23
DESCRIPTION | 11 +-- MD5 | 12 +-- build/vignette.rds |binary inst/doc/meme.R | 32 ++++----- inst/doc/meme.html | 188 ++++++++++++++++++++++++++--------------------------- man/meme.Rd | 15 +++- man/print.meme.Rd | 36 ++++++++-- 7 files changed, 163 insertions(+), 131 deletions(-)
Title: Download Stats of R Packages
Description: Monthly download stats of 'CRAN' and 'Bioconductor' packages.
Download stats of 'CRAN' packages is from the 'RStudio' 'CRAN mirror', see <https://cranlogs.r-pkg.org:443>.
'Bioconductor' package download stats is at <https://bioconductor.org/packages/stats/>.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between dlstats versions 0.1.3 dated 2019-11-14 and 0.1.4 dated 2021-04-23
DESCRIPTION | 11 ++---- MD5 | 8 ++-- build/vignette.rds |binary inst/doc/dlstats.R | 8 ++-- inst/doc/dlstats.html | 91 +++++++++++++++++++++++++------------------------- 5 files changed, 59 insertions(+), 59 deletions(-)
Title: Embedded JavaScript and WebAssembly Engine for R
Description: An R interface to V8: Google's open source JavaScript and WebAssembly
engine. This package can be compiled either with V8 version 6 and up, a NodeJS
shared library, or the legacy 3.14/3.15 branch of V8.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between V8 versions 3.4.0 dated 2020-11-04 and 3.4.1 dated 2021-04-23
DESCRIPTION | 6 MD5 | 16 NEWS | 3 build/partial.rdb |binary build/vignette.rds |binary configure | 6 inst/doc/npm.html | 1392 +----------------------------------------------- inst/doc/v8_intro.html | 1394 +------------------------------------------------ src/bindings.cpp | 18 9 files changed, 93 insertions(+), 2742 deletions(-)
Title: Robust Multivariate Methods for High Dimensional Data
Description: Robust multivariate methods for high dimensional data including
outlier detection (Filzmoser and Todorov (2013) <doi:10.1016/j.ins.2012.10.017>),
robust sparse PCA (Croux et al. (2013) <doi:10.1080/00401706.2012.727746>, Todorov and Filzmoser (2013) <doi:10.1007/978-3-642-33042-1_31>),
robust PLS (Todorov and Filzmoser (2014) <doi:10.17713/ajs.v43i4.44>),
and robust sparse classification (Ortner et al. (2020) <doi:10.1007/s10618-019-00666-8>).
Author: Valentin Todorov [aut, cre] (<https://orcid.org/0000-0003-4215-0245>)
Maintainer: Valentin Todorov <valentin.todorov@chello.at>
Diff between rrcovHD versions 0.2-6 dated 2019-11-29 and 0.2-7 dated 2021-04-23
rrcovHD-0.2-6/rrcovHD/data/olitos.rda |only rrcovHD-0.2-6/rrcovHD/data/soil.rda |only rrcovHD-0.2-6/rrcovHD/man/olitos.Rd |only rrcovHD-0.2-6/rrcovHD/man/soil.Rd |only rrcovHD-0.2-7/rrcovHD/ChangeLog | 13 +++- rrcovHD-0.2-7/rrcovHD/DESCRIPTION | 18 +++--- rrcovHD-0.2-7/rrcovHD/MD5 | 63 ++++++++++------------ rrcovHD-0.2-7/rrcovHD/NAMESPACE | 1 rrcovHD-0.2-7/rrcovHD/build |only rrcovHD-0.2-7/rrcovHD/man/CSimca-class.Rd | 9 ++- rrcovHD-0.2-7/rrcovHD/man/CSimca.Rd | 9 ++- rrcovHD-0.2-7/rrcovHD/man/Outlier-class.Rd | 9 +-- rrcovHD-0.2-7/rrcovHD/man/OutlierMahdist-class.Rd | 14 +++- rrcovHD-0.2-7/rrcovHD/man/OutlierMahdist.Rd | 14 ++-- rrcovHD-0.2-7/rrcovHD/man/OutlierPCDist-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/OutlierPCDist.Rd | 11 ++- rrcovHD-0.2-7/rrcovHD/man/OutlierPCOut-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/OutlierPCOut.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/OutlierSign1-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/OutlierSign1.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/OutlierSign2-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/OutlierSign2.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/PredictSimca-class.Rd | 13 +++- rrcovHD-0.2-7/rrcovHD/man/PredictSosDisc-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/RSimca-class.Rd | 10 ++- rrcovHD-0.2-7/rrcovHD/man/RSimca.Rd | 5 + rrcovHD-0.2-7/rrcovHD/man/SPcaGrid-class.Rd | 20 +++++- rrcovHD-0.2-7/rrcovHD/man/SPcaGrid.Rd | 22 +++++-- rrcovHD-0.2-7/rrcovHD/man/Simca-class.Rd | 10 ++- rrcovHD-0.2-7/rrcovHD/man/SosDisc-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/SosDiscClassic-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/SosDiscRobust-class.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/SosDiscRobust.Rd | 7 +- rrcovHD-0.2-7/rrcovHD/man/SummarySimca-class.Rd | 13 +++- rrcovHD-0.2-7/rrcovHD/man/SummarySosDisc-class.Rd | 7 +- 35 files changed, 215 insertions(+), 130 deletions(-)
Title: Pattern-Oriented Modeling Framework for Coupled Niche-Population
Paleo-Climatic Models
Description: This extension of the poems pattern-oriented modeling (POM) framework
provides a collection of modules and functions customized for paleontological
time-scales, and optimized for single-generation transitions and large populations,
across multiple generations.
Author: Sean Haythorne [aut],
Julia Pilowsky [aut, cre] (<https://orcid.org/0000-0002-6376-2585>)
Maintainer: Julia Pilowsky <julia.pilowsky@adelaide.edu.au>
Diff between paleopop versions 2.1.0 dated 2021-04-22 and 2.1.1 dated 2021-04-23
DESCRIPTION | 8 ++--- MD5 | 12 ++++---- NEWS.md | 7 ++++ README.md | 36 ++++++++++++------------ inst/doc/bison_example.html | 4 +- man/figures/README-paleosimulator_example-1.png |binary tests/testthat/test-PaleoPopResults.R | 1 7 files changed, 38 insertions(+), 30 deletions(-)
Title: Nonparametric Regression via Smoothing Splines
Description: Multiple and generalized nonparametric regression using smoothing spline ANOVA models and generalized additive models, as described in Helwig (2020) <doi:10.4135/9781526421036885885>. Includes support for Gaussian and non-Gaussian responses, smoothers for multiple types of predictors, interactions between smoothers of mixed types, and eight different methods for smoothing parameter selection.
Author: Nathaniel E. Helwig <helwig@umn.edu>
Maintainer: Nathaniel E. Helwig <helwig@umn.edu>
Diff between npreg versions 1.0-5 dated 2020-11-30 and 1.0-6 dated 2021-04-23
npreg-1.0-5/npreg/R/basis_nom.R |only npreg-1.0-5/npreg/R/basis_ord.R |only npreg-1.0-5/npreg/R/basis_poly.R |only npreg-1.0-5/npreg/R/basis_sph.R |only npreg-1.0-5/npreg/R/basis_tps.R |only npreg-1.0-5/npreg/R/bin_sample.R |only npreg-1.0-5/npreg/R/penalty_nom.R |only npreg-1.0-5/npreg/R/penalty_ord.R |only npreg-1.0-5/npreg/R/penalty_poly.R |only npreg-1.0-5/npreg/R/penalty_sph.R |only npreg-1.0-5/npreg/R/penalty_tps.R |only npreg-1.0-6/npreg/ChangeLog | 45 +++++++++++++++++--- npreg-1.0-6/npreg/DESCRIPTION | 8 +-- npreg-1.0-6/npreg/MD5 | 78 ++++++++++++++++++----------------- npreg-1.0-6/npreg/R/basis.R |only npreg-1.0-6/npreg/R/basis.nom.R |only npreg-1.0-6/npreg/R/basis.ord.R |only npreg-1.0-6/npreg/R/basis.poly.R |only npreg-1.0-6/npreg/R/basis.sph.R |only npreg-1.0-6/npreg/R/basis.tps.R |only npreg-1.0-6/npreg/R/bin.sample.R |only npreg-1.0-6/npreg/R/build_rkhs.R | 30 ++++++------- npreg-1.0-6/npreg/R/check_knot.R | 44 ++++++++----------- npreg-1.0-6/npreg/R/knot1samp.R | 8 ++- npreg-1.0-6/npreg/R/penalty.R |only npreg-1.0-6/npreg/R/penalty.nom.R |only npreg-1.0-6/npreg/R/penalty.ord.R |only npreg-1.0-6/npreg/R/penalty.poly.R |only npreg-1.0-6/npreg/R/penalty.sph.R |only npreg-1.0-6/npreg/R/penalty.tps.R |only npreg-1.0-6/npreg/R/plotci.R | 18 ++++++-- npreg-1.0-6/npreg/R/pred_rkhs.R | 18 ++++---- npreg-1.0-6/npreg/R/predict.ss.R | 2 npreg-1.0-6/npreg/R/ss.R | 4 - npreg-1.0-6/npreg/R/theta.mle.R | 10 ++-- npreg-1.0-6/npreg/R/varimp.R |only npreg-1.0-6/npreg/build |only npreg-1.0-6/npreg/man/bin.sample.Rd |only npreg-1.0-6/npreg/man/gsm.Rd | 12 ++--- npreg-1.0-6/npreg/man/nominal.Rd | 57 +++++++++++++++++++++---- npreg-1.0-6/npreg/man/ordinal.Rd | 55 +++++++++++++++++++++--- npreg-1.0-6/npreg/man/plotci.Rd | 8 ++- npreg-1.0-6/npreg/man/polynomial.Rd | 66 ++++++++++++++++++++++++----- npreg-1.0-6/npreg/man/predict.gsm.Rd | 6 +- npreg-1.0-6/npreg/man/predict.sm.Rd | 6 +- npreg-1.0-6/npreg/man/predict.ss.Rd | 6 +- npreg-1.0-6/npreg/man/psolve.Rd | 4 - npreg-1.0-6/npreg/man/sm.Rd | 20 ++++---- npreg-1.0-6/npreg/man/spherical.Rd | 57 ++++++++++++++++++++++--- npreg-1.0-6/npreg/man/ss.Rd | 10 ++-- npreg-1.0-6/npreg/man/summary.Rd | 6 +- npreg-1.0-6/npreg/man/theta.mle.Rd | 6 ++ npreg-1.0-6/npreg/man/thinplate.Rd | 59 ++++++++++++++++++++++---- npreg-1.0-6/npreg/man/varimp.Rd |only 54 files changed, 452 insertions(+), 191 deletions(-)
Title: Function Mocking for Unit Testing in R
Description: With the deprecation of mocking capabilities shipped with
'testthat' as of 'edition 3' it is left to third-party packages to replace
this functionality, which in some test-scenarios is essential in order to
run unit tests in limited environments (such as no Internet connection).
Mocking in this setting means temporarily substituting a function with a
stub that acts in some sense like the original function (for example by
serving a HTTP response that has been cached as a file). The only exported
function 'with_mock()' is modeled after the eponymous 'testthat' function
with the intention of providing a drop-in replacement.
Author: Nicolas Bennett [aut, cre]
Maintainer: Nicolas Bennett <nicolas.bennett@stat.math.ethz.ch>
Diff between mockthat versions 0.2.4 dated 2020-12-09 and 0.2.6 dated 2021-04-23
mockthat-0.2.4/mockthat/inst/testdata/mocktest_0.1.0.tar.gz |only mockthat-0.2.6/mockthat/DESCRIPTION | 9 mockthat-0.2.6/mockthat/MD5 | 26 - mockthat-0.2.6/mockthat/NAMESPACE | 1 mockthat-0.2.6/mockthat/NEWS.md | 8 mockthat-0.2.6/mockthat/R/helpers.R |only mockthat-0.2.6/mockthat/R/mock.R | 261 ++++-------- mockthat-0.2.6/mockthat/README.md | 14 mockthat-0.2.6/mockthat/inst/testdata/mocktest |only mockthat-0.2.6/mockthat/man/helpers.Rd |only mockthat-0.2.6/mockthat/man/mock.Rd | 90 ++-- mockthat-0.2.6/mockthat/tests/testthat/test-local-mock.R | 15 mockthat-0.2.6/mockthat/tests/testthat/test-mock-fun.R | 7 mockthat-0.2.6/mockthat/tests/testthat/test-mocktest.R | 151 +++++- 14 files changed, 338 insertions(+), 244 deletions(-)
Title: Method Comparison Regression
Description: Regression methods to quantify the relation between two measurement methods. In particular it addresses regression problems with errors in both variables and without repeated measurements. The package provides implementations of Deming regression, weighted Deming regression, and Passing-Bablok regression following the CLSI EP09-A3 recommendations for analytical method comparison and bias estimation using patient samples.
Author: Ekaterina Manuilova <ekaterina.manuilova@roche.com> Andre Schuetzenmeister <andre.schuetzenmeister@roche.com> Fabian Model <fabian.model@roche.com>
Maintainer: Sergej Potapov <sergej.potapov@roche.com>
Diff between mcr versions 1.2.1 dated 2014-02-12 and 1.2.2 dated 2021-04-23
DESCRIPTION | 12 ++++++------ MD5 | 9 +++++---- NAMESPACE | 8 +++++++- man/creatinine.Rd | 2 +- man/mcr-package.Rd | 7 +++---- src/init.c |only 6 files changed, 22 insertions(+), 16 deletions(-)
Title: Tools for 'iNZight'
Description: Provides a collection of wrapper functions for common variable and dataset manipulation workflows primarily used by 'iNZight', a graphical user interface providing easy exploration and visualisation of data for students of statistics, available in both desktop and online versions. Additionally, many of the functions return the 'tidyverse' code used to obtain the result in an effort to bridge the gap between GUI and coding.
Author: Tom Elliott [aut, cre] (<https://orcid.org/0000-0002-7815-6318>),
Christoph Knopf [ctb],
Akshay Gupta [ctb],
Owen Jin [aut] (Tidyverse variable/data manipulation functions),
Lushi Cai [ctb],
Yiwen He [aut] (Dates/times and dataset manipulation),
Daniel Barnett [aut] (Data validation)
Maintainer: Tom Elliott <tom.elliott@auckland.ac.nz>
Diff between iNZightTools versions 1.10 dated 2020-12-14 and 1.11.0 dated 2021-04-23
DESCRIPTION | 23 +++--- MD5 | 119 ++++++++++++++++++--------------- NAMESPACE | 4 + R/aggregate_data.R | 89 +++++++++++++++++++----- R/append_rows.R | 8 +- R/class_intervals.R |only R/collapse_levels.R | 26 ++++--- R/combine_cat_var.R | 19 +++-- R/convert_to_cat.R | 31 +++++--- R/create_new_var.R | 9 +- R/delete_vars.R | 9 +- R/filter_cat_levels.R | 26 +++++-- R/filter_numeric.R | 24 +++++- R/filter_random.R | 7 + R/filter_rows.R | 15 +++- R/import_data.R | 42 ++++++++--- R/import_survey.R | 49 +++++++++++-- R/join_data.R | 4 - R/missing_categorical.R | 58 +++++++--------- R/rank_var.R | 34 ++++++--- R/rename_levels.R | 17 +++- R/rename_vars.R | 10 ++ R/reorder_levels.R | 25 +++--- R/select_vars.R | 5 + R/separate_col.R | 28 ++++--- R/sort_data.R | 13 +++ R/stack_variables.R | 8 +- R/standardize_var.R | 41 +++++++---- R/tidycode.R | 12 +++ R/transform_var.R | 9 +- R/unite_cols.R | 35 ++++----- man/aggregateData.Rd | 2 man/appendrows.Rd | 4 - man/as_survey_spec.Rd |only man/filterLevels.Rd | 2 man/filterNumeric.Rd | 10 ++ man/filterRows.Rd | 2 man/form_class_intervals.Rd |only man/import_survey.Rd | 2 man/separate.Rd | 2 man/stackVars.Rd | 2 man/standardizeVars.Rd | 2 man/survey_IQR.Rd |only tests/testthat/test-test_tidy_code.R | 2 tests/testthat/test_aggregateData.R |only tests/testthat/test_appendrows.R |only tests/testthat/test_catvars.R | 10 ++ tests/testthat/test_classintervals.R |only tests/testthat/test_collapseLevels.R | 35 +++++++++ tests/testthat/test_createvar.R |only tests/testthat/test_filterLevels.R | 43 +++++++---- tests/testthat/test_filterNumeric.R | 41 +++++++++-- tests/testthat/test_filter_random.R |only tests/testthat/test_filter_rows.R |only tests/testthat/test_missing.R |only tests/testthat/test_rankvars.R |only tests/testthat/test_rename_levels.R |only tests/testthat/test_renamevars.R |only tests/testthat/test_reorderlevels.R | 30 ++++++-- tests/testthat/test_select_vars.R | 10 ++ tests/testthat/test_separate.R | 25 ++++++ tests/testthat/test_smart_read.R | 24 +++++- tests/testthat/test_sort.R |only tests/testthat/test_stackvars.R |only tests/testthat/test_standardize_vars.R |only tests/testthat/test_survey_design.R | 19 +++++ tests/testthat/test_tidy_code.R | 13 ++- tests/testthat/test_transform_var.R | 11 +++ tests/testthat/test_unite.R | 15 +++- 69 files changed, 795 insertions(+), 310 deletions(-)
Title: High Mach Finds Routes for Supersonic Aircraft
Description: For supersonic aircraft, flying subsonic over land,
High Mach finds the best route between airports. Allows for coastal buffer and
potentially closed regions. Uses minimal model of aircraft
performance: focus is on time saved versus subsonic flight, rather
than vertical flight profile. For modelling and forecasting, not for planning your
flight!
Author: David Marsh [aut, cre],
EUROCONTROL [fnd, cph]
Maintainer: David Marsh <david.marsh@eurocontrol.int>
Diff between himach versions 0.1.0 dated 2021-04-15 and 0.1.1 dated 2021-04-23
himach-0.1.0/himach/data/NZ_Buller_buffer40.rda |only himach-0.1.0/himach/data/NZ_buffer30.rda |only himach-0.1.0/himach/data/NZ_coast.rda |only himach-0.1.0/himach/data/NZ_grid.rda |only himach-0.1.0/himach/data/NZ_routes.rda |only himach-0.1.0/himach/man/NZ_Buller_buffer40.Rd |only himach-0.1.0/himach/man/NZ_buffer30.Rd |only himach-0.1.0/himach/man/NZ_coast.Rd |only himach-0.1.0/himach/man/NZ_grid.Rd |only himach-0.1.0/himach/man/NZ_routes.Rd |only himach-0.1.1/himach/DESCRIPTION | 14 himach-0.1.1/himach/MD5 | 73 +-- himach-0.1.1/himach/NAMESPACE | 1 himach-0.1.1/himach/NEWS.md | 7 himach-0.1.1/himach/R/data.R | 72 --- himach-0.1.1/himach/R/grids.R | 2 himach-0.1.1/himach/R/routes.R | 20 - himach-0.1.1/himach/R/sysdata.rda |binary himach-0.1.1/himach/R/utils.R | 72 +++ himach-0.1.1/himach/R/zzz.R | 1 himach-0.1.1/himach/README.md | 9 himach-0.1.1/himach/inst/doc/Supersonic_Routes.R | 8 himach-0.1.1/himach/inst/doc/Supersonic_Routes.Rmd | 8 himach-0.1.1/himach/inst/doc/Supersonic_Routes.html | 31 - himach-0.1.1/himach/inst/doc/Supersonic_Routes_in_depth.R | 21 - himach-0.1.1/himach/inst/doc/Supersonic_Routes_in_depth.Rmd | 22 - himach-0.1.1/himach/inst/doc/Supersonic_Routes_in_depth.html | 200 +++++----- himach-0.1.1/himach/man/find_leg.Rd | 5 himach-0.1.1/himach/man/find_route.Rd | 5 himach-0.1.1/himach/man/find_routes.Rd | 5 himach-0.1.1/himach/man/hm_get_test.Rd |only himach-0.1.1/himach/man/make_aircraft.Rd | 6 himach-0.1.1/himach/man/make_route_envelope.Rd | 2 himach-0.1.1/himach/man/make_route_grid.Rd | 2 himach-0.1.1/himach/man/summarise_routes.Rd | 1 himach-0.1.1/himach/tests/testthat/known/test_multiroute |binary himach-0.1.1/himach/tests/testthat/known/test_multiroute_nofly |binary himach-0.1.1/himach/tests/testthat/test_grid.R | 10 himach-0.1.1/himach/tests/testthat/test_map.R | 32 - himach-0.1.1/himach/tests/testthat/test_routes.R | 20 - himach-0.1.1/himach/tests/testthat/test_utils.R | 18 himach-0.1.1/himach/vignettes/Supersonic_Routes.Rmd | 8 himach-0.1.1/himach/vignettes/Supersonic_Routes_in_depth.Rmd | 22 - 43 files changed, 386 insertions(+), 311 deletions(-)
Title: Analysis of Basketball Data
Description: Collection of tools to work with basketball data. Functions available are related to friendly
web scraping and visualization. Data were obtained from <https://www.euroleague.net/>,
<https://www.eurocupbasketball.com/> and <http://www.acb.com>, following the instructions
of their respectives robots.txt files, when available. Tools for visualization include a population pyramid, 2D plots,
circular plots of players' percentiles, plots of players' monthly/yearly stats,
team heatmaps, team shooting plots, team four factors plots, cross-tables with the results of regular season games
and maps of nationalities. Please see Vinue (2020) <doi:10.1089/big.2018.0124>.
Author: Guillermo Vinue
Maintainer: Guillermo Vinue <Guillermo.Vinue@uv.es>
Diff between BAwiR versions 1.2.5 dated 2021-02-12 and 1.2.6 dated 2021-04-23
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- NEWS | 5 +++++ R/scraping_games_acb.R | 16 ++++++++-------- R/scraping_games_euro.R | 6 +++--- R/scraping_rosters_acb.R | 2 +- R/scraping_rosters_euro.R | 2 +- inst/doc/BAwiR.html | 11 ++++++----- man/scraping_games_acb.Rd | 14 +++++++------- man/scraping_games_euro.Rd | 4 ++-- man/scraping_rosters_acb.Rd | 2 +- man/scraping_rosters_euro.Rd | 2 +- 12 files changed, 51 insertions(+), 45 deletions(-)
Title: Normalized Power Prior Bayesian Analysis
Description: Posterior sampling in several commonly used distributions using
normalized power prior as described in
Duan, Ye and Smith (2006) <doi:10.1002/env.752> and
Ibrahim et.al. (2015) <doi:10.1002/sim.6728>.
Sampling of the power parameter is achieved via
either independence Metropolis-Hastings or random walk Metropolis-Hastings
based on transformation.
Author: Zifei Han, Tianyu Bai and Keying Ye
Maintainer: Zifei Han <hanzifei1@gmail.com>
Diff between NPP versions 0.3.0 dated 2021-01-14 and 0.4.0 dated 2021-04-23
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/PosteriorModeNPP.R | 3 ++- 3 files changed, 7 insertions(+), 6 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-15 1.1.1
2021-02-03 1.1.0
2020-10-25 1.0.4
Title: Tidy Tuning Tools
Description: The ability to tune models is important. 'tune' contains functions and
classes to be used in conjunction with other 'tidymodels' packages for
finding reasonable values of hyper-parameters in models, pre-processing
methods, and post-processing steps.
Author: Max Kuhn [aut, cre] (<https://orcid.org/0000-0003-2402-136X>),
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between tune versions 0.1.4 dated 2021-04-20 and 0.1.5 dated 2021-04-23
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/conf_mat_resampled.R | 2 +- tests/testthat/test-conf-mat-resampled.R | 10 ++++++++++ 5 files changed, 23 insertions(+), 9 deletions(-)
Title: Statistics Norway's Miscellaneous Tools
Description: Functions used by other packages from Statistics Norway are gathered. General data manipulation functions, and functions for hierarchical computations are included (Langsrud, 2020) <doi:10.13140/RG.2.2.27313.61283>. The hierarchy specification functions are useful within statistical disclosure control.
Author: Øyvind Langsrud [aut, cre],
Bjørn-Helge Mevik [cph]
Maintainer: Øyvind Langsrud <oyl@ssb.no>
Diff between SSBtools versions 1.0.0 dated 2021-03-04 and 1.1.0 dated 2021-04-23
DESCRIPTION | 9 +-- MD5 | 28 +++++++--- NAMESPACE | 1 R/FormulaSums.R | 81 +++++++++++++++++++++++++++++-- R/ModelMatrix.R | 68 +++++++++++++++++++++++++- R/SSBtoolsData.R | 85 +++++++++++++++++++++++++++++++++ data |only man/FormulaSums.Rd | 7 ++ man/ModelMatrix.Rd | 9 +++ man/SSBtoolsData.Rd | 3 + man/sosialFiktiv.Rd |only tests/testthat/test-HierarchyCompute.R | 4 - 12 files changed, 269 insertions(+), 26 deletions(-)
Title: Robust PCA by Projection Pursuit
Description: Provides functions for robust PCA by projection pursuit.
The methods are described in Croux et al. (2006) <doi:10.2139/ssrn.968376>,
Croux et al. (2013) <doi:10.1080/00401706.2012.727746>,
Todorov and Filzmoser (2013) <doi:10.1007/978-3-642-33042-1_31>.
Author: Peter Filzmoser, Heinrich Fritz, Klaudius Kalcher
Maintainer: Valentin Todorov <valentin.todorov@chello.at>
Diff between pcaPP versions 1.9-73 dated 2018-01-14 and 1.9-74 dated 2021-04-23
DESCRIPTION | 15 ++++++++++----- MD5 | 4 ++-- man/l1median_NLM.Rd | 5 ++++- 3 files changed, 16 insertions(+), 8 deletions(-)
Title: Animal Sounds for Bioacustic Analysis
Description: Collection of example animal sounds for bioacoustic analysis.
Author: Marcelo Araya-Salas [aut, cre]
Maintainer: Marcelo Araya-Salas <marcelo.araya@ucr.ac.cr>
Diff between NatureSounds versions 1.0.3 dated 2020-03-13 and 1.0.4 dated 2021-04-23
NatureSounds-1.0.3/NatureSounds/data/datalist |only NatureSounds-1.0.4/NatureSounds/DESCRIPTION | 17 NatureSounds-1.0.4/NatureSounds/MD5 | 59 NatureSounds-1.0.4/NatureSounds/NEWS.md | 4 NatureSounds-1.0.4/NatureSounds/R/Cryp.soui-data.R | 2 NatureSounds-1.0.4/NatureSounds/R/Phae.long1-data.R | 2 NatureSounds-1.0.4/NatureSounds/R/Phae.long2-data.R | 2 NatureSounds-1.0.4/NatureSounds/R/Phae.long3-data.R | 2 NatureSounds-1.0.4/NatureSounds/R/Phae.long4-data.R | 2 NatureSounds-1.0.4/NatureSounds/README.md | 6 NatureSounds-1.0.4/NatureSounds/build/vignette.rds |binary NatureSounds-1.0.4/NatureSounds/data/Cryp.soui.rda |binary NatureSounds-1.0.4/NatureSounds/data/Phae.long.est.rda |binary NatureSounds-1.0.4/NatureSounds/data/Phae.long1.rda |binary NatureSounds-1.0.4/NatureSounds/data/Phae.long2.rda |binary NatureSounds-1.0.4/NatureSounds/data/Phae.long3.rda |binary NatureSounds-1.0.4/NatureSounds/data/Phae.long4.rda |binary NatureSounds-1.0.4/NatureSounds/data/lbh.est.rda |binary NatureSounds-1.0.4/NatureSounds/data/thyroptera.est.rda |binary NatureSounds-1.0.4/NatureSounds/inst/doc/Acoustic_data_sets_in_NatureSounds.Rmd | 11 NatureSounds-1.0.4/NatureSounds/inst/doc/Acoustic_data_sets_in_NatureSounds.html | 1321 +++++++++- NatureSounds-1.0.4/NatureSounds/man/Cryp.soui.Rd | 8 NatureSounds-1.0.4/NatureSounds/man/Phae.long.est.Rd | 4 NatureSounds-1.0.4/NatureSounds/man/Phae.long1.Rd | 8 NatureSounds-1.0.4/NatureSounds/man/Phae.long2.Rd | 8 NatureSounds-1.0.4/NatureSounds/man/Phae.long3.Rd | 8 NatureSounds-1.0.4/NatureSounds/man/Phae.long4.Rd | 8 NatureSounds-1.0.4/NatureSounds/man/lbh.est.Rd | 4 NatureSounds-1.0.4/NatureSounds/man/monk.parakeet.est.Rd | 4 NatureSounds-1.0.4/NatureSounds/man/thyroptera.est.Rd | 4 NatureSounds-1.0.4/NatureSounds/vignettes/Acoustic_data_sets_in_NatureSounds.Rmd | 11 31 files changed, 1392 insertions(+), 103 deletions(-)
Title: Colour Schemes for Scientific Data Visualization
Description: Colour schemes ready for each type of data (qualitative,
diverging or sequential), with colours that are distinct for all
people, including colour-blind readers. This package provides an
implementation of Paul Tol (2018) and Fabio Crameri (2018) <doi:
10.5194/gmd-11-2541-2018> colour schemes for use with 'graphics' or
'ggplot2'. It provides tools to simulate colour-blindness and to test
how well the colours of any palette are identifiable. Several
scientific thematic schemes (geologic timescale, land cover, FAO
soils, etc.) are also implemented.
Author: Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>),
Brice Lebrun [ctb] (<https://orcid.org/0000-0001-7503-8685>),
Vincent Arel-Bundock [ctb] (<https://orcid.org/0000-0003-2042-7063>)
Maintainer: Nicolas Frerebeau <nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between khroma versions 1.4.1 dated 2021-03-17 and 1.5.0 dated 2021-04-23
DESCRIPTION | 32 ++++---- MD5 | 59 +++++++++------- NAMESPACE | 105 +++++++++++++++++++++++++++++ R/khroma-package.R | 6 + R/scale_colour_crameri.R |only R/scale_colour_tol.R | 4 - R/sysdata.rda |binary README.md | 84 +++++++---------------- build/partial.rdb |binary build/vignette.rds |binary inst/CITATION | 4 - inst/doc/crameri.R |only inst/doc/crameri.Rmd |only inst/doc/crameri.html |only inst/doc/tol.R | 2 inst/doc/tol.Rmd | 10 +- inst/doc/tol.html | 12 +-- inst/examples/ex-crameri-diverging.R |only inst/examples/ex-crameri-multisequential.R |only inst/examples/ex-crameri-sequential.R |only inst/examples/ex-tol-diverging.R | 2 inst/examples/ex-tol-sequential.R | 2 man/khroma-package.Rd | 22 +++--- man/scale_crameri_cyclic.Rd |only man/scale_crameri_diverging.Rd |only man/scale_crameri_mutlisequential.Rd |only man/scale_crameri_sequential.Rd |only man/scale_okabeito_discrete.Rd | 4 + man/scale_tol_discrete.Rd | 4 + man/scale_tol_diverging.Rd | 11 ++- man/scale_tol_sequential.Rd | 11 ++- tests/testthat/test-colour.R | 7 + tests/testthat/test-ggplot2-crameri.R |only tests/testthat/test-ggplot2-tol.R | 7 - vignettes/bibliography.bib | 62 ++++++++++++----- vignettes/crameri.Rmd |only vignettes/tol.Rmd | 10 +- 37 files changed, 303 insertions(+), 157 deletions(-)
Title: Relevance-Integrated Statistical Inference Engine
Description: Provide methods to perform customized inference at individual level by taking
contextual covariates into account. Three main functions are provided
in this package: (i) LASER(): it generates specially-designed artificial relevant
samples for a given case; (ii) g2l.proc(): computes customized fdr(z|x); and (iii)
rEB.proc(): performs empirical Bayes inference based on LASERs. The details can be
found in Mukhopadhyay, S., and Wang, K (2021, <arXiv:2004.09588>).
Author: Subhadeep Mukhopadhyay, Kaijun Wang
Maintainer: Kaijun Wang <kaijunwang.19@gmail.com>
Diff between LPRelevance versions 3.1 dated 2020-05-16 and 3.2 dated 2021-04-22
LPRelevance-3.1/LPRelevance/R/Finite.rEB.R |only LPRelevance-3.2/LPRelevance/DESCRIPTION | 14 LPRelevance-3.2/LPRelevance/MD5 | 28 - LPRelevance-3.2/LPRelevance/R/LASER.R | 8 LPRelevance-3.2/LPRelevance/R/LASER.rEB.R |only LPRelevance-3.2/LPRelevance/R/g2l.infer.R | 94 ++-- LPRelevance-3.2/LPRelevance/R/g2l.infer.boot.R | 27 - LPRelevance-3.2/LPRelevance/R/g2l.proc.R | 341 ++++++++--------- LPRelevance-3.2/LPRelevance/R/rEB.Finite.Bayes.R |only LPRelevance-3.2/LPRelevance/R/rEB.proc.R | 92 ++-- LPRelevance-3.2/LPRelevance/build/partial.rdb |binary LPRelevance-3.2/LPRelevance/man/LASER.Rd | 12 LPRelevance-3.2/LPRelevance/man/LPRelevance-package.Rd | 16 LPRelevance-3.2/LPRelevance/man/funnel.Rd | 6 LPRelevance-3.2/LPRelevance/man/g2l.proc.Rd | 38 - LPRelevance-3.2/LPRelevance/man/rEB.Finite.Bayes.Rd |only LPRelevance-3.2/LPRelevance/man/rEB.proc.Rd | 51 +- 17 files changed, 370 insertions(+), 357 deletions(-)
Title: Mutate Data Frames with Random Variates
Description: Work within the 'dplyr' workflow to add random variates to your data frame.
Variates can be added at any level of an existing column. Also, bounds can be specified
for simulated variates.
Author: Kyle T Baron [aut, cre, cph]
Maintainer: Kyle T Baron <kylebtwin@imap.cc>
Diff between dmutate versions 0.1.2 dated 2017-08-28 and 0.1.3 dated 2021-04-22
DESCRIPTION | 20 ++++++++++---------- MD5 | 23 +++++++++++++++-------- NAMESPACE | 5 +++++ NEWS.md | 8 ++++++++ R/as_idata.R |only R/build.R |only R/dmutate.R | 26 ++++++++++++++++++++++++++ man/as_idata.Rd |only man/build_covform.Rd |only man/covset.Rd | 2 -- man/dmutate.Rd | 20 +++++++++++++++++++- man/mutate_random.Rd | 7 ++----- man/rbinomial.Rd | 3 +++ tests/testthat/test-as_idata.R |only tests/testthat/test-build.R |only tests/testthat/test-dmutate.R |only 16 files changed, 88 insertions(+), 26 deletions(-)
Title: Exploratory Graphics for Pharmacometrics
Description: Supports a structured approach
for exploring PKPD data <https://opensource.nibr.com/xgx/>. It also
contains helper functions for enabling the modeler to follow best R
practices (by appending the program name, figure name location, and
draft status to each plot). In addition, it enables the modeler to
follow best graphical practices (by providing a theme that
reduces chart ink, and by providing time-scale, log-scale, and
reverse-log-transform-scale functions for more readable axes).
Finally, it provides some data checking and summarizing functions for
rapidly exploring pharmacokinetics and pharmacodynamics (PKPD) datasets.
Author: Andrew Stein [aut, cre],
Alison Margolskee [aut],
Fariba Khanshan [aut],
Konstantin Krismer [aut] (<https://orcid.org/0000-0001-8994-3416>),
Matthew Fidler [ctb] (<https://orcid.org/0000-0001-8538-6691>),
Novartis Pharma AG [cph, fnd]
Maintainer: Andrew Stein <andy.stein@gmail.com>
Diff between xgxr versions 1.1.0 dated 2021-02-04 and 1.1.1 dated 2021-04-22
DESCRIPTION | 11 MD5 | 30 NAMESPACE | 273 ++--- NEWS | 113 +- R/predict.nls.R |only R/xgx_stat_smooth.R | 1460 +++++++++++++-------------- README.md | 2 build/vignette.rds |binary inst/doc/sad_pkpd.R | 434 ++++---- inst/doc/sad_pkpd.html | 1185 +++++++++++++--------- inst/doc/theoph.R | 488 ++++----- inst/doc/theoph.html | 1652 +++++++++++++++++-------------- inst/doc/xgxr_overview.R | 689 ++++++------- inst/doc/xgxr_overview.Rmd | 1056 ++++++++++---------- inst/doc/xgxr_overview.html | 2322 ++++++++++++++++++++++++-------------------- man/predict.nls.Rd |only vignettes/xgxr_overview.Rmd | 1056 ++++++++++---------- 17 files changed, 5733 insertions(+), 5038 deletions(-)
Title: Dynamic Function-Oriented 'Make'-Like Declarative Workflows
Description: As a pipeline toolkit for Statistics and data science in R,
the 'targets' package brings together function-oriented programming and
'Make'-like declarative workflows.
It analyzes the dependency relationships among the tasks of a workflow,
skips steps that are already up to date, runs the necessary
computation with optional parallel workers, abstracts files as
R objects, and provides tangible evidence that the results match
the underlying code and data. The methodology in this package
borrows from GNU 'Make' (2015, ISBN:978-9881443519)
and 'drake' (2018, <doi:10.21105/joss.00550>).
Author: William Michael Landau [aut, cre]
(<https://orcid.org/0000-0003-1878-3253>),
Matthew T. Warkentin [ctb],
Samantha Oliver [rev] (<https://orcid.org/0000-0001-5668-1165>),
Tristan Mahr [rev] (<https://orcid.org/0000-0002-8890-5116>),
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between targets versions 0.3.1 dated 2021-03-28 and 0.4.1 dated 2021-04-22
targets-0.3.1/targets/tests/performance/test-parallel.R |only targets-0.3.1/targets/tests/testthat/test-utils_cli.R |only targets-0.4.1/targets/DESCRIPTION | 20 targets-0.4.1/targets/MD5 | 566 +++++----- targets-0.4.1/targets/NAMESPACE | 49 targets-0.4.1/targets/NEWS.md | 48 targets-0.4.1/targets/R/class_active.R | 2 targets-0.4.1/targets/R/class_aws.R | 64 - targets-0.4.1/targets/R/class_aws_feather.R | 9 targets-0.4.1/targets/R/class_aws_file.R | 18 targets-0.4.1/targets/R/class_aws_fst.R | 3 targets-0.4.1/targets/R/class_aws_fst_dt.R | 2 targets-0.4.1/targets/R/class_aws_fst_tbl.R | 2 targets-0.4.1/targets/R/class_aws_keras.R | 3 targets-0.4.1/targets/R/class_aws_parquet.R | 3 targets-0.4.1/targets/R/class_aws_qs.R | 3 targets-0.4.1/targets/R/class_aws_rds.R | 3 targets-0.4.1/targets/R/class_aws_torch.R | 3 targets-0.4.1/targets/R/class_build.R | 36 targets-0.4.1/targets/R/class_builder.R | 29 targets-0.4.1/targets/R/class_clustermq.R | 56 targets-0.4.1/targets/R/class_config.R |only targets-0.4.1/targets/R/class_database.R | 31 targets-0.4.1/targets/R/class_external.R |only targets-0.4.1/targets/R/class_feather.R | 12 targets-0.4.1/targets/R/class_file.R | 37 targets-0.4.1/targets/R/class_forecast.R | 6 targets-0.4.1/targets/R/class_fst.R | 2 targets-0.4.1/targets/R/class_fst_dt.R | 2 targets-0.4.1/targets/R/class_fst_tbl.R | 2 targets-0.4.1/targets/R/class_future.R | 6 targets-0.4.1/targets/R/class_graph.R | 2 targets-0.4.1/targets/R/class_inspection.R | 7 targets-0.4.1/targets/R/class_meta.R | 6 targets-0.4.1/targets/R/class_metrics.R | 4 targets-0.4.1/targets/R/class_outdated.R | 29 targets-0.4.1/targets/R/class_parquet.R | 12 targets-0.4.1/targets/R/class_pattern.R | 15 targets-0.4.1/targets/R/class_pipeline.R | 6 targets-0.4.1/targets/R/class_progress.R | 65 - targets-0.4.1/targets/R/class_qs.R | 3 targets-0.4.1/targets/R/class_record.R | 14 targets-0.4.1/targets/R/class_reporter.R | 6 targets-0.4.1/targets/R/class_scheduler.R | 2 targets-0.4.1/targets/R/class_settings.R | 29 targets-0.4.1/targets/R/class_sitrep.R | 4 targets-0.4.1/targets/R/class_stem.R | 4 targets-0.4.1/targets/R/class_store.R | 42 targets-0.4.1/targets/R/class_store_file.R | 11 targets-0.4.1/targets/R/class_summary.R | 24 targets-0.4.1/targets/R/class_target.R | 11 targets-0.4.1/targets/R/class_timestamp.R | 9 targets-0.4.1/targets/R/class_url.R | 19 targets-0.4.1/targets/R/class_verbose.R | 7 targets-0.4.1/targets/R/class_visnetwork.R | 2 targets-0.4.1/targets/R/tar_branches.R | 5 targets-0.4.1/targets/R/tar_cancel.R | 1 targets-0.4.1/targets/R/tar_config_get.R |only targets-0.4.1/targets/R/tar_config_set.R |only targets-0.4.1/targets/R/tar_cue.R | 1 targets-0.4.1/targets/R/tar_deduplicate.R | 2 targets-0.4.1/targets/R/tar_delete.R | 7 targets-0.4.1/targets/R/tar_deps.R | 1 targets-0.4.1/targets/R/tar_deps_raw.R | 1 targets-0.4.1/targets/R/tar_destroy.R | 8 targets-0.4.1/targets/R/tar_dir.R | 1 targets-0.4.1/targets/R/tar_edit.R | 1 targets-0.4.1/targets/R/tar_envir.R | 3 targets-0.4.1/targets/R/tar_envvars.R |only targets-0.4.1/targets/R/tar_exist_meta.R | 1 targets-0.4.1/targets/R/tar_exist_objects.R | 1 targets-0.4.1/targets/R/tar_exist_process.R | 1 targets-0.4.1/targets/R/tar_exist_progress.R | 1 targets-0.4.1/targets/R/tar_exist_script.R | 1 targets-0.4.1/targets/R/tar_github_actions.R | 1 targets-0.4.1/targets/R/tar_glimpse.R | 1 targets-0.4.1/targets/R/tar_group.R | 1 targets-0.4.1/targets/R/tar_helper.R | 1 targets-0.4.1/targets/R/tar_helper_raw.R | 1 targets-0.4.1/targets/R/tar_invalidate.R | 2 targets-0.4.1/targets/R/tar_load.R | 1 targets-0.4.1/targets/R/tar_load_raw.R | 1 targets-0.4.1/targets/R/tar_make.R | 6 targets-0.4.1/targets/R/tar_make_clustermq.R | 1 targets-0.4.1/targets/R/tar_make_future.R | 9 targets-0.4.1/targets/R/tar_manifest.R | 3 targets-0.4.1/targets/R/tar_meta.R | 17 targets-0.4.1/targets/R/tar_name.R | 3 targets-0.4.1/targets/R/tar_network.R | 3 targets-0.4.1/targets/R/tar_objects.R 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targets-0.4.1/targets/R/tar_timestamp.R |only targets-0.4.1/targets/R/tar_timestamp_raw.R |only targets-0.4.1/targets/R/tar_traceback.R | 37 targets-0.4.1/targets/R/tar_validate.R | 1 targets-0.4.1/targets/R/tar_visnetwork.R | 1 targets-0.4.1/targets/R/tar_watch.R | 213 --- targets-0.4.1/targets/R/tar_watch_server.R |only targets-0.4.1/targets/R/tar_watch_ui.R |only targets-0.4.1/targets/R/tar_workspace.R | 1 targets-0.4.1/targets/R/tar_workspaces.R | 3 targets-0.4.1/targets/R/utils_assert.R | 12 targets-0.4.1/targets/R/utils_callr.R | 9 targets-0.4.1/targets/R/utils_character.R | 4 targets-0.4.1/targets/R/utils_cli.R | 95 - targets-0.4.1/targets/R/utils_condition.R | 60 - targets-0.4.1/targets/R/utils_igraph.R | 2 targets-0.4.1/targets/R/utils_imports.R | 2 targets-0.4.1/targets/R/utils_language.R | 4 targets-0.4.1/targets/R/utils_logic.R | 2 targets-0.4.1/targets/R/utils_path.R | 12 targets-0.4.1/targets/R/utils_rstudio_addins.R | 2 targets-0.4.1/targets/R/utils_url.R | 23 targets-0.4.1/targets/build/partial.rdb |binary targets-0.4.1/targets/build/vignette.rds |binary targets-0.4.1/targets/inst/WORDLIST | 3 targets-0.4.1/targets/inst/doc/overview.Rmd | 2 targets-0.4.1/targets/inst/doc/overview.html | 2 targets-0.4.1/targets/inst/tar_watch_about.md |only targets-0.4.1/targets/man/tar_branches.Rd | 5 targets-0.4.1/targets/man/tar_cancel.Rd | 11 targets-0.4.1/targets/man/tar_config_get.Rd |only targets-0.4.1/targets/man/tar_config_set.Rd |only targets-0.4.1/targets/man/tar_cue.Rd | 6 targets-0.4.1/targets/man/tar_deduplicate.Rd | 2 targets-0.4.1/targets/man/tar_delete.Rd | 13 targets-0.4.1/targets/man/tar_deps.Rd | 12 targets-0.4.1/targets/man/tar_deps_raw.Rd | 12 targets-0.4.1/targets/man/tar_destroy.Rd | 14 targets-0.4.1/targets/man/tar_dir.Rd | 1 targets-0.4.1/targets/man/tar_edit.Rd | 9 targets-0.4.1/targets/man/tar_envir.Rd | 11 targets-0.4.1/targets/man/tar_envvars.Rd |only targets-0.4.1/targets/man/tar_exist_meta.Rd | 8 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targets-0.4.1/targets/man/tar_option_reset.Rd | 11 targets-0.4.1/targets/man/tar_option_set.Rd | 22 targets-0.4.1/targets/man/tar_outdated.Rd | 12 targets-0.4.1/targets/man/tar_path.Rd | 11 targets-0.4.1/targets/man/tar_pattern.Rd | 8 targets-0.4.1/targets/man/tar_pid.Rd | 11 targets-0.4.1/targets/man/tar_poll.Rd |only targets-0.4.1/targets/man/tar_process.Rd | 11 targets-0.4.1/targets/man/tar_progress.Rd | 12 targets-0.4.1/targets/man/tar_progress_branches.Rd | 15 targets-0.4.1/targets/man/tar_progress_summary.Rd |only targets-0.4.1/targets/man/tar_prune.Rd | 7 targets-0.4.1/targets/man/tar_read.Rd | 11 targets-0.4.1/targets/man/tar_read_raw.Rd | 11 targets-0.4.1/targets/man/tar_renv.Rd | 18 targets-0.4.1/targets/man/tar_script.Rd | 9 targets-0.4.1/targets/man/tar_seed.Rd | 11 targets-0.4.1/targets/man/tar_sitrep.Rd | 12 targets-0.4.1/targets/man/tar_target.Rd | 17 targets-0.4.1/targets/man/tar_target_raw.Rd | 17 targets-0.4.1/targets/man/tar_test.Rd | 1 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targets-0.4.1/targets/tests/interactive/test-tar_poll.R |only targets-0.4.1/targets/tests/interactive/test-tar_watch.R | 28 targets-0.4.1/targets/tests/interactive/test-visnetwork.R | 4 targets-0.4.1/targets/tests/performance/test-exit.R | 2 targets-0.4.1/targets/tests/performance/test-maps.R | 29 targets-0.4.1/targets/tests/performance/test-stems.R | 1 targets-0.4.1/targets/tests/testthat/test-class_aws_feather.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_file.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_fst.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_fst_dt.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_fst_tbl.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_keras.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_parquet.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_qs.R | 17 targets-0.4.1/targets/tests/testthat/test-class_aws_rds.R | 24 targets-0.4.1/targets/tests/testthat/test-class_aws_torch.R | 17 targets-0.4.1/targets/tests/testthat/test-class_bud.R | 6 targets-0.4.1/targets/tests/testthat/test-class_build.R | 4 targets-0.4.1/targets/tests/testthat/test-class_builder.R | 43 targets-0.4.1/targets/tests/testthat/test-class_clustermq.R | 40 targets-0.4.1/targets/tests/testthat/test-class_command.R | 20 targets-0.4.1/targets/tests/testthat/test-class_config.R |only targets-0.4.1/targets/tests/testthat/test-class_counter.R | 2 targets-0.4.1/targets/tests/testthat/test-class_database.R | 10 targets-0.4.1/targets/tests/testthat/test-class_dynamic.R | 10 targets-0.4.1/targets/tests/testthat/test-class_feather.R | 50 targets-0.4.1/targets/tests/testthat/test-class_file.R | 67 - targets-0.4.1/targets/tests/testthat/test-class_frames.R | 2 targets-0.4.1/targets/tests/testthat/test-class_fst.R | 22 targets-0.4.1/targets/tests/testthat/test-class_fst_dt.R | 22 targets-0.4.1/targets/tests/testthat/test-class_fst_tbl.R | 22 targets-0.4.1/targets/tests/testthat/test-class_group.R | 4 targets-0.4.1/targets/tests/testthat/test-class_imports.R | 4 targets-0.4.1/targets/tests/testthat/test-class_junction.R | 4 targets-0.4.1/targets/tests/testthat/test-class_keras.R | 17 targets-0.4.1/targets/tests/testthat/test-class_list.R | 2 targets-0.4.1/targets/tests/testthat/test-class_memory.R | 8 targets-0.4.1/targets/tests/testthat/test-class_meta.R | 45 targets-0.4.1/targets/tests/testthat/test-class_metrics.R | 8 targets-0.4.1/targets/tests/testthat/test-class_parallel.R | 14 targets-0.4.1/targets/tests/testthat/test-class_parquet.R | 50 targets-0.4.1/targets/tests/testthat/test-class_pattern.R | 47 targets-0.4.1/targets/tests/testthat/test-class_patternview.R | 2 targets-0.4.1/targets/tests/testthat/test-class_pedigree.R | 8 targets-0.4.1/targets/tests/testthat/test-class_pipeline.R | 10 targets-0.4.1/targets/tests/testthat/test-class_qs.R | 22 targets-0.4.1/targets/tests/testthat/test-class_rds.R | 22 targets-0.4.1/targets/tests/testthat/test-class_record.R | 42 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targets-0.4.1/targets/tests/testthat/test-tar_group.R | 2 targets-0.4.1/targets/tests/testthat/test-tar_make.R | 10 targets-0.4.1/targets/tests/testthat/test-tar_make_future.R | 2 targets-0.4.1/targets/tests/testthat/test-tar_pattern.R | 8 targets-0.4.1/targets/tests/testthat/test-tar_pipeline.R | 9 targets-0.4.1/targets/tests/testthat/test-tar_progress_branches.R | 4 targets-0.4.1/targets/tests/testthat/test-tar_progress_summary.R |only targets-0.4.1/targets/tests/testthat/test-tar_read.R | 4 targets-0.4.1/targets/tests/testthat/test-tar_renv.R | 30 targets-0.4.1/targets/tests/testthat/test-tar_target.R | 13 targets-0.4.1/targets/tests/testthat/test-tar_target_raw.R | 16 targets-0.4.1/targets/tests/testthat/test-tar_timestamp.R |only targets-0.4.1/targets/tests/testthat/test-tar_traceback.R | 16 targets-0.4.1/targets/tests/testthat/test-tar_validate.R | 2 targets-0.4.1/targets/tests/testthat/test-tar_visnetwork.R | 3 targets-0.4.1/targets/tests/testthat/test-tar_workspace.R | 4 targets-0.4.1/targets/tests/testthat/test-utils_assert.R | 73 - targets-0.4.1/targets/tests/testthat/test-utils_logic.R | 6 targets-0.4.1/targets/tests/testthat/test-utils_path.R |only targets-0.4.1/targets/vignettes/overview.Rmd | 2 300 files changed, 3110 insertions(+), 1214 deletions(-)
Title: Create an HTML Vertical Timeline from a Data Frame in
'rmarkdown' and 'shiny'
Description: Creates an HTML vertical timeline from a data frame as an input for
'rmarkdown' documents and 'shiny' applications.
Author: Mohamed El Fodil Ihaddaden
Maintainer: Mohamed El Fodil Ihaddaden <ihaddaden.fodeil@gmail.com>
Diff between cronologia versions 0.1.0 dated 2021-02-07 and 0.2.0 dated 2021-04-22
DESCRIPTION | 7 +- MD5 | 10 ++-- NEWS.md |only R/cronologia.R | 2 README.md | 17 +++++- inst/cronologia/cronologia.css | 92 +++++++++++++++++++++---------------- inst/cronologia/cronologia.min.css |only 7 files changed, 78 insertions(+), 50 deletions(-)
Title: Date-Time Types and Tools
Description: Provides a comprehensive library for date-time manipulations
using a new family of orthogonal date-time classes (durations, time
points, zoned-times, and calendars) that partition responsibilities so
that the complexities of time zones are only considered when they are
really needed. Capabilities include: date-time parsing, formatting,
arithmetic, extraction and updating of components, and rounding.
Author: Davis Vaughan [aut, cre],
RStudio [cph, fnd]
Maintainer: Davis Vaughan <davis@rstudio.com>
Diff between clock versions 0.2.0 dated 2021-04-12 and 0.3.0 dated 2021-04-22
clock-0.2.0/clock/LICENSE.note |only clock-0.2.0/clock/R/database.R |only clock-0.2.0/clock/inst/include |only clock-0.2.0/clock/man/zone-database.Rd |only clock-0.2.0/clock/src/Makevars |only clock-0.2.0/clock/src/Makevars.win |only clock-0.2.0/clock/src/database.cpp |only clock-0.2.0/clock/src/exported.cpp |only clock-0.2.0/clock/src/install.cpp |only clock-0.2.0/clock/src/tz.cpp |only clock-0.2.0/clock/tests/testthat/test-database.R |only clock-0.3.0/clock/DESCRIPTION | 17 clock-0.3.0/clock/MD5 | 88 +-- clock-0.3.0/clock/NAMESPACE | 9 clock-0.3.0/clock/NEWS.md | 12 clock-0.3.0/clock/R/cpp11.R | 12 clock-0.3.0/clock/R/date.R | 355 ++++++++++++ clock-0.3.0/clock/R/duration.R | 32 - clock-0.3.0/clock/R/posixt.R | 258 ++++++++ clock-0.3.0/clock/R/tzdb.R |only clock-0.3.0/clock/R/utils.R | 3 clock-0.3.0/clock/R/zzz.R | 5 clock-0.3.0/clock/inst/doc/recipes.R | 27 clock-0.3.0/clock/inst/doc/recipes.Rmd | 51 + clock-0.3.0/clock/inst/doc/recipes.html | 578 ++++++++++---------- clock-0.3.0/clock/man/clock-package.Rd | 2 clock-0.3.0/clock/man/date-sequence.Rd |only clock-0.3.0/clock/man/date_seq.Rd |only clock-0.3.0/clock/man/posixt-sequence.Rd |only clock-0.3.0/clock/man/reexports.Rd |only clock-0.3.0/clock/src/clock.h | 15 clock-0.3.0/clock/src/cpp11.cpp | 31 - clock-0.3.0/clock/src/duration.cpp | 2 clock-0.3.0/clock/src/duration.h | 24 clock-0.3.0/clock/src/format.cpp | 2 clock-0.3.0/clock/src/naive-time.cpp | 3 clock-0.3.0/clock/src/ordinal.h |only clock-0.3.0/clock/src/quarterly.h |only clock-0.3.0/clock/src/sys-time.cpp | 2 clock-0.3.0/clock/src/utils.h | 61 ++ clock-0.3.0/clock/src/zone.cpp | 20 clock-0.3.0/clock/src/zoned-time.cpp | 35 - clock-0.3.0/clock/tests/testthat/_snaps/date.md | 74 ++ clock-0.3.0/clock/tests/testthat/_snaps/duration.md | 6 clock-0.3.0/clock/tests/testthat/_snaps/posixt.md | 110 +++ clock-0.3.0/clock/tests/testthat/test-date.R | 126 ++++ clock-0.3.0/clock/tests/testthat/test-posixt.R | 238 ++++++++ clock-0.3.0/clock/vignettes/recipes.Rmd | 51 + 48 files changed, 1796 insertions(+), 453 deletions(-)
Title: Structural Bayesian Vector Autoregression Models
Description: Provides a function for estimating the parameters of Structural Bayesian Vector Autoregression models with the method developed by Baumeister and Hamilton (2015) <doi:10.3982/ECTA12356>, Baumeister and Hamilton (2017) <doi:10.3386/w24167>, and Baumeister and Hamilton (2018) <doi:10.1016/j.jmoneco.2018.06.005>. Functions for plotting impulse responses, historical decompositions, and posterior distributions of model parameters are also provided.
Author: Paul Richardson
Maintainer: Paul Richardson <p.richardson.54391@gmail.com>
Diff between BHSBVAR versions 2.1.0 dated 2020-08-26 and 3.0.0 dated 2021-04-22
DESCRIPTION | 10 MD5 | 60 NAMESPACE | 3 NEWS | 2 R/BHSBVAR.R | 3062 ++++++++++++++++------------------------- R/FEVD.R |only R/HD.R |only R/IRF.R |only R/RcppExports.R | 132 + build/vignette.rds |binary data/USLMData.rda |binary inst/doc/BHSBVAR.R | 442 ++--- inst/doc/BHSBVAR.Rnw | 1152 +++++++-------- inst/doc/BHSBVAR.pdf |binary man/BHSBVAR-package.Rd | 50 man/BH_SBVAR.Rd | 393 ++--- man/Dist_Plots.Rd | 269 +-- man/FEVD.Rd |only man/FEVD_Plots.Rd | 291 +-- man/HD.Rd |only man/HD_Plots.Rd | 307 ++-- man/IRF.Rd |only man/IRF_Plots.Rd | 273 +-- man/USLMData.Rd | 54 src/BHSBVAR-init.c | 10 src/BHSBVAR.cpp | 91 - src/RcppExports.cpp | 69 vignettes/BHSBVAR.Rnw | 1152 +++++++-------- vignettes/fig/Dist_plots-1.pdf |binary vignettes/fig/FEVD_plots-1.pdf |binary vignettes/fig/HD_plots-1.pdf |binary vignettes/fig/IRF_plots-1.pdf |binary vignettes/fig/Model-1.pdf |binary vignettes/fig/VD_plots-1.pdf |binary 34 files changed, 3669 insertions(+), 4153 deletions(-)
Title: Magnetic Resonance Binning, Integration and Normalization
Description: Nuclear Magnetic Resonance is widely used in Life Science
research. The package (<doi:10.1021/acs.jproteome.0c00684>) converts 1D
or 2D data into a matrix of values suitable for further data analysis and
performs basic processing steps in a reproducible way. Negative values, a
common issue in such data, are replaced by positive values. All used
parameters are stored in a readable text file and can be restored from that
file to enable exact reproduction of the data at a later time.
Author: Matthias Klein [aut, cre] (<https://orcid.org/0000-0001-7455-5381>)
Maintainer: Matthias Klein <klein.663@osu.edu>
Diff between mrbin versions 1.5.0 dated 2021-01-04 and 1.5.1 dated 2021-04-22
DESCRIPTION | 12 ++++++------ MD5 | 15 ++++++++------- NAMESPACE | 2 +- NEWS.md | 6 ++++++ R/mrbin.R | 15 +++++++++++---- inst/CITATION |only inst/doc/mrbin.Rnw | 2 +- inst/doc/mrbin.pdf |binary vignettes/mrbin.Rnw | 2 +- 9 files changed, 34 insertions(+), 20 deletions(-)
Title: A Pipeline Toolkit for Reproducible Computation at Scale
Description: A general-purpose computational engine for data
analysis, drake rebuilds intermediate data objects when their
dependencies change, and it skips work when the results are already up
to date. Not every execution starts from scratch, there is native
support for parallel and distributed computing, and completed projects
have tangible evidence that they are reproducible. Extensive
documentation, from beginner-friendly tutorials to practical examples
and more, is available at the reference website
<https://docs.ropensci.org/drake/> and the online manual
<https://books.ropensci.org/drake/>.
Author: William Michael Landau [aut, cre]
(<https://orcid.org/0000-0003-1878-3253>),
Alex Axthelm [ctb],
Jasper Clarkberg [ctb],
Kirill Müller [ctb],
Ben Bond-Lamberty [ctb] (<https://orcid.org/0000-0001-9525-4633>),
Tristan Mahr [ctb] (<https://orcid.org/0000-0002-8890-5116>),
Miles McBain [ctb] (<https://orcid.org/0000-0003-2865-2548>),
Noam Ross [ctb] (<https://orcid.org/0000-0002-2136-0000>),
Ellis Hughes [ctb],
Matthew Mark Strasiotto [ctb],
Ben Marwick [rev],
Peter Slaughter [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@gmail.com>
Diff between drake versions 7.13.1 dated 2021-02-03 and 7.13.2 dated 2021-04-22
DESCRIPTION | 8 MD5 | 470 +++++++++++++++---------------- NEWS.md | 5 R/zzz.R | 22 - inst/NOTICE | 248 ++++++++++++++++ inst/templates/hpc/slurm_batchtools.tmpl | 47 +-- man/Makefile_recipe.Rd | 2 man/analyses.Rd | 2 man/analysis_wildcard.Rd | 2 man/as_drake_filename.Rd | 2 man/as_file.Rd | 2 man/available_hash_algos.Rd | 2 man/backend.Rd | 2 man/bind_plans.Rd | 2 man/build_drake_graph.Rd | 2 man/build_graph.Rd | 2 man/build_times.Rd | 2 man/built.Rd | 2 man/cache_namespaces.Rd | 2 man/cache_path.Rd | 2 man/cached.Rd | 2 man/cached_planned.Rd | 2 man/cached_unplanned.Rd | 2 man/cancel.Rd | 2 man/cancel_if.Rd | 2 man/check.Rd | 2 man/check_plan.Rd | 2 man/clean.Rd | 2 man/clean_main_example.Rd | 2 man/clean_mtcars_example.Rd | 2 man/cleaned_namespaces.Rd | 2 man/cmq_build.Rd | 2 man/code_to_function.Rd | 2 man/code_to_plan.Rd | 2 man/config.Rd | 2 man/configure_cache.Rd | 2 man/dataframes_graph.Rd | 2 man/dataset_wildcard.Rd | 2 man/debug_and_run.Rd | 2 man/default_Makefile_args.Rd | 2 man/default_Makefile_command.Rd | 2 man/default_graph_title.Rd | 2 man/default_long_hash_algo.Rd | 2 man/default_parallelism.Rd | 2 man/default_recipe_command.Rd | 2 man/default_short_hash_algo.Rd | 2 man/default_system2_args.Rd | 2 man/default_verbose.Rd | 2 man/dependency_profile.Rd | 2 man/deprecate_wildcard.Rd | 2 man/deps.Rd | 2 man/deps_code.Rd | 2 man/deps_knitr.Rd | 2 man/deps_profile.Rd | 2 man/deps_target.Rd | 2 man/deps_targets.Rd | 2 man/diagnose.Rd | 2 man/do_prework.Rd | 2 man/doc_of_function_call.Rd | 2 man/drake_batchtools_tmpl_file.Rd | 2 man/drake_build.Rd | 2 man/drake_cache.Rd | 2 man/drake_cache_log.Rd | 2 man/drake_cache_log_file.Rd | 2 man/drake_cancelled.Rd | 2 man/drake_config.Rd | 2 man/drake_debug.Rd | 2 man/drake_done.Rd | 2 man/drake_envir.Rd | 2 man/drake_example.Rd | 2 man/drake_examples.Rd | 2 man/drake_failed.Rd | 2 man/drake_gc.Rd | 2 man/drake_get_session_info.Rd | 2 man/drake_ggraph.Rd | 2 man/drake_graph_info.Rd | 2 man/drake_history.Rd | 2 man/drake_hpc_template_file.Rd | 2 man/drake_hpc_template_files.Rd | 2 man/drake_meta.Rd | 2 man/drake_palette.Rd | 2 man/drake_plan.Rd | 2 man/drake_plan_source.Rd | 2 man/drake_progress.Rd | 2 man/drake_quotes.Rd | 2 man/drake_running.Rd | 2 man/drake_session.Rd | 2 man/drake_slice.Rd | 2 man/drake_strings.Rd | 2 man/drake_tempfile.Rd | 2 man/drake_tip.Rd | 2 man/drake_unquote.Rd | 2 man/evaluate.Rd | 2 man/evaluate_plan.Rd | 2 man/example_drake.Rd | 2 man/examples_drake.Rd | 2 man/expand.Rd | 2 man/expand_plan.Rd | 2 man/expose_imports.Rd | 2 man/failed.Rd | 2 man/file_in.Rd | 2 man/file_out.Rd | 2 man/file_store.Rd | 2 man/find_cache.Rd | 2 man/find_knitr_doc.Rd | 2 man/find_project.Rd | 2 man/from_plan.Rd | 2 man/future_build.Rd | 2 man/gather.Rd | 2 man/gather_by.Rd | 2 man/gather_plan.Rd | 2 man/get_cache.Rd | 2 man/get_trace.Rd | 2 man/id_chr.Rd | 2 man/ignore.Rd | 2 man/imported.Rd | 2 man/in_progress.Rd | 2 man/is_function_call.Rd | 2 man/isolate_example.Rd | 2 man/knitr_deps.Rd | 2 man/knitr_in.Rd | 2 man/legend_nodes.Rd | 2 man/load_basic_example.Rd | 2 man/load_main_example.Rd | 2 man/load_mtcars_example.Rd | 2 man/long_hash.Rd | 2 man/make.Rd | 2 man/make_imports.Rd | 2 man/make_targets.Rd | 2 man/make_with_config.Rd | 2 man/manage_memory.Rd | 2 man/map_plan.Rd | 2 man/max_useful_jobs.Rd | 2 man/migrate_drake_project.Rd | 2 man/missed.Rd | 2 man/new_cache.Rd | 2 man/no_deps.Rd | 2 man/outdated.Rd | 2 man/parallel_stages.Rd | 2 man/parallelism_choices.Rd | 2 man/plan.Rd | 2 man/plan_analyses.Rd | 2 man/plan_drake.Rd | 2 man/plan_summaries.Rd | 2 man/plan_to_code.Rd | 2 man/plan_to_notebook.Rd | 2 man/plot_graph.Rd | 2 man/predict_load_balancing.Rd | 2 man/predict_runtime.Rd | 2 man/predict_workers.Rd | 2 man/process_import.Rd | 2 man/progress.Rd | 2 man/prune_drake_graph.Rd | 2 man/r_make.Rd | 2 man/r_recipe_wildcard.Rd | 2 man/rate_limiting_times.Rd | 2 man/read_config.Rd | 2 man/read_drake_config.Rd | 2 man/read_drake_graph.Rd | 2 man/read_drake_meta.Rd | 2 man/read_drake_plan.Rd | 2 man/read_drake_seed.Rd | 2 man/read_graph.Rd | 2 man/read_plan.Rd | 2 man/read_trace.Rd | 2 man/readd.Rd | 2 man/recover_cache.Rd | 2 man/recoverable.Rd | 2 man/reduce_by.Rd | 2 man/reduce_plan.Rd | 2 man/render_drake_ggraph.Rd | 2 man/render_drake_graph.Rd | 2 man/render_graph.Rd | 2 man/render_sankey_drake_graph.Rd | 2 man/render_static_drake_graph.Rd | 2 man/render_text_drake_graph.Rd | 2 man/rescue_cache.Rd | 2 man/rs_addin_loadd.Rd | 2 man/rs_addin_r_make.Rd | 2 man/rs_addin_r_outdated.Rd | 2 man/rs_addin_r_vis_drake_graph.Rd | 2 man/running.Rd | 2 man/sankey_drake_graph.Rd | 2 man/session.Rd | 2 man/shell_file.Rd | 2 man/short_hash.Rd | 2 man/show_source.Rd | 2 man/static_drake_graph.Rd | 2 man/subtargets.Rd | 2 man/summaries.Rd | 2 man/target.Rd | 2 man/target_namespaces.Rd | 2 man/text_drake_graph.Rd | 2 man/this_cache.Rd | 2 man/tracked.Rd | 2 man/transform_plan.Rd | 2 man/transformations.Rd | 2 man/trigger.Rd | 2 man/triggers.Rd | 2 man/type_sum.expr_list.Rd | 2 man/use_drake.Rd | 2 man/vis_drake_graph.Rd | 2 man/which_clean.Rd | 2 man/workflow.Rd | 2 man/workplan.Rd | 2 tests/testthat/test-1-hash-tables.R | 1 tests/testthat/test-1-interactive.R | 3 tests/testthat/test-1-missed.R | 4 tests/testthat/test-1-queue.R | 4 tests/testthat/test-2-build.R | 2 tests/testthat/test-2-checks.R | 12 tests/testthat/test-2-lock.R | 1 tests/testthat/test-2-meta.R | 10 tests/testthat/test-2-prework.R | 2 tests/testthat/test-2-testing.R | 13 tests/testthat/test-3-lazy.R | 6 tests/testthat/test-3-utils.R | 2 tests/testthat/test-4-flow.R | 16 - tests/testthat/test-4-imports.R | 4 tests/testthat/test-4-rng.R | 2 tests/testthat/test-5-console.R | 8 tests/testthat/test-5-examples.R | 2 tests/testthat/test-5-graph.R | 12 tests/testthat/test-5-time.R | 10 tests/testthat/test-6-analysis.R | 32 +- tests/testthat/test-6-hpc.R | 10 tests/testthat/test-6-memory.R | 4 tests/testthat/test-6-plans.R | 34 +- tests/testthat/test-6-retry.R | 4 tests/testthat/test-6-triggers.R | 18 - tests/testthat/test-6-visuals.R | 6 tests/testthat/test-7-deprecate.R | 28 - tests/testthat/test-7-files.R | 10 tests/testthat/test-8-cache.R | 38 +- tests/testthat/test-8-decorated-storr.R | 2 tests/testthat/test-9-future.R | 2 236 files changed, 878 insertions(+), 622 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-09-02 0.1.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-04-19 2.0.6
2015-08-18 2.0.1
2013-12-06 1.302
2013-11-27 1.300
2012-12-19 1.200
2012-05-21 1.003
2012-04-27 1.0
2012-03-10 0.19
2012-01-16 0.10
Title: 'SQLite' Interface for R
Description: Embeds the 'SQLite' database engine in R and
provides an interface compliant with the 'DBI' package. The source for
the 'SQLite' engine is included.
Author: Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
Hadley Wickham [aut],
David A. James [aut],
Seth Falcon [aut],
SQLite Authors [ctb] (for the included SQLite sources),
Liam Healy [ctb] (for the included SQLite sources),
R Consortium [fnd],
RStudio [cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between RSQLite versions 2.2.6 dated 2021-04-11 and 2.2.7 dated 2021-04-22
RSQLite-2.2.6/RSQLite/R/rstudioConnections.R |only RSQLite-2.2.6/RSQLite/inst/icons |only RSQLite-2.2.6/RSQLite/inst/rstudio |only RSQLite-2.2.7/RSQLite/DESCRIPTION | 11 +++---- RSQLite-2.2.7/RSQLite/MD5 | 18 ++++------- RSQLite-2.2.7/RSQLite/NEWS.md | 6 +++ RSQLite-2.2.7/RSQLite/R/connect.R | 7 ---- RSQLite-2.2.7/RSQLite/R/table.R | 12 ------- RSQLite-2.2.7/RSQLite/src/DbConnection.h | 2 - RSQLite-2.2.7/RSQLite/src/vendor/sqlite3/sqlite3.c | 32 ++++++++++++++------- RSQLite-2.2.7/RSQLite/src/vendor/sqlite3/sqlite3.h | 6 +-- 11 files changed, 44 insertions(+), 50 deletions(-)
Title: Generate Random Given and Surnames
Description: Function for generating random gender and ethnicity correct first and/or last names. Names are chosen proportionally based upon their probability of appearing in a large scale data base of real names.
Author: Damian W. Betebenner [aut, cre]
Maintainer: Damian W. Betebenner <dbetebenner@nciea.org>
Diff between randomNames versions 1.4-0.0 dated 2019-03-07 and 1.5-0.0 dated 2021-04-22
DESCRIPTION | 12 - MD5 | 17 - R/zzz.R | 2 build/vignette.rds |binary data/randomNamesData.rda |binary inst/CITATION | 8 inst/NEWS | 4 inst/doc/randomNames.html | 292 ++++++----------------------- man/randomNames-package.Rd | 4 vignettes/releases/randomNames-1.5-0.0.Rmd |only 10 files changed, 93 insertions(+), 246 deletions(-)
Title: Working with Sets the Tidy Way
Description: Implements a class and methods to work with sets,
doing intersection, union, complementary sets, power sets, cartesian
product and other set operations in a "tidy" way. These set operations
are available for both classical sets and fuzzy sets. Import sets from
several formats or from other several data structures.
Author: Lluís Revilla Sancho [aut, cre]
(<https://orcid.org/0000-0001-9747-2570>),
Zebulun Arendsee [rev],
Jennifer Chang [rev]
Maintainer: Lluís Revilla Sancho <lluis.revilla@gmail.com>
Diff between BaseSet versions 0.0.15 dated 2021-03-20 and 0.0.16 dated 2021-04-22
DESCRIPTION | 7 +-- MD5 | 12 +++--- NEWS.md | 5 ++ README.md | 10 ++--- inst/doc/advanced.html | 16 ++++---- inst/doc/basic.html | 90 ++++++++++++++++++++++++------------------------- inst/doc/fuzzy.html | 20 +++++----- 7 files changed, 82 insertions(+), 78 deletions(-)
Title: UK Baby Names Data
Description: Full listing of UK baby names occurring more than three times per year between 1974 and 2020, and rankings of baby name popularity by decade from 1904 to 1994.
Author: Mine Çetinkaya-Rundel [aut, cre, cph]
(<https://orcid.org/0000-0001-6452-2420>),
Thomas J. Leeper [aut],
Nicholas Goguen-Compagnoni [aut]
Maintainer: Mine Çetinkaya-Rundel <cetinkaya.mine@gmail.com>
Diff between ukbabynames versions 0.1.1 dated 2017-06-20 and 0.2.0 dated 2021-04-22
ukbabynames-0.1.1/ukbabynames/R/data.R |only ukbabynames-0.2.0/ukbabynames/DESCRIPTION | 28 ++++-- ukbabynames-0.2.0/ukbabynames/MD5 | 30 +++++-- ukbabynames-0.2.0/ukbabynames/NAMESPACE | 4 ukbabynames-0.2.0/ukbabynames/NEWS.md | 24 +++-- ukbabynames-0.2.0/ukbabynames/R/ewbabynames.R |only ukbabynames-0.2.0/ukbabynames/R/nibabynames.R |only ukbabynames-0.2.0/ukbabynames/R/rankings.R |only ukbabynames-0.2.0/ukbabynames/R/scotbabynames.R |only ukbabynames-0.2.0/ukbabynames/R/ukbabynames.R |only ukbabynames-0.2.0/ukbabynames/README.md | 69 ++++++++-------- ukbabynames-0.2.0/ukbabynames/data/ewbabynames.rda |only ukbabynames-0.2.0/ukbabynames/data/nibabynames.rda |only ukbabynames-0.2.0/ukbabynames/data/rankings.rda |binary ukbabynames-0.2.0/ukbabynames/data/scotbabynames.rda |only ukbabynames-0.2.0/ukbabynames/data/ukbabynames.rda |binary ukbabynames-0.2.0/ukbabynames/man/ewbabynames.Rd |only ukbabynames-0.2.0/ukbabynames/man/nibabynames.Rd |only ukbabynames-0.2.0/ukbabynames/man/rankings.Rd | 61 +++++++------- ukbabynames-0.2.0/ukbabynames/man/scotbabynames.Rd |only ukbabynames-0.2.0/ukbabynames/man/ukbabynames.Rd | 78 +++++++++++-------- ukbabynames-0.2.0/ukbabynames/tests |only 22 files changed, 171 insertions(+), 123 deletions(-)
Title: Manage Data from Stock Exchange Markets
Description: Tools to perform some descriptive data analysis for assets. Manage the portfolio and capital of assets. It also downloads and organizes data from the Tehran Stock Exchange (TSE).
Author: Ali Saeb
Maintainer: Ali Saeb <ali.saeb@gmail.com>
Diff between TSEtools versions 0.2.0 dated 2021-01-24 and 0.2.1 dated 2021-04-22
TSEtools-0.2.0/TSEtools/inst/extdata/sample.csv |only TSEtools-0.2.1/TSEtools/DESCRIPTION | 9 ++++----- TSEtools-0.2.1/TSEtools/MD5 | 22 +++++++++++----------- TSEtools-0.2.1/TSEtools/R/capm.R | 4 ++-- TSEtools-0.2.1/TSEtools/R/getTSE.R | 19 +++++++++++++++++-- TSEtools-0.2.1/TSEtools/R/mcPrt.R | 10 +++++----- TSEtools-0.2.1/TSEtools/R/prtf.R | 16 ++++++++++------ TSEtools-0.2.1/TSEtools/README.md | 4 ++++ TSEtools-0.2.1/TSEtools/inst/extdata/sample.dat |only TSEtools-0.2.1/TSEtools/man/capm.Rd | 10 ++++++---- TSEtools-0.2.1/TSEtools/man/getTSE.Rd | 6 ++++-- TSEtools-0.2.1/TSEtools/man/mcPrt.Rd | 6 ++++-- TSEtools-0.2.1/TSEtools/man/prtf.Rd | 17 ++++++++++------- 13 files changed, 77 insertions(+), 46 deletions(-)
Title: Factor and Autoregressive Models for Tensor Time Series
Description: Factor and autoregressive models for matrix and tensor valued time series.
We provide functions for estimation, simulation and prediction. The models are discussed in Chen et al (2020) <DOI:10.1016/j.jeconom.2020.07.015>,
Chen et al (2020) <arXiv:1905.07530>, and Han et al (2020) <arXiv:2006.02611>.
Author: Zebang Li [aut, cre],
Ruofan Yu [aut],
Rong Chen [aut],
Yuefeng Han [aut],
Han Xiao [aut],
Dan Yang [aut]
Maintainer: Zebang Li <zl326@stat.rutgers.edu>
Diff between tensorTS versions 0.1.0 dated 2021-04-21 and 0.1.1 dated 2021-04-22
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 1 + NEWS.md | 5 +++-- R/tenAR.r | 1 + 5 files changed, 13 insertions(+), 10 deletions(-)
Title: Staged Event Trees
Description: Creates and fits staged event tree probability models,
which are probabilistic graphical models capable of representing
asymmetric conditional independence statements
for categorical variables.
Includes functions to create, plot and fit staged
event trees from data, as well as many efficient structure
learning algorithms.
References:
Collazo R. A., Görgen C. and Smith J. Q.
(2018, ISBN:9781498729604).
Görgen C., Bigatti A., Riccomagno E. and Smith J. Q. (2018)
<arXiv:1705.09457>.
Thwaites P. A., Smith, J. Q. (2017) <arXiv:1510.00186>.
Barclay L. M., Hutton J. L. and Smith J. Q. (2013)
<doi:10.1016/j.ijar.2013.05.006>.
Smith J. Q. and Anderson P. E. (2008)
<doi:10.1016/j.artint.2007.05.004>.
Author: Gherardo Varando [aut, cre] (<https://orcid.org/0000-0002-6708-1103>),
Federico Carli [aut],
Manuele Leonelli [aut] (<https://orcid.org/0000-0002-2562-5192>),
Eva Riccomagno [aut]
Maintainer: Gherardo Varando <gherardo.varando@gmail.com>
Diff between stagedtrees versions 2.0.1 dated 2020-12-08 and 2.1.0 dated 2021-04-22
DESCRIPTION | 6 MD5 | 53 +++--- NAMESPACE | 13 + NEWS.md | 13 + R/0-util-functions.R | 4 R/1-base-model-function.R | 37 ++-- R/1b-base-model-function.R | 107 ------------ R/3-inference-functions.R | 7 R/4-model-selection.R | 2 R/7-ceg-functions.R | 2 R/8-conversion-functions.R |only README.md | 251 ++++++++++++++++-------------- man/as_adj_matrix.Rd |only man/as_bn.Rd |only man/as_parentslist.Rd |only man/as_sevt.Rd | 36 +++- man/ceg2adjmat.Rd | 2 man/compare_stages.Rd | 2 man/figures/README-unnamed-chunk-17-1.png |binary man/figures/README-unnamed-chunk-18-1.png |binary man/figures/README-unnamed-chunk-19-1.png |binary man/figures/README-unnamed-chunk-20-1.png |binary man/figures/README-unnamed-chunk-21-1.png |binary man/figures/README-unnamed-chunk-22-1.png |only man/figures/README-unnamed-chunk-23-1.png |only man/print.parentslist.Rd |only man/stages_hc.Rd | 2 tests/testthat/Rplots.pdf |binary tests/testthat/test_conversions.R | 81 +++++++++ tests/testthat/test_inference.R | 24 ++ tests/testthat/test_util_functions.R | 24 ++ 31 files changed, 391 insertions(+), 275 deletions(-)
Title: Super Imposition by Translation and Rotation Growth Curve
Analysis
Description: Functions for fitting and plotting SITAR (Super
Imposition by Translation And Rotation) growth curve models. SITAR is
a shape-invariant model with a regression B-spline mean curve and
subject-specific random effects on both the measurement and age
scales. The model was first described by Lindstrom (1995)
<doi:10.1002/sim.4780141807> and developed as the SITAR method by Cole
et al (2010) <doi:10.1093/ije/dyq115>.
Author: Tim Cole [aut, cre] (<https://orcid.org/0000-0001-5711-8200>)
Maintainer: Tim Cole <tim.cole@ucl.ac.uk>
Diff between sitar versions 1.1.2 dated 2020-02-17 and 1.2.0 dated 2021-04-22
DESCRIPTION | 11 MD5 | 88 +++--- NAMESPACE | 36 ++ NEWS | 33 ++ R/LMS2z.R | 16 - R/apv_se.R | 6 R/deren.R |only R/dfpower.R | 184 +++++++++---- R/iotf.R | 2 R/ob_convertr.R |only R/optimal_design.R |only R/plot.sitar.R | 1 R/predict.sitar.R | 114 ++++---- R/sitar-package.R | 8 R/sitar.R | 297 +++++++++++++-------- R/uk90.R | 2 R/ukwhopt.R | 2 R/ukwhoterm.R | 2 R/utils-pipe.R |only R/who06.R | 2 R/who0607.R | 2 R/xyadj.R | 23 - build/partial.rdb |only build/vignette.rds |binary data/deren.rda |only data/ukwhopt.rda |binary data/ukwhoterm.rda |binary inst/doc/Fitting_models_with_SITAR.Rmd | 8 inst/doc/Fitting_models_with_SITAR.html | 314 +++++------------------ inst/doc/Optimal_design_for_centile_studies.R |only inst/doc/Optimal_design_for_centile_studies.Rmd |only inst/doc/Optimal_design_for_centile_studies.html |only man/LMS2z.Rd | 4 man/berkeley.Rd | 6 man/cdc2000.Rd | 6 man/deren.Rd |only man/dfpower.Rd | 79 +++-- man/heights.Rd | 6 man/iotf.Rd | 8 man/ob_convertr.Rd |only man/optimal_design.Rd |only man/pipe.Rd |only man/sitar-package.Rd | 8 man/sitar.Rd | 49 ++- man/uk90.Rd | 8 man/ukwhopt.Rd | 8 man/ukwhoterm.Rd | 8 man/who06.Rd | 8 man/who0607.Rd | 8 man/xyadj.Rd | 6 vignettes/Fitting_models_with_SITAR.Rmd | 8 vignettes/Optimal_design_for_centile_studies.Rmd |only 52 files changed, 758 insertions(+), 613 deletions(-)
Title: Submit R Calculations to a 'Slurm' Cluster
Description: Functions that simplify submitting R scripts to a 'Slurm'
workload manager, in part by automating the division of embarrassingly
parallel calculations across cluster nodes.
Author: Philippe Marchand [aut],
Ian Carroll [aut],
Mike Smorul [aut],
Rachael Blake [aut],
Quentin Read [aut, cre],
Dayne Filer [ctb],
Ben Fasoli [ctb],
Pol van Rijn [ctb],
Sebastian Schubert [ctb],
Rob Gilmore [ctb],
Christopher Barrington [ctb],
Se Jong Cho [art]
Maintainer: Quentin Read <qread@sesync.org>
Diff between rslurm versions 0.5.0 dated 2019-11-15 and 0.6.0 dated 2021-04-22
DESCRIPTION | 39 - MD5 | 98 +-- NAMESPACE | 28 NEWS.md | 348 ++++++----- R/cancel_cleanup.R | 86 +- R/get_job_status.R | 124 ++-- R/get_slurm_out.R | 142 ++-- R/local_slurm_array.R |only R/print_job_status.R | 90 +- R/rslurm-deprecated.R | 16 R/rslurm-package.R | 170 ++--- R/slurm_apply.R | 400 ++++++------ R/slurm_call.R | 291 ++++----- R/slurm_job.R | 43 - R/slurm_map.R |only R/slurm_utils.R | 133 +--- README.md | 191 +++--- build/vignette.rds |binary inst/doc/rslurm.Rmd | 451 ++++++++------ inst/doc/rslurm.html | 895 +++++++++++++++-------------- inst/templates/slurm_map_R.txt |only inst/templates/slurm_run_R.txt | 46 - inst/templates/slurm_run_single_R.txt | 28 inst/templates/submit_sh.txt | 26 inst/templates/submit_single_sh.txt | 24 man/cancel_slurm.Rd | 42 - man/cleanup_files.Rd | 62 +- man/get_job_status.Rd | 56 - man/get_slurm_out.Rd | 88 +- man/local_slurm_array.Rd |only man/print_job_status-deprecated.Rd | 56 - man/rslurm-deprecated.Rd | 42 - man/rslurm-package.Rd | 188 +++--- man/slurm_apply.Rd | 280 ++++----- man/slurm_call.Rd | 203 +++--- man/slurm_job.Rd | 58 - man/slurm_map.Rd |only tests/testthat.R | 8 tests/testthat/test-local_slurm_apply.R | 203 +++--- tests/testthat/test-local_slurm_call.R | 62 -- tests/testthat/test-local_slurm_map.R |only tests/testthat/test-slurm_apply.R | 181 +++-- tests/testthat/test-slurm_call.R | 84 +- tests/testthat/test-slurm_map.R |only vignettes/_rslurm_test_apply/f.RDS |binary vignettes/_rslurm_test_apply/more_args.RDS |only vignettes/_rslurm_test_apply/params.RDS |binary vignettes/_rslurm_test_apply/slurm_run.R | 46 - vignettes/_rslurm_test_apply/submit.sh | 14 vignettes/_rslurm_test_call/f.RDS |binary vignettes/_rslurm_test_call/params.RDS |binary vignettes/_rslurm_test_call/slurm_run.R | 28 vignettes/_rslurm_test_call/submit.sh | 12 vignettes/rslurm.Rmd | 451 ++++++++------ 54 files changed, 3098 insertions(+), 2735 deletions(-)
Title: A Time-Travelling Debugger
Description: Uses provenance post-execution to help the user understand
and debug their script by providing functions to look at intermediate steps and
data values, their forwards and backwards lineage, and to understand the
steps leading up to warning and error messages. 'provDebugR' uses
provenance produced by 'rdtLite' (available on CRAN), stored in PROV-JSON format.
Author: Orenna Brand [aut],
Elizabeth Fong [aut],
Barbara Lerner [cre],
Rose Sheehan [aut],
Joseph Wonsil [aut],
Emery Boose [aut]
Maintainer: Barbara Lerner <blerner@mtholyoke.edu>
Diff between provDebugR versions 1.0 dated 2021-02-17 and 1.0.1 dated 2021-04-22
DESCRIPTION | 13 ++++++------- MD5 | 12 ++++++------ build/vignette.rds |binary inst/doc/Home.html | 10 ++++++++++ inst/doc/debug.errors.html | 10 ++++++++++ inst/doc/debug.lineage.html | 10 ++++++++++ inst/doc/debug.variables.html | 10 ++++++++++ 7 files changed, 52 insertions(+), 13 deletions(-)
Title: Integrative Subtype Generation
Description: Multi-data type subtyping, which is data type agnostic and accepts missing data. Subtyping is performed using intermediary assessments created with autoencoders and similarity calculations.
Author: Natalie Fox
Maintainer: Paul C Boutros <pboutros@mednet.ucla.edu>
Diff between iSubGen versions 1.0.0 dated 2021-04-15 and 1.0.1 dated 2021-04-22
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- R/cluster.patients.R | 1 - R/write.scaling.factors.R | 6 +++++- build/vignette.rds |binary inst/doc/iSubGenGuide.Rnw | 10 ++++------ inst/doc/iSubGenGuide.pdf | 18 +++++++++--------- man/write.scaling.factors.Rd | 6 ++++-- vignettes/iSubGenGuide.Rnw | 10 ++++------ 9 files changed, 39 insertions(+), 38 deletions(-)
Title: Design Experiments for Batches
Description: Distributes samples in batches while making batches homogeneous
according to their description. Allows for an arbitrary number of variables,
both numeric and categorical. For quality control it provides functions to
subset a representative sample.
Author: Lluís Revilla Sancho [aut, cre]
(<https://orcid.org/0000-0001-9747-2570>)
Maintainer: Lluís Revilla Sancho <lluis.revilla@gmail.com>
Diff between experDesign versions 0.0.4 dated 2020-09-28 and 0.1.0 dated 2021-04-22
experDesign-0.0.4/experDesign/tests/testthat/test_batch-names.R |only experDesign-0.0.4/experDesign/tests/testthat/test_create-subset.R |only experDesign-0.0.4/experDesign/tests/testthat/test_design.R |only experDesign-0.0.4/experDesign/tests/testthat/test_entropy.R |only experDesign-0.0.4/experDesign/tests/testthat/test_evaluate-helper.R |only experDesign-0.0.4/experDesign/tests/testthat/test_evaluate-index.R |only experDesign-0.0.4/experDesign/tests/testthat/test_evaluate-mad.R |only experDesign-0.0.4/experDesign/tests/testthat/test_evaluate-mean.R |only experDesign-0.0.4/experDesign/tests/testthat/test_evaluate-na.R |only experDesign-0.0.4/experDesign/tests/testthat/test_evaluate-orig.R |only experDesign-0.0.4/experDesign/tests/testthat/test_evaluate-sd.R |only experDesign-0.0.4/experDesign/tests/testthat/test_insert.R |only experDesign-0.0.4/experDesign/tests/testthat/test_replicates.R |only experDesign-0.0.4/experDesign/tests/testthat/test_simplify2matrix.R |only experDesign-0.1.0/experDesign/DESCRIPTION | 8 experDesign-0.1.0/experDesign/MD5 | 68 experDesign-0.1.0/experDesign/NEWS.md | 14 experDesign-0.1.0/experDesign/R/QC.R | 4 experDesign-0.1.0/experDesign/R/designer.R | 27 experDesign-0.1.0/experDesign/R/evaluate.R | 3 experDesign-0.1.0/experDesign/R/indexing.R | 32 experDesign-0.1.0/experDesign/R/optimum.R | 85 experDesign-0.1.0/experDesign/R/reporting.R | 12 experDesign-0.1.0/experDesign/R/spatial.R | 11 experDesign-0.1.0/experDesign/R/utils.R | 17 experDesign-0.1.0/experDesign/README.md | 175 experDesign-0.1.0/experDesign/inst/doc/experdesign.R | 90 experDesign-0.1.0/experDesign/inst/doc/experdesign.Rmd | 178 experDesign-0.1.0/experDesign/inst/doc/experdesign.html | 1830 +--------- experDesign-0.1.0/experDesign/man/inspect.Rd | 6 experDesign-0.1.0/experDesign/tests/testthat/test-batch_names.R |only experDesign-0.1.0/experDesign/tests/testthat/test-create_subset.R |only experDesign-0.1.0/experDesign/tests/testthat/test-design.R |only experDesign-0.1.0/experDesign/tests/testthat/test-entropy.R |only experDesign-0.1.0/experDesign/tests/testthat/test-evaluate_helper.R |only experDesign-0.1.0/experDesign/tests/testthat/test-evaluate_index.R |only experDesign-0.1.0/experDesign/tests/testthat/test-evaluate_mad.R |only experDesign-0.1.0/experDesign/tests/testthat/test-evaluate_mean.R |only experDesign-0.1.0/experDesign/tests/testthat/test-evaluate_na.R |only experDesign-0.1.0/experDesign/tests/testthat/test-evaluate_orig.R |only experDesign-0.1.0/experDesign/tests/testthat/test-evaluate_sd.R |only experDesign-0.1.0/experDesign/tests/testthat/test-indexing.R | 5 experDesign-0.1.0/experDesign/tests/testthat/test-insert.R |only experDesign-0.1.0/experDesign/tests/testthat/test-inspect.R | 16 experDesign-0.1.0/experDesign/tests/testthat/test-optimum.R | 25 experDesign-0.1.0/experDesign/tests/testthat/test-replicates.R |only experDesign-0.1.0/experDesign/tests/testthat/test-simplify2matrix.R |only experDesign-0.1.0/experDesign/tests/testthat/test-spatial.R | 10 experDesign-0.1.0/experDesign/vignettes/experdesign.Rmd | 178 49 files changed, 733 insertions(+), 2061 deletions(-)
Title: Detect and Check for Separation and Infinite Maximum Likelihood
Estimates
Description: Provides pre-fit and post-fit methods for detecting separation and infinite maximum likelihood estimates in generalized linear models with categorical responses. The pre-fit methods apply on binomial-response generalized liner models such as logit, probit and cloglog regression, and can be directly supplied as fitting methods to the glm() function. They solve the linear programming problems for the detection of separation developed in Konis (2007, <https://ora.ox.ac.uk/objects/uuid:8f9ee0d0-d78e-4101-9ab4-f9cbceed2a2a>) using 'ROI' <https://cran.r-project.org/package=ROI> or 'lpSolveAPI' <https://cran.r-project.org/package=lpSolveAPI>. The post-fit methods apply to models with categorical responses, including binomial-response generalized linear models and multinomial-response models, such as baseline category logits and adjacent category logits models; for example, the models implemented in the 'brglm2' <https://cran.r-project.org/package=brglm2> package. The post-fit methods successively refit the model with increasing number of iteratively reweighted least squares iterations, and monitor the ratio of the estimated standard error for each parameter to what it has been in the first iteration. According to the results in Lesaffre & Albert (1989, <https://www.jstor.org/stable/2345845>), divergence of those ratios indicates data separation.
Author: Ioannis Kosmidis [aut, cre] (<https://orcid.org/0000-0003-1556-0302>),
Dirk Schumacher [aut],
Kjell Konis [ctb]
Maintainer: Ioannis Kosmidis <ioannis.kosmidis@warwick.ac.uk>
Diff between detectseparation versions 0.1 dated 2020-03-25 and 0.2 dated 2021-04-22
DESCRIPTION | 8 MD5 | 42 +- NEWS.md | 11 R/check_infinite_estimates.R | 29 + R/detect_separation.R | 44 +- R/detectseparation-package.R | 7 R/separator_ROI.R | 12 R/separator_lpSolveAPI.R | 2 README.md | 21 - build/vignette.rds |binary inst/doc/separation.Rmd | 2 inst/doc/separation.html | 504 ++++++++++--------------------- man/check_infinite_estimates.glm.Rd | 19 - man/detect_separation.Rd | 9 man/detectseparation.Rd | 9 man/endometrial.Rd | 6 man/figures/README-unnamed-chunk-5-1.png |binary man/figures/hex_detectseparation.svg |only man/lizards.Rd | 4 tests/testthat/test-separation.R | 19 + tests/testthat/test-warnings.R |only vignettes/detectseparation.bib | 19 - vignettes/separation.Rmd | 2 23 files changed, 340 insertions(+), 429 deletions(-)
More information about detectseparation at CRAN
Permanent link
Title: Solution Paths for Linear and Logistic Regression Models with
Categorical Predictors, with SCOPE Penalty
Description: Computes solutions for linear and logistic regression models with potentially high-dimensional categorical predictors. This is done by applying a nonconvex penalty (SCOPE) and computing solutions in an efficient path-wise fashion. The scaling of the solution paths is selected automatically. Includes functionality for selecting tuning parameter lambda by k-fold cross-validation and early termination based on information criteria. Solutions are computed by cyclical block-coordinate descent, iterating an innovative dynamic programming algorithm to compute exact solutions for each block.
Author: Benjamin Stokell [aut],
Daniel Grose [ctb, cre],
Rajen Shah [ctb]
Maintainer: Daniel Grose <dan.grose@lancaster.ac.uk>
Diff between CatReg versions 2.0.1 dated 2020-11-14 and 2.0.2 dated 2021-04-22
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ R/scope.R | 6 +++--- R/scope.logistic.R | 2 +- man/scope.Rd | 2 +- man/scope.logistic.Rd | 2 +- src/doblock.cpp | 38 ++++---------------------------------- 7 files changed, 22 insertions(+), 52 deletions(-)
Title: Bayesian Estimation of the GARCH(1,1) Model with Student-t
Innovations
Description: Provides the bayesGARCH() function which performs the
Bayesian estimation of the GARCH(1,1) model with Student's t innovations as described in Ardia (2008) <doi:10.1007/978-3-540-78657-3>.
Author: David Ardia [aut, cre, cph] (<https://orcid.org/0000-0003-2823-782X>)
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between bayesGARCH versions 2.1.7 dated 2021-04-20 and 2.1.8 dated 2021-04-22
bayesGARCH-2.1.7/bayesGARCH/README |only bayesGARCH-2.1.7/bayesGARCH/man/bayesGARCH.Rd |only bayesGARCH-2.1.8/bayesGARCH/DESCRIPTION | 13 +++++++------ bayesGARCH-2.1.8/bayesGARCH/MD5 | 13 ++++++------- bayesGARCH-2.1.8/bayesGARCH/NEWS | 10 ++++++++++ bayesGARCH-2.1.8/bayesGARCH/README.md | 24 ++++++++++++------------ bayesGARCH-2.1.8/bayesGARCH/build/partial.rdb |binary bayesGARCH-2.1.8/bayesGARCH/inst/CITATION | 5 ++--- bayesGARCH-2.1.8/bayesGARCH/man/bayesGARCH_.Rd |only 9 files changed, 37 insertions(+), 28 deletions(-)
Title: Test Analysis Modules
Description: Includes marginal maximum likelihood estimation and joint maximum
likelihood estimation for unidimensional and multidimensional
item response models. The package functionality covers the
Rasch model, 2PL model, 3PL model, generalized partial credit model,
multi-faceted Rasch model, nominal item response model,
structured latent class model, mixture distribution IRT models,
and located latent class models. Latent regression models and
plausible value imputation are also supported. For details see
Adams, Wilson and Wang, 1997 <doi:10.1177/0146621697211001>,
Adams, Wilson and Wu, 1997 <doi:10.3102/10769986022001047>,
Formann, 1982 <doi:10.1002/bimj.4710240209>,
Formann, 1992 <doi:10.1080/01621459.1992.10475229>.
Author: Alexander Robitzsch [aut,cre] (<https://orcid.org/0000-0002-8226-3132>),
Thomas Kiefer [aut],
Margaret Wu [aut]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between TAM versions 3.5-19 dated 2020-05-06 and 3.6-45 dated 2021-04-22
TAM-3.5-19/TAM/R/tam_thurstonian_threshold.R |only TAM-3.6-45/TAM/DESCRIPTION | 12 TAM-3.6-45/TAM/MD5 | 162 +++++----- TAM-3.6-45/TAM/R/IRT.simulate.R | 3 TAM-3.6-45/TAM/R/RcppExports.R | 18 - TAM-3.6-45/TAM/R/designMatrices.R | 11 TAM-3.6-45/TAM/R/designMatrices.mfr.R | 3 TAM-3.6-45/TAM/R/designMatrices.mfr2.R | 118 +++---- TAM-3.6-45/TAM/R/designMatrices_aux2.R | 64 +-- TAM-3.6-45/TAM/R/tam.ctt3.R | 8 TAM-3.6-45/TAM/R/tam.fa.R | 8 TAM-3.6-45/TAM/R/tam.jml.R | 12 TAM-3.6-45/TAM/R/tam.jml.fit.R | 14 TAM-3.6-45/TAM/R/tam.linking.R | 2 TAM-3.6-45/TAM/R/tam.mml.2pl.R | 8 TAM-3.6-45/TAM/R/tam.mml.3pl.R | 69 ++-- TAM-3.6-45/TAM/R/tam.mml.mfr.R | 39 -- TAM-3.6-45/TAM/R/tam.np.R | 30 - TAM-3.6-45/TAM/R/tam.threshold.R |only TAM-3.6-45/TAM/R/tam_A_matrix2.R |only TAM-3.6-45/TAM/R/tam_aggregate_derivative_information.R |only TAM-3.6-45/TAM/R/tam_ctt_wrapper.R | 16 TAM-3.6-45/TAM/R/tam_jml_calc_xsi_compute_AXsi.R |only TAM-3.6-45/TAM/R/tam_jml_version2.R | 51 ++- TAM-3.6-45/TAM/R/tam_jml_version2_calc_xsi.R | 60 ++- TAM-3.6-45/TAM/R/tam_jml_wle.R | 150 +++++---- TAM-3.6-45/TAM/R/tam_linking_irf_discrepancy.R | 4 TAM-3.6-45/TAM/R/tam_linking_joint.R | 3 TAM-3.6-45/TAM/R/tam_linking_joint_calc_probs.R | 2 TAM-3.6-45/TAM/R/tam_mml_2pl_mstep_slope.R | 22 - TAM-3.6-45/TAM/R/tam_mml_3pl_computeB.R | 10 TAM-3.6-45/TAM/R/tam_mml_3pl_create_E.R | 8 TAM-3.6-45/TAM/R/tam_mml_3pl_mstep_item_slopes.R | 32 + TAM-3.6-45/TAM/R/tam_mml_3pl_mstep_item_slopes_gammaslope_center.R | 9 TAM-3.6-45/TAM/R/tam_mml_ic.R | 12 TAM-3.6-45/TAM/R/tam_mml_mfr_dataprep.R | 13 TAM-3.6-45/TAM/R/tam_mml_mfr_inits_beta.R | 3 TAM-3.6-45/TAM/R/tam_mml_mfr_proc_create_design_matrices.R | 4 TAM-3.6-45/TAM/R/tam_mml_mfr_proc_multiple_person_ids.R | 14 TAM-3.6-45/TAM/R/tamaan.3pl.mixture.R | 2 TAM-3.6-45/TAM/R/weighted_table.R | 5 TAM-3.6-45/TAM/build/partial.rdb |binary TAM-3.6-45/TAM/data/data.cqc01.rda |binary TAM-3.6-45/TAM/data/data.cqc02.rda |binary TAM-3.6-45/TAM/data/data.cqc03.rda |binary TAM-3.6-45/TAM/data/data.cqc04.rda |binary TAM-3.6-45/TAM/data/data.cqc05.rda |binary TAM-3.6-45/TAM/data/data.ctest1.rda |binary TAM-3.6-45/TAM/data/data.ctest2.rda |binary TAM-3.6-45/TAM/data/data.ex08.rda |binary TAM-3.6-45/TAM/data/data.ex10.rda |binary TAM-3.6-45/TAM/data/data.ex11.rda |binary TAM-3.6-45/TAM/data/data.ex12.rda |binary TAM-3.6-45/TAM/data/data.ex14.rda |binary TAM-3.6-45/TAM/data/data.ex15.rda |binary TAM-3.6-45/TAM/data/data.ex16.rda |binary TAM-3.6-45/TAM/data/data.ex17.rda |binary TAM-3.6-45/TAM/data/data.exJ03.rda |binary TAM-3.6-45/TAM/data/data.fims.Aus.Jpn.raw.rda |binary TAM-3.6-45/TAM/data/data.fims.Aus.Jpn.scored.rda |binary TAM-3.6-45/TAM/data/data.geiser.rda |binary TAM-3.6-45/TAM/data/data.gpcm.rda |binary TAM-3.6-45/TAM/data/data.janssen.rda |binary TAM-3.6-45/TAM/data/data.janssen2.rda |binary TAM-3.6-45/TAM/data/data.mc.rda |binary TAM-3.6-45/TAM/data/data.numeracy.rda |binary TAM-3.6-45/TAM/data/data.sim.facets.rda |binary TAM-3.6-45/TAM/data/data.sim.mfr.rda |binary TAM-3.6-45/TAM/data/data.sim.rasch.missing.rda |binary TAM-3.6-45/TAM/data/data.sim.rasch.pweights.rda |binary TAM-3.6-45/TAM/data/data.sim.rasch.rda |binary TAM-3.6-45/TAM/data/data.timssAusTwn.rda |binary TAM-3.6-45/TAM/data/data.timssAusTwn.scored.rda |binary TAM-3.6-45/TAM/inst/NEWS | 50 ++- TAM-3.6-45/TAM/man/tam.ctt.Rd | 6 TAM-3.6-45/TAM/man/tam.fa.Rd | 8 TAM-3.6-45/TAM/man/tam.fit.Rd | 6 TAM-3.6-45/TAM/man/tam.jml.Rd | 33 +- TAM-3.6-45/TAM/man/tam.mml.3pl.Rd | 7 TAM-3.6-45/TAM/man/tam.mml.Rd | 4 TAM-3.6-45/TAM/man/tam.wle.Rd | 6 TAM-3.6-45/TAM/src/RcppExports.cpp | 53 +++ TAM-3.6-45/TAM/src/init.c | 12 TAM-3.6-45/TAM/src/tam_rcpp_ctt.cpp | 28 - TAM-3.6-45/TAM/src/tam_rcpp_tam_jml.cpp |only 85 files changed, 725 insertions(+), 489 deletions(-)
Title: Regression Models with Break-Points / Change-Points Estimation
Description: Given a regression model, segmented `updates' it by adding one or more segmented (i.e., piece-wise linear) relationships.
Several variables with multiple breakpoints are allowed. The estimation method is discussed in Muggeo (2003, <doi:10.1002/sim.1545>)
and illustrated in Muggeo (2008, <https://www.r-project.org/doc/Rnews/Rnews_2008-1.pdf>). An approach for hypothesis testing is presented
in Muggeo (2016, <doi:10.1080/00949655.2016.1149855>), and interval estimation for the breakpoint is discussed
in Muggeo (2017, <doi:10.1111/anzs.12200>).
Author: Vito M. R. Muggeo [aut, cre] (<https://orcid.org/0000-0002-3386-4054>)
Maintainer: Vito M. R. Muggeo <vito.muggeo@unipa.it>
Diff between segmented versions 1.3-3 dated 2021-03-08 and 1.3-4 dated 2021-04-22
DESCRIPTION | 12 ++++++------ MD5 | 37 ++++++++++++++++++++----------------- NEWS | 11 +++++++++-- R/plot.segmented.R | 38 +++++++++++++++++++++++++++----------- R/seg.Ar.fit.boot.r | 8 ++++++-- R/seg.def.fit.boot.r | 8 ++++++-- R/seg.glm.fit.boot.r | 14 +++++++++----- R/seg.lm.fit.boot.r | 42 ++++++++++++++++++++++++++---------------- R/selgmented.r | 31 +++++++++++++++++++------------ data/down.R |only data/down.rda |binary data/plant.R |only data/plant.rda |binary data/stagnant.R |only data/stagnant.rda |binary man/davies.test.Rd | 2 +- man/plot.segmented.Rd | 4 ++-- man/pscore.test.rd | 2 +- man/seg.control.Rd | 2 +- man/segmented-package.Rd | 4 ++-- man/selgmented.Rd | 7 +++++-- 21 files changed, 140 insertions(+), 82 deletions(-)
Title: True Random Numbers using the ANU Quantum Random Numbers Server
Description: The ANU Quantum Random Number Generator provided by the Australian National University
generates true random numbers in real-time by measuring the quantum fluctuations of the vacuum. This package offers an interface using their API.
The electromagnetic field of the vacuum exhibits random fluctuations in phase and amplitude at all frequencies.
By carefully measuring these fluctuations, one is able to generate ultra-high bandwidth random numbers.
The quantum Random Number Generator is based on the papers by Symul et al., (2011) <doi:10.1063/1.3597793>
and Haw, et al. (2015) <doi:10.1103/PhysRevApplied.3.054004>.
The package offers functions to retrieve a sequence of random integers or hexadecimals and true random samples from a normal or uniform distribution.
Author: Siegfried Köstlmeier [aut, cre]
(<https://orcid.org/0000-0002-7221-6981>),
Boris Steipe [ctb] (<https://orcid.org/0000-0002-1134-6758>)
Maintainer: Siegfried Köstlmeier <siegfried.koestlmeier@gmail.com>
Diff between qrandom versions 1.2.3 dated 2020-09-08 and 1.2.4 dated 2021-04-22
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- build/partial.rdb |binary tests/testthat/test-qUUID.R | 2 ++ tests/testthat/test-qrandom.R | 2 ++ tests/testthat/test-qrandommaxint.R | 24 +++++++++++++----------- tests/testthat/test-qrandomnorm.R | 1 + tests/testthat/test-qrandomunif.R | 2 ++ 8 files changed, 31 insertions(+), 22 deletions(-)
Title: Models Bivariate Dependence and Produces Bivariate Return
Periods
Description: Models the dependence between two variables in the extremes, identifies most
relevant models among six models: the conditional extremes model, the Jt-KDE model
and four copulae (Gumbel, Galambos, Normal, FGM). Bivariate return periods for
the six models and bivariate level curves can be created.
Methods used in the package are described in the following reference:
Tilloy, Malamud, Winter and Joly-Laugel (2020) <doi:10.5194/nhess-20-2091-2020>
Supporting references for the conditional extremes model,
Jt-KDE model and for copula modelling are the following:
Heffernan and Tawn (2004) <doi:10.1111/j.1467-9868.2004.02050.x>
Cooley, Thibaud, Castillo and Wehner (2019) <doi:10.1007/s10687-019-00348-0>
Nelsen (2006) <doi:10.1007/0-387-28678-0>.
Author: Alois Tilloy [aut, cre] (<https://orcid.org/0000-0002-5881-0642>)
Maintainer: Alois Tilloy <alois.tilloy@kcl.ac.uk>
Diff between mobirep versions 0.2.2 dated 2021-04-20 and 0.2.3 dated 2021-04-22
mobirep-0.2.2/mobirep/man/curve.funct.a.Rd |only mobirep-0.2.2/mobirep/man/curve.funct.b.Rd |only mobirep-0.2.3/mobirep/DESCRIPTION | 15 + mobirep-0.2.3/mobirep/MD5 | 46 ++--- mobirep-0.2.3/mobirep/NAMESPACE | 3 mobirep-0.2.3/mobirep/R/BvLTDep.R | 9 - mobirep-0.2.3/mobirep/R/digit.curves.R | 11 + mobirep-0.2.3/mobirep/R/jt_kde.R | 66 +++++-- mobirep-0.2.3/mobirep/R/level_curves.R | 218 ++++--------------------- mobirep-0.2.3/mobirep/R/porto_data.R | 22 +- mobirep-0.2.3/mobirep/R/supplement.funct.R | 67 ++++++- mobirep-0.2.3/mobirep/inst/doc/usepackage.Rmd | 4 mobirep-0.2.3/mobirep/inst/doc/usepackage.html | 4 mobirep-0.2.3/mobirep/man/AnalogSel.Rd | 9 - mobirep-0.2.3/mobirep/man/Bv.LT.Dep.Rd | 8 mobirep-0.2.3/mobirep/man/Cond.mod.ap.Rd | 35 +++- mobirep-0.2.3/mobirep/man/JT.KDE.ap.Rd | 26 ++ mobirep-0.2.3/mobirep/man/Margins.mod.Rd | 1 mobirep-0.2.3/mobirep/man/curve.funct.Rd | 49 ++++- mobirep-0.2.3/mobirep/man/densi.curv.cop.Rd | 43 ++++ mobirep-0.2.3/mobirep/man/densi.curv.em.Rd | 13 + mobirep-0.2.3/mobirep/man/digit.curves.p.Rd | 8 mobirep-0.2.3/mobirep/man/evenPts.p.Rd | 7 mobirep-0.2.3/mobirep/man/fire01meantemp.Rd | 18 +- mobirep-0.2.3/mobirep/vignettes/usepackage.Rmd | 4 25 files changed, 385 insertions(+), 301 deletions(-)
Title: Estimation and Prediction Methods for High-Dimensional Mixed
Frequency Time Series Data
Description: The 'midasml' package implements estimation and prediction methods for high-dimensional mixed-frequency (MIDAS) time-series and panel data regression models. The regularized MIDAS models are estimated using orthogonal (e.g. Legendre) polynomials and sparse-group LASSO (sg-LASSO) estimator. For more information on the `midasml' approach see Babii, Ghysels, and Striaukas (2021, JBES forthcoming) <doi:10.1080/07350015.2021.1899933>. The package is equipped with the fast implementation of the sg-LASSO estimator by means of proximal block coordinate descent. High-dimensional mixed frequency time-series data can also be easily manipulated with functions provided in the package.
Author: Jonas Striaukas [cre, aut],
Andrii Babii [aut],
Eric Ghysels [aut],
Alex Kostrov [ctb] (Contributions to analytical gradients for
non-linear low-dimensional MIDAS estimation code)
Maintainer: Jonas Striaukas <jonas.striaukas@gmail.com>
Diff between midasml versions 0.1.2 dated 2021-04-21 and 0.1.3 dated 2021-04-22
DESCRIPTION | 6 +++--- MD5 | 6 +++--- src/maxlambda.f90 | 6 +++--- src/sglfitF.f90 | 8 +++++--- 4 files changed, 14 insertions(+), 12 deletions(-)
Title: ICSS Algorithm by Inclan/Tiao (1994)
Description: The Iterative Cumulative Sum of Squares (ICSS) algorithm by Inclan/Tiao (1994) <https://www.jstor.org/stable/2290916> detects multiple change points, i.e. structural break points, in the variance of a sequence of independent observations. For series of moderate size (i.e. 200 observations and beyond), the ICSS algorithm offers results comparable to those obtained by a Bayesian approach or by likelihood ration tests, without the heavy computational burden required by these approaches.
Author: Siegfried Köstlmeier [aut, cre, cph]
(<https://orcid.org/0000-0002-7221-6981>)
Maintainer: Siegfried Köstlmeier <siegfried.koestlmeier@gmail.com>
Diff between ICSS versions 1.0 dated 2020-06-02 and 1.1 dated 2021-04-22
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/ICSS.R | 18 ++++++++++++------ 3 files changed, 18 insertions(+), 12 deletions(-)
Title: Load Environment Variables from '.env'
Description: Load configuration from a '.env' file, that is
in the current working directory, into environment variables.
Author: Gábor Csárdi [aut, cre, cph]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between dotenv versions 1.0.2 dated 2017-03-01 and 1.0.3 dated 2021-04-22
dotenv-1.0.2/dotenv/inst |only dotenv-1.0.3/dotenv/DESCRIPTION | 7 +++---- dotenv-1.0.3/dotenv/MD5 | 7 ++++--- dotenv-1.0.3/dotenv/NEWS.md |only dotenv-1.0.3/dotenv/R/dotenv-package.r | 4 ++++ dotenv-1.0.3/dotenv/README.md |only 6 files changed, 11 insertions(+), 7 deletions(-)
Title: Balanced Factorial Designs
Description: Generate balanced factorial designs with crossed and nested random and fixed effects <https://github.com/mmrabe/designr>.
Author: Maximilian M. Rabe [aut, cre] (<https://orcid.org/0000-0002-2556-5644>),
Reinhold Kliegl [aut] (<https://orcid.org/0000-0002-0180-8488>),
Daniel J. Schad [aut] (<https://orcid.org/0000-0003-2586-6823>)
Maintainer: Maximilian M. Rabe <maximilian.rabe@uni-potsdam.de>
Diff between designr versions 0.1.11 dated 2021-03-07 and 0.1.12 dated 2021-04-22
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- R/simLMM.R | 7 ++++++- build/partial.rdb |binary inst/doc/design-to-dataframe.html | 2 +- man/simLMM.Rd | 2 +- 6 files changed, 18 insertions(+), 13 deletions(-)
Title: Authoring Books and Technical Documents with R Markdown
Description: Output formats and utilities for authoring books and technical documents with R Markdown.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
JJ Allaire [ctb],
Albert Kim [ctb],
Alessandro Samuel-Rosa [ctb],
Andrzej Oles [ctb],
Atsushi Yasumoto [ctb] (<https://orcid.org/0000-0002-8335-495X>),
Aust Frederik [ctb] (<https://orcid.org/0000-0003-4900-788X>),
Bastiaan Quast [ctb],
Ben Marwick [ctb],
Chester Ismay [ctb],
Christophe Dervieux [ctb],
Clifton Franklund [ctb],
Daniel Emaasit [ctb],
David Shuman [ctb],
Dean Attali [ctb],
Drew Tyre [ctb],
Ellis Valentiner [ctb],
Frans van Dunne [ctb],
Hadley Wickham [ctb],
Jeff Allen [ctb],
Jennifer Bryan [ctb],
Jonathan McPhers [ctb],
JooYoung Seo [ctb] (<https://orcid.org/0000-0002-4064-6012>),
Joyce Robbins [ctb],
Junwen Huang [ctb],
Kevin Cheung [ctb],
Kevin Ushey [ctb],
Kim Seonghyun [ctb],
Kirill Muller [ctb],
Luciano Selzer [ctb],
Matthew Lincoln [ctb],
Maximilian Held [ctb],
Michael Sachs [ctb],
Michal Bojanowski [ctb],
Nathan Werth [ctb],
Noam Ross [ctb],
Peter Hickey [ctb],
Pedro Rafael D. Marinho [ctb] (<https://orcid.org/0000-0003-1591-8300>),
Romain Lesur [ctb] (<https://orcid.org/0000-0002-0721-5595>),
Sahir Bhatnagar [ctb],
Shir Dekel [ctb] (<https://orcid.org/0000-0003-1773-2446>),
Steve Simpson [ctb],
Thierry Onkelinx [ctb] (<https://orcid.org/0000-0001-8804-4216>),
Vincent Fulco [ctb],
Yixuan Qiu [ctb],
Zhuoer Dong [ctb],
RStudio, PBC [cph],
Bartek Szopka [ctb] (The jQuery Highlight plugin),
Zeno Rocha [cph] (clipboard.js library),
jQuery Foundation [cph] (jQuery library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/resources/AUTHORS),
MathQuill contributors [ctb] (The MathQuill library; authors listed in
inst/resources/AUTHORS),
FriendCode Inc [cph, ctb] (The gitbook style, with modifications)
Maintainer: Yihui Xie <xie@yihui.name>
Diff between bookdown versions 0.21 dated 2020-10-13 and 0.22 dated 2021-04-22
DESCRIPTION | 24 +++++--- MD5 | 62 ++++++++++++-------- NAMESPACE | 2 R/bs4_book.R |only R/ebook.R | 16 ++--- R/gitbook.R | 8 +- R/html.R | 63 ++++++++++++++------- R/latex.R | 43 +++++++++++--- R/render.R | 40 ++++++++++--- R/site.R | 40 ++++++++++++- R/skeleton.R | 2 R/utils.R | 19 +++--- README.md | 54 ++++++++++++++++-- build |only inst/CITATION | 4 - inst/doc |only inst/resources/bs4_book |only inst/resources/gitbook/css/plugin-fontsettings.css | 11 +++ inst/resources/gitbook/css/style.css | 9 ++- inst/resources/gitbook/js/plugin-sharing.js | 15 ++++- inst/rmarkdown/lua/custom-environment.lua | 3 - inst/templates/bs4_book.html |only inst/templates/default.html | 36 +++++++++++- inst/templates/gitbook.html | 39 +++++++++++-- man/bookdown-package.Rd | 3 + man/bs4_book.Rd |only man/figures |only man/gitbook.Rd | 3 - man/render_book.Rd | 17 ++++- man/resolve_refs_html.Rd | 2 tests/test-rmd.R | 5 + tests/testit/test-html.R |only tests/testit/test-latex.R |only tests/testit/test-site.R |only tests/testit/test-utils.R | 27 ++++----- vignettes |only 36 files changed, 412 insertions(+), 135 deletions(-)
Title: Manipulate and Map Origin-Destination Data
Description: The aim of 'od' is to provide tools and example datasets for working with
origin-destination ('OD') datasets of the type used to describe aggregate
urban mobility patterns (Carey et al. 1981) <doi:10.1287/trsc.15.1.32>.
The package builds on functions for working with 'OD' data in the package 'stplanr',
(Lovelace and Ellison 2018) <doi:10.32614/RJ-2018-053> with a focus on computational
efficiency and support for the 'sf' class system (Pebesma 2018) <doi:10.32614/RJ-2018-009>.
With few dependencies and a simple class system based on data frames,
the package is intended to facilitate efficient analysis of 'OD' datasets
and to provide a place for developing new functions.
The package enables the creation and analysis of geographic entities
representing large scale mobility patterns,
from daily travel between zones in cities to migration between countries.
Author: Robin Lovelace [aut, cre] (<https://orcid.org/0000-0001-5679-6536>),
David Cooley [ctb]
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between od versions 0.2.0 dated 2021-03-29 and 0.2.1 dated 2021-04-22
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/aggregate.R | 19 +++++++++++++++++++ inst/doc/od.html | 20 +++++++++++--------- 5 files changed, 41 insertions(+), 16 deletions(-)
Title: Neural Multiplexing Analysis
Description: Statistical methods for whole-trial and time-domain analysis of single cell neural response to multiple stimuli presented simultaneously. The package is based on the paper by C Glynn, ST Tokdar, A Zaman, VC Caruso, JT Mohl, SM Willett, and JM Groh (2021) "Analyzing second order stochasticity of neural spiking under stimuli-bundle exposure", is in press for publication by the Annals of Applied Statistics. A preprint may be found at <arXiv:1911.04387>.
Author: Surya Tokdar <surya.tokdar@duke.edu>
Maintainer: Surya Tokdar <surya.tokdar@duke.edu>
Diff between neuromplex versions 0.0-8 dated 2020-06-04 and 1.0-1 dated 2021-04-22
neuromplex-0.0-8/neuromplex/R/dynamic_neural_model-v5.R |only neuromplex-1.0-1/neuromplex/DESCRIPTION | 10 ++--- neuromplex-1.0-1/neuromplex/MD5 | 16 ++++----- neuromplex-1.0-1/neuromplex/R/dynamic_neural_model-v6.R |only neuromplex-1.0-1/neuromplex/R/poisson_analysis.R | 27 ++++++++++------ neuromplex-1.0-1/neuromplex/man/dapp.Rd | 6 +-- neuromplex-1.0-1/neuromplex/man/mplex.preprocess.Rd | 14 +++++--- neuromplex-1.0-1/neuromplex/man/plot.dapp.Rd | 4 +- neuromplex-1.0-1/neuromplex/man/poisson.tests.Rd | 8 ++-- neuromplex-1.0-1/neuromplex/man/synthesis.dapp.Rd | 4 +- 10 files changed, 52 insertions(+), 37 deletions(-)
Title: Linguistic Matching and Accommodation
Description: Measure similarity between texts. Offers a variety of processing
tools and similarity metrics to facilitate flexible representation of texts and matching.
Implements forms of Language Style Matching (Ireland & Pennebaker, 2010) <doi:10.1037/a0020386>
and Latent Semantic Analysis (Landauer & Dumais, 1997) <doi:10.1037/0033-295X.104.2.211>.
Author: Micah Iserman
Maintainer: Micah Iserman <micah.iserman@gmail.com>
Diff between lingmatch versions 1.0.1 dated 2021-02-25 and 1.0.2 dated 2021-04-22
DESCRIPTION | 7 MD5 | 48 +++--- NEWS.md | 23 +++ R/RcppExports.R | 58 +++----- R/lingmatch.R | 214 +++++++++++++++++++----------- R/sysdata.rda |binary R/utils.R | 268 +++++++++++++++++++++++++------------- README.md | 15 +- man/download.dict.Rd | 2 man/lma_dtm.Rd | 3 man/lma_lspace.Rd | 16 +- man/lma_patcat.Rd | 28 +++ man/lma_simets.Rd | 2 man/lma_termcat.Rd | 28 ++- man/lma_weight.Rd | 18 +- man/read.dic.Rd | 12 + man/select.dict.Rd | 2 src/Makevars.win | 2 src/RcppExports.cpp | 14 - src/utils.cpp | 53 ------- tests/testthat/test-lma_dtm.R | 8 - tests/testthat/test-lma_lspace.R | 2 tests/testthat/test-lma_termcat.R | 11 + tests/testthat/test-lma_weight.R | 2 tests/testthat/test-utils.R | 121 ++++++++++++----- 25 files changed, 593 insertions(+), 364 deletions(-)
Title: Goodness-of-Fit Tests for Copulae
Description: Several Goodness-of-Fit (GoF) tests for Copulae are provided. A new hybrid test, Zhang et al. (2016) <doi:10.1016/j.jeconom.2016.02.017> is implemented which supports all of the individual tests in the package, e.g. Genest et al. (2009) <doi:10.1016/j.insmatheco.2007.10.005>. Estimation methods for the margins are provided and all the tests support parameter estimation and predefined values. The parameters are estimated by pseudo maximum likelihood but if it fails the estimation switches automatically to inversion of Kendall's tau. For reproducibility of results, the functions support the definition of seeds. Also all the tests support automatized parallelization of the bootstrapping tasks. The package provides an interface to perform new GoF tests by submitting the test statistic.
Author: Ostap Okhrin <ostap.okhrin@tu-dresden.de>,
Simon Trimborn <trimborn.econometrics@gmail.com>,
Martin Waltz <martin.waltz@tu-dresden.de>
Maintainer: Simon Trimborn <trimborn.econometrics@gmail.com>
Diff between gofCopula versions 0.3-3 dated 2020-06-14 and 0.4-1 dated 2021-04-22
gofCopula-0.3-3/gofCopula/R/SnK.R |only gofCopula-0.3-3/gofCopula/R/TnK.R |only gofCopula-0.3-3/gofCopula/R/Tstats.R |only gofCopula-0.3-3/gofCopula/R/class_gofCOP.R |only gofCopula-0.3-3/gofCopula/R/estimate_margins.R |only gofCopula-0.3-3/gofCopula/R/functions.R |only gofCopula-0.3-3/gofCopula/R/functions2d.R |only gofCopula-0.3-3/gofCopula/R/functions3d.R |only gofCopula-0.3-3/gofCopula/R/gofGetHybrid.R |only gofCopula-0.3-3/gofCopula/R/goftime.R |only gofCopula-0.3-3/gofCopula/R/margin_param_est.R |only gofCopula-0.3-3/gofCopula/R/tests.R |only gofCopula-0.3-3/gofCopula/R/tests_copula_helper.R |only gofCopula-0.3-3/gofCopula/R/tests_copula_new.R |only gofCopula-0.3-3/gofCopula/R/tests_hybrid.R |only gofCopula-0.3-3/gofCopula/R/tests_stat_PIOS.R |only gofCopula-0.3-3/gofCopula/R/tests_which.R |only gofCopula-0.3-3/gofCopula/man/plot_gofCOP.Rd |only gofCopula-0.3-3/gofCopula/man/print_gofCOP.Rd |only gofCopula-0.3-3/gofCopula/man/test_getHybrid.Rd |only gofCopula-0.3-3/gofCopula/man/test_getOutputHybrid.Rd |only gofCopula-0.3-3/gofCopula/man/test_gofco.Rd |only gofCopula-0.3-3/gofCopula/man/tests11.Rd |only gofCopula-0.3-3/gofCopula/man/tests12.Rd |only gofCopula-0.3-3/gofCopula/man/tests2.Rd |only gofCopula-0.3-3/gofCopula/man/tests_CheckTime.Rd |only gofCopula-0.3-3/gofCopula/man/tests_CustomTest.Rd |only gofCopula-0.3-3/gofCopula/man/tests_KendallCvM.Rd |only gofCopula-0.3-3/gofCopula/man/tests_KendallKS.Rd |only gofCopula-0.3-3/gofCopula/man/tests_White.Rd |only gofCopula-0.3-3/gofCopula/man/tests_copula1.Rd |only gofCopula-0.3-3/gofCopula/man/tests_copula2.Rd |only gofCopula-0.3-3/gofCopula/man/tests_copula4.Rd |only gofCopula-0.3-3/gofCopula/man/tests_copula6.Rd |only gofCopula-0.3-3/gofCopula/man/tests_copula7.Rd |only gofCopula-0.3-3/gofCopula/man/tests_gof.Rd |only gofCopula-0.3-3/gofCopula/man/tests_gofCopula4Test.Rd |only gofCopula-0.3-3/gofCopula/man/tests_gofTest4Copula.Rd |only gofCopula-0.3-3/gofCopula/man/tests_gofWhich.Rd |only gofCopula-0.3-3/gofCopula/man/tests_gofWhichCopula.Rd |only gofCopula-0.4-1/gofCopula/DESCRIPTION | 11 gofCopula-0.4-1/gofCopula/MD5 | 140 ++- gofCopula-0.4-1/gofCopula/NAMESPACE | 6 gofCopula-0.4-1/gofCopula/R/ArchmRtrans.R |only gofCopula-0.4-1/gofCopula/R/Copula4Test.R |only gofCopula-0.4-1/gofCopula/R/CopulaTestTable.R |only gofCopula-0.4-1/gofCopula/R/Test4Copula.R |only gofCopula-0.4-1/gofCopula/R/class_gofCOP_plot.R |only gofCopula-0.4-1/gofCopula/R/class_gofCOP_print.R |only gofCopula-0.4-1/gofCopula/R/datasets.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_amh.r |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_clayton.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_fgm.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_frank.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_functions.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_galambos.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_gumbel.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_joe.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_normal.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_plackett.R |only gofCopula-0.4-1/gofCopula/R/internal_PIOS_t.R |only gofCopula-0.4-1/gofCopula/R/internal_RosenblattTrans.R |only gofCopula-0.4-1/gofCopula/R/internal_Tstats.R |only gofCopula-0.4-1/gofCopula/R/internal_bootstrap.R |only gofCopula-0.4-1/gofCopula/R/internal_est_margin_param.R |only gofCopula-0.4-1/gofCopula/R/internal_est_margins.R |only gofCopula-0.4-1/gofCopula/R/internal_est_time.R |only gofCopula-0.4-1/gofCopula/R/internal_extract_cop_obj.R |only gofCopula-0.4-1/gofCopula/R/internal_hybrid.R |only gofCopula-0.4-1/gofCopula/R/internal_param_est.R |only gofCopula-0.4-1/gofCopula/R/internal_rotateCopula.R |only gofCopula-0.4-1/gofCopula/R/test_GetHybrid.R |only gofCopula-0.4-1/gofCopula/R/test_HybridOutput.R | 71 + gofCopula-0.4-1/gofCopula/R/tests_ArchmChisq.R |only gofCopula-0.4-1/gofCopula/R/tests_ArchmGamma.R |only gofCopula-0.4-1/gofCopula/R/tests_ArchmSnB.R |only gofCopula-0.4-1/gofCopula/R/tests_ArchmSnC.R |only gofCopula-0.4-1/gofCopula/R/tests_CheckTime.R | 305 +++++++ gofCopula-0.4-1/gofCopula/R/tests_CustomTest.R | 215 +++++ gofCopula-0.4-1/gofCopula/R/tests_KS.R |only gofCopula-0.4-1/gofCopula/R/tests_KendallCvM.R | 203 ++++- gofCopula-0.4-1/gofCopula/R/tests_KendallKS.R | 201 ++++- gofCopula-0.4-1/gofCopula/R/tests_Kernel.R |only gofCopula-0.4-1/gofCopula/R/tests_PIOSRn.R |only gofCopula-0.4-1/gofCopula/R/tests_PIOSTn.R |only gofCopula-0.4-1/gofCopula/R/tests_RosenblattChisq.R |only gofCopula-0.4-1/gofCopula/R/tests_RosenblattGamma.R |only gofCopula-0.4-1/gofCopula/R/tests_RosenblattSnB.R |only gofCopula-0.4-1/gofCopula/R/tests_RosenblattSnC.R |only gofCopula-0.4-1/gofCopula/R/tests_White.R | 206 +++++ gofCopula-0.4-1/gofCopula/R/tests_gof.R | 620 ++++++++++++++-- gofCopula-0.4-1/gofCopula/R/tests_gofCvM.R |only gofCopula-0.4-1/gofCopula/R/tests_gofco.R | 270 +++++- gofCopula-0.4-1/gofCopula/build |only gofCopula-0.4-1/gofCopula/man/Banks.Rd | 35 gofCopula-0.4-1/gofCopula/man/CopulaTestTable.Rd |only gofCopula-0.4-1/gofCopula/man/CryptoCurrencies.Rd | 25 gofCopula-0.4-1/gofCopula/man/IndexReturns2D.Rd | 35 gofCopula-0.4-1/gofCopula/man/IndexReturns3D.Rd | 35 gofCopula-0.4-1/gofCopula/man/gof.Rd |only gofCopula-0.4-1/gofCopula/man/gofArchmChisq.Rd |only gofCopula-0.4-1/gofCopula/man/gofArchmGamma.Rd |only gofCopula-0.4-1/gofCopula/man/gofArchmSnB.Rd |only gofCopula-0.4-1/gofCopula/man/gofArchmSnC.Rd |only gofCopula-0.4-1/gofCopula/man/gofCheckTime.Rd |only gofCopula-0.4-1/gofCopula/man/gofCopula4Test.Rd |only gofCopula-0.4-1/gofCopula/man/gofCustomTest.Rd |only gofCopula-0.4-1/gofCopula/man/gofCvM.Rd |only gofCopula-0.4-1/gofCopula/man/gofGetHybrid.Rd |only gofCopula-0.4-1/gofCopula/man/gofKS.Rd |only gofCopula-0.4-1/gofCopula/man/gofKendallCvM.Rd |only gofCopula-0.4-1/gofCopula/man/gofKendallKS.Rd |only gofCopula-0.4-1/gofCopula/man/gofKernel.Rd |only gofCopula-0.4-1/gofCopula/man/gofOutputHybrid.Rd |only gofCopula-0.4-1/gofCopula/man/gofPIOSRn.Rd |only gofCopula-0.4-1/gofCopula/man/gofPIOSTn.Rd |only gofCopula-0.4-1/gofCopula/man/gofRosenblattChisq.Rd |only gofCopula-0.4-1/gofCopula/man/gofRosenblattGamma.Rd |only gofCopula-0.4-1/gofCopula/man/gofRosenblattSnB.Rd |only gofCopula-0.4-1/gofCopula/man/gofRosenblattSnC.Rd |only gofCopula-0.4-1/gofCopula/man/gofTest4Copula.Rd |only gofCopula-0.4-1/gofCopula/man/gofWhich.Rd |only gofCopula-0.4-1/gofCopula/man/gofWhichCopula.Rd |only gofCopula-0.4-1/gofCopula/man/gofWhite.Rd |only gofCopula-0.4-1/gofCopula/man/gofco.Rd |only gofCopula-0.4-1/gofCopula/man/plot.gofCOP.Rd |only gofCopula-0.4-1/gofCopula/man/print.gofCOP.Rd |only 127 files changed, 2033 insertions(+), 345 deletions(-)
Title: Bias Reduction in Binomial-Response Generalized Linear Models
Description: Fit generalized linear models with binomial responses using either an adjusted-score approach to bias reduction or maximum penalized likelihood where penalization is by Jeffreys invariant prior. These procedures return estimates with improved frequentist properties (bias, mean squared error) that are always finite even in cases where the maximum likelihood estimates are infinite (data separation). Fitting takes place by fitting generalized linear models on iteratively updated pseudo-data. The interface is essentially the same as 'glm'. More flexibility is provided by the fact that custom pseudo-data representations can be specified and used for model fitting. Functions are provided for the construction of confidence intervals for the reduced-bias estimates.
Author: Ioannis Kosmidis [aut, cre] (<https://orcid.org/0000-0003-1556-0302>)
Maintainer: Ioannis Kosmidis <ioannis.kosmidis@warwick.ac.uk>
Diff between brglm versions 0.7.1 dated 2020-10-12 and 0.7.2 dated 2021-04-22
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- R/aaa.R | 2 +- R/separation.detection.R | 9 +++++---- inst/CHANGES | 24 +++++++++++++++--------- inst/CITATION | 7 +++++-- man/brglm.Rd | 13 +++++++------ man/brglm.control.Rd | 6 +++--- man/confint.brglm.Rd | 26 ++++++++++++++------------ man/modifications.Rd | 7 +++---- man/profileObjectives.Rd | 8 ++++---- man/separation.detection.Rd | 13 ++++++------- 12 files changed, 77 insertions(+), 66 deletions(-)
Title: Time Series Forecasting Using GRNN
Description: A general regression neural network (GRNN) is a variant of a
Radial Basis Function Network characterized by a fast single-pass learning.
'tsfgrnn' allows you to forecast time series using a GRNN model Francisco
Martinez et al. (2019) <doi:10.1007/978-3-030-20521-8_17> and Weizhong Yan
(2012) <doi:10.1109/TNNLS.2012.2198074>. When the forecasting horizon
is higher than 1, two multi-step ahead forecasting strategies can be used.
The model built is autoregressive, that is, it is only based on the
observations of the time series. You can consult and plot how the
prediction was done. It is also possible to assess the forecasting accuracy
of the model using rolling origin evaluation.
Author: Maria Pilar Frias-Bustamante [aut],
Ana Maria Martinez-Rodriguez [aut],
Antonio Conde-Sanchez [aut],
Francisco Martinez [aut, cre]
Maintainer: Francisco Martinez <fmartin@ujaen.es>
Diff between tsfgrnn versions 1.0.0 dated 2021-03-08 and 1.0.1 dated 2021-04-22
DESCRIPTION | 7 ++---- MD5 | 12 +++++------ NEWS.md | 4 +++ R/forecasting.R | 4 +-- build/vignette.rds |binary inst/doc/tsfgrnn.html | 50 ++++++++++++++++++++++++------------------------ man/grnn_forecasting.Rd | 4 +-- 7 files changed, 42 insertions(+), 39 deletions(-)
Title: One-Way Tests in Independent Groups Designs
Description: Performs one-way tests in independent groups designs including homoscedastic and heteroscedastic tests. These are one-way analysis of variance (ANOVA), Welch's heteroscedastic F test, Welch's heteroscedastic F test with trimmed means and Winsorized variances, Brown-Forsythe test, Alexander-Govern test, James second order test, Kruskal-Wallis test, Scott-Smith test, Box F test and Johansen F test, Generalized tests equivalent to Parametric Bootstrap and Fiducial tests. The package performs pairwise comparisons and graphical approaches. Also, the package includes Student's t test, Welch's t test and Mann-Whitney U test for two samples. Moreover, it assesses variance homogeneity and normality of data in each group via tests and plots (Dag et al., 2018, <https://journal.r-project.org/archive/2018/RJ-2018-022/RJ-2018-022.pdf>).
Author: Osman Dag [aut, cre], Anil Dolgun [aut], N. Meric Konar [aut], Sam Weerahandi [ctb], Malwane Ananda [ctb]
Maintainer: Osman Dag <osman.dag@outlook.com>
Diff between onewaytests versions 2.5 dated 2021-01-07 and 2.6 dated 2021-04-22
DESCRIPTION | 10 +++++----- MD5 | 42 +++++++++++++++++++++--------------------- NAMESPACE | 2 +- R/ag.test.R | 4 ++-- R/aov.test.R | 5 +++-- R/bf.test.R | 4 ++-- R/box.test.R | 3 ++- R/describe.R | 3 ++- R/gp.test.R | 3 ++- R/gplot.R | 6 ++++-- R/homog.test.R | 6 +++--- R/james.test.R | 3 ++- R/johansen.test.R | 3 ++- R/kw.test.R | 3 ++- R/mw.test.R | 3 ++- R/nor.test.R | 3 ++- R/ss.test.R | 4 ++-- R/st.test.R | 3 ++- R/welch.test.R | 3 ++- R/wt.test.R | 3 ++- man/gp.test.Rd | 7 +++---- man/welch.test.Rd | 1 - 22 files changed, 68 insertions(+), 56 deletions(-)
Title: Extreme Gradient Boosting
Description: Extreme Gradient Boosting, which is an efficient implementation
of the gradient boosting framework from Chen & Guestrin (2016) <doi:10.1145/2939672.2939785>.
This package is its R interface. The package includes efficient linear
model solver and tree learning algorithms. The package can automatically
do parallel computation on a single machine which could be more than 10
times faster than existing gradient boosting packages. It supports
various objective functions, including regression, classification and ranking.
The package is made to be extensible, so that users are also allowed to define
their own objectives easily.
Author: Tianqi Chen [aut],
Tong He [aut, cre],
Michael Benesty [aut],
Vadim Khotilovich [aut],
Yuan Tang [aut] (<https://orcid.org/0000-0001-5243-233X>),
Hyunsu Cho [aut],
Kailong Chen [aut],
Rory Mitchell [aut],
Ignacio Cano [aut],
Tianyi Zhou [aut],
Mu Li [aut],
Junyuan Xie [aut],
Min Lin [aut],
Yifeng Geng [aut],
Yutian Li [aut],
XGBoost contributors [cph] (base XGBoost implementation)
Maintainer: Tong He <hetong007@gmail.com>
Diff between xgboost versions 1.3.2.1 dated 2021-01-18 and 1.4.1.1 dated 2021-04-22
DESCRIPTION | 12 MD5 | 216 ++++++------ NAMESPACE | 4 R/xgb.Booster.R | 1 R/xgb.DMatrix.R | 17 R/xgb.DMatrix.save.R | 4 R/xgb.config.R |only R/xgb.create.features.R | 4 R/xgb.cv.R | 2 R/xgb.dump.R | 1 R/xgb.save.R | 1 R/xgb.train.R | 10 R/xgboost.R | 2 inst/doc/discoverYourData.html | 8 inst/doc/xgboost.pdf |binary inst/doc/xgboostPresentation.html | 26 - inst/doc/xgboostfromJSON.html | 4 man/xgbConfig.Rd |only src/amalgamation/xgboost-all0.cc | 2 src/dmlc-core/include/dmlc/base.h | 52 ++ src/dmlc-core/include/dmlc/build_config_default.h | 12 src/dmlc-core/include/dmlc/data.h | 2 src/dmlc-core/include/dmlc/logging.h | 140 ++++--- src/dmlc-core/include/dmlc/omp.h | 1 src/dmlc-core/include/dmlc/parameter.h | 38 -- src/dmlc-core/include/dmlc/registry.h | 2 src/dmlc-core/src/io/hdfs_filesys.cc | 23 - src/include/xgboost/c_api.h | 255 ++++++++++++++ src/include/xgboost/data.h | 27 - src/include/xgboost/gbm.h | 47 +- src/include/xgboost/generic_parameters.h | 5 src/include/xgboost/global_config.h |only src/include/xgboost/json.h | 19 - src/include/xgboost/learner.h | 62 ++- src/include/xgboost/logging.h | 17 src/include/xgboost/parameter.h | 7 src/include/xgboost/predictor.h | 54 +-- src/include/xgboost/span.h | 61 +-- src/include/xgboost/tree_updater.h | 13 src/include/xgboost/version_config.h | 4 src/init.c | 4 src/src/c_api/c_api.cc | 348 +++++++++++++++---- src/src/c_api/c_api.cu | 94 ++--- src/src/c_api/c_api_utils.h |only src/src/cli_main.cc | 17 src/src/common/column_matrix.h | 5 src/src/common/common.h | 12 src/src/common/device_helpers.cuh | 265 ++++++++++++++ src/src/common/group_data.h | 85 +++- src/src/common/hist_util.cc | 111 +++--- src/src/common/hist_util.cu | 28 + src/src/common/hist_util.cuh | 5 src/src/common/hist_util.h | 5 src/src/common/host_device_vector.cu | 5 src/src/common/json.cc | 9 src/src/common/math.h | 3 src/src/common/quantile.cc | 12 src/src/common/random.h | 2 src/src/common/ranking_utils.cuh |only src/src/common/threading_utils.h | 28 - src/src/common/transform.h | 10 src/src/data/adapter.h | 149 ++++++++ src/src/data/array_interface.cu |only src/src/data/array_interface.h | 250 ++++++++------ src/src/data/data.cc | 68 +++ src/src/data/data.cu | 78 +++- src/src/data/device_adapter.cuh | 13 src/src/data/ellpack_page.cu | 16 src/src/data/simple_dmatrix.cc | 11 src/src/data/simple_dmatrix.cu | 13 src/src/gbm/gblinear.cc | 47 +- src/src/gbm/gblinear_model.cc | 2 src/src/gbm/gblinear_model.h | 3 src/src/gbm/gbtree.cc | 392 ++++++++++++++-------- src/src/gbm/gbtree.cu |only src/src/gbm/gbtree.h | 92 +++-- src/src/global_config.cc |only src/src/learner.cc | 194 ++++++---- src/src/linear/coordinate_common.h | 78 ++-- src/src/linear/updater_gpu_coordinate.cu | 5 src/src/linear/updater_shotgun.cc | 61 +-- src/src/logging.cc | 55 +-- src/src/metric/auc.cc |only src/src/metric/auc.cu |only src/src/metric/auc.h |only src/src/metric/elementwise_metric.cu | 49 +- src/src/metric/multiclass_metric.cu | 23 - src/src/metric/rank_metric.cc | 265 ++++---------- src/src/metric/rank_metric.cu | 235 ------------- src/src/metric/survival_metric.cu | 16 src/src/objective/aft_obj.cu | 2 src/src/objective/hinge.cu | 2 src/src/objective/multiclass_obj.cu | 2 src/src/objective/rank_obj.cu | 128 +++---- src/src/objective/regression_loss.h | 2 src/src/objective/regression_obj.cu | 18 - src/src/predictor/cpu_predictor.cc | 207 +++++------ src/src/predictor/gpu_predictor.cu | 264 ++++++-------- src/src/tree/gpu_hist/row_partitioner.cu | 34 + src/src/tree/gpu_hist/row_partitioner.cuh | 20 - src/src/tree/param.h | 10 src/src/tree/split_evaluator.h | 2 src/src/tree/tree_model.cc | 2 src/src/tree/updater_basemaker-inl.h | 44 +- src/src/tree/updater_colmaker.cc | 39 +- src/src/tree/updater_gpu_hist.cu | 9 src/src/tree/updater_histmaker.cc | 88 ++-- src/src/tree/updater_quantile_hist.cc | 217 ++++++++---- src/src/tree/updater_quantile_hist.h | 23 - src/src/tree/updater_refresh.cc | 34 + src/xgboost_R.cc | 53 ++ src/xgboost_R.h | 13 src/xgboost_custom.cc | 2 tests/testthat/test_basic.R | 2 tests/testthat/test_config.R |only 115 files changed, 3400 insertions(+), 2135 deletions(-)
Title: Utilities Dealing with Solar Time Such as Sun Position and Time
of Sunrise
Description: Provide utilities to work with solar time,
i.e. where noon is exactly when sun culminates.
Provides functions for computing sun position and times of sunrise and sunset.
Author: Thomas Wutzler
Maintainer: Thomas Wutzler <twutz@bgc-jena.mpg.de>
Diff between solartime versions 0.0.1 dated 2018-12-03 and 0.0.2 dated 2021-04-22
DESCRIPTION | 10 +-- MD5 | 43 +++++++-------- NEWS.md | 4 + R/utilSolarTime.R | 10 +-- build/vignette.rds |binary inst/WORDLIST |only inst/doc/overview.Rmd | 6 +- inst/doc/overview.html | 83 ++++++++++++++++++++++------- man/computeDayLength.Rd | 38 ++++++------- man/computeDayLengthDoy.Rd | 52 +++++++++--------- man/computeIsDayByHour.Rd | 48 ++++++++-------- man/computeIsDayByLocation.Rd | 82 ++++++++++++++-------------- man/computeSolarToLocalTimeDifference.Rd | 74 +++++++++++++------------- man/computeSunPosition.Rd | 38 ++++++------- man/computeSunPositionDoyHour.Rd | 88 +++++++++++++++---------------- man/computeSunriseHour.Rd | 50 ++++++++--------- man/computeSunriseHourDoy.Rd | 84 ++++++++++++++--------------- man/computeSunsetHour.Rd | 50 ++++++++--------- man/computeSunsetHourDoy.Rd | 80 ++++++++++++++-------------- man/getFractionalHours.Rd | 34 +++++------ man/getHoursAheadOfUTC.Rd | 36 ++++++------ man/getSolarTimeHour.Rd | 36 ++++++------ vignettes/overview.Rmd | 6 +- 23 files changed, 500 insertions(+), 452 deletions(-)
Title: Project Future Case Incidence
Description: Provides functions and graphics for projecting daily incidence based on past incidence, and estimates of the serial interval and reproduction number. Projections are based on a branching process using a Poisson-distributed number of new cases per day, similar to the model used for estimating R in 'EpiEstim' or in 'earlyR', and described by Nouvellet et al. (2017) <doi:10.1016/j.epidem.2017.02.012>. The package provides the S3 class 'projections' which extends 'matrix', with accessors and additional helpers for handling, subsetting, merging, or adding these objects, as well as dedicated printing and plotting methods.
Author: Thibaut Jombart [aut, cre],
Pierre Nouvellet [aut],
Sangeeta Bhatia [ctb],
Zhian N. Kamvar [ctb],
Tim Taylor [ctb],
Stephane Ghozzi [ctb]
Maintainer: Thibaut Jombart <thibautjombart@gmail.com>
Diff between projections versions 0.5.2 dated 2020-12-17 and 0.5.4 dated 2021-04-22
DESCRIPTION | 9 MD5 | 40 NEWS.md | 14 R/compute_force_infection.R | 27 R/project.R | 42 man/project.Rd | 18 tests/testthat/_snaps/plots/basic-example-plot.svg | 144 tests/testthat/_snaps/plots/evd-proj-box-no-outliers.svg | 812 ++--- tests/testthat/_snaps/plots/evd-proj-box-only.svg | 746 ++-- tests/testthat/_snaps/plots/evd-proj-full-red-ribbon-narrow-range.svg | 110 tests/testthat/_snaps/plots/evd-proj-no-box-custom-lines.svg | 166 - tests/testthat/_snaps/plots/evd-proj-no-ribbon.svg | 160 - tests/testthat/_snaps/plots/evd-proj-red-box.svg | 812 ++--- tests/testthat/_snaps/plots/evd-proj-red-ribbon.svg | 106 tests/testthat/_snaps/plots/evd-proj-ribbon-only.svg | 106 tests/testthat/_snaps/plots/evd-proj-with-incidence-incidence-and-custom.svg | 608 +-- tests/testthat/_snaps/plots/evd-proj-with-incidence-incidence-box-only.svg | 1526 ++++----- tests/testthat/_snaps/plots/evd-proj-with-incidence-incidence-no-box.svg | 1592 +++++----- tests/testthat/_snaps/plots/evd-proj-with-incidence-incidence.svg | 946 ++--- tests/testthat/_snaps/plots/evd-proj.svg | 166 - tests/testthat/test-project.R | 91 21 files changed, 4228 insertions(+), 4013 deletions(-)
Title: Monte Carlo Data Simulation Package
Description: Monte Carlo simulation allows to test different conditions given to the correct structural equation models. This package runs Monte Carlo simulations under different conditions (such as sample size or normality of data). Within the package data sets can be simulated and run based on the given model.
First, continuous and normal data sets are generated based on the given model. Later Fleishman's power method (1978) <DOI:10.1007/BF02293811> is used to add non-normality if exists.
When data generation is completed (or when generated data sets are given) model test can also be run.
Author: Fatih Orcan [aut, cre] (<https://orcid.org/0000-0003-1727-0456>)
Maintainer: Fatih Orcan <fatihorcan84@gmail.com>
Diff between MonteCarloSEM versions 0.0.1 dated 2020-09-22 and 0.0.2 dated 2021-04-22
DESCRIPTION | 9 ++++----- MD5 | 14 +++++++------- R/Input_fcors.R | 2 +- R/Input_floads.R | 2 +- R/run.sem.sim.R | 39 +++++++++++++++++++++++---------------- R/sim_CFA_Skewed.R | 2 +- man/fit.simulation.Rd | 4 ++-- man/sim.skewed.Rd | 2 +- 8 files changed, 40 insertions(+), 34 deletions(-)
Title: Convert Plot to 'grob' or 'ggplot' Object
Description: Convert plot function call (using expression or formula) to 'grob' or 'ggplot' object that compatible to the 'grid' and 'ggplot2' ecosystem. With this package, we are able to e.g. using 'cowplot' to align plots produced by 'base' graphics, 'ComplexHeatmap', 'eulerr', 'grid', 'lattice', 'magick', 'pheatmap', 'vcd' etc. by converting them to 'ggplot' objects.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggplotify versions 0.0.5 dated 2020-03-12 and 0.0.6 dated 2021-04-22
DESCRIPTION | 12 +-- MD5 | 19 +++-- NAMESPACE | 2 NEWS.md | 8 ++ R/as-ggplot.R | 24 +++++++ R/as-grob.R | 8 ++ R/rotate.R |only build/vignette.rds |binary inst/doc/ggplotify.html | 153 +++++++++++++++++++++--------------------------- man/as-grob.Rd | 3 man/as.ggplot.Rd | 4 - 11 files changed, 130 insertions(+), 103 deletions(-)
Title: Automatic Generation of Exams in R for 'Sakai'
Description: Automatic Generation of Exams in R for 'Sakai'.
Question templates in the form of the 'exams' package (see <http://www.r-exams.org/>)
are transformed into XML format required by 'Sakai'.
Author: Fuensanta Arnaldos García [aut],
María Victoria Caballero Pintado [aut],
Úrsula Faura Martínez [aut],
María Teresa Díaz Delfa [aut],
Jesús María Méndez Pérez [aut, cre],
Lourdes Molera Peris [aut],
José Antonio Palazón Ferrando [aut],
Juan José Pérez Castejón [aut],
Isabel Parra Frutos [aut],
Raúl Sánchez Sánchez [aut],
Nicolás Andrés Ubero Pascal [aut],
Nikolaus Umlauf [ctb],
Achim Zeileis [ctb] (<https://orcid.org/0000-0003-0918-3766>)
Maintainer: Jesús María Méndez Pérez <jesus.mendez@ticarum.es>
Diff between exams2sakai versions 0.2 dated 2021-04-09 and 0.3 dated 2021-04-22
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 8 ++++++++ R/exams2sakai.R | 10 ++++++++-- man/exams2sakai.Rd | 11 +++++++++++ 5 files changed, 34 insertions(+), 9 deletions(-)
Title: Core Functions to Read and Fit 13c Time Series from Breath Tests
Description: Reads several formats of 13C data (IRIS/Wagner,
BreathID) and CSV. Creates artificial sample data for testing. Fits
Maes/Ghoos, Bluck-Coward self-correcting formula using 'nls', 'nlme'.
Methods to fit breath test curves with Bayesian Stan methods are
refactored to package 'breathteststan'. For a Shiny GUI, see package
'dmenne/breathtestshiny' on github.
Author: Dieter Menne [aut, cre],
Menne Biomed Consulting Tuebingen [cph],
Benjamin Misselwitz [fnd],
Mark Fox [fnd],
Andreas Steingoetter [dtc],
University Hospital of Zurich, Dep. Gastroenterology [fnd, dtc]
Maintainer: Dieter Menne <dieter.menne@menne-biomed.de>
Diff between breathtestcore versions 0.8.0 dated 2020-07-14 and 0.8.1 dated 2021-04-22
DESCRIPTION | 15 - MD5 | 87 ++++---- R/breathtestcore.R | 2 R/breathtestfit_broom.R | 8 R/nls_fit.R | 10 build/vignette.rds |binary inst/doc/data_formats.html | 386 +++++++++---------------------------- inst/doc/methods_and_concepts.Rmd | 2 inst/doc/methods_and_concepts.html | 325 +++++++------------------------ inst/extdata/invalid_records.xml |only man/augment.breathtestfit.Rd | 92 ++++---- man/breathtest_read_function.Rd | 70 +++--- man/btcore_file.Rd | 52 ++-- man/cleanup_data.Rd | 200 +++++++++---------- man/coef.breathtestfit.Rd | 86 ++++---- man/coef_by_group.Rd | 106 +++++----- man/coef_diff_by_group.Rd | 118 +++++------ man/cum_exp_beta.Rd | 54 ++--- man/dob_to_pdr.Rd | 116 +++++------ man/exp_beta.Rd | 300 ++++++++++++++-------------- man/extract_id.Rd | 40 +-- man/nlme_fit.Rd | 162 +++++++-------- man/nls_fit.Rd | 118 +++++------ man/null_fit.Rd | 46 ++-- man/plot.breathtestfit.Rd | 86 ++++---- man/read_any_breathtest.Rd | 78 +++---- man/read_breathid.Rd | 56 ++--- man/read_breathid_xml.Rd | 88 ++++---- man/read_breathtest_excel.Rd | 92 ++++---- man/read_iris.Rd | 70 +++--- man/read_iris_csv.Rd | 70 +++--- man/sigma.breathtestnlmefit.Rd | 40 +-- man/simulate_breathtest_data.Rd | 176 ++++++++-------- man/subsample_data.Rd | 48 ++-- man/t50_maes_ghoos.Rd | 74 +++---- man/t50_maes_ghoos_scintigraphy.Rd | 54 ++--- man/tidy.breathtestfit.Rd | 88 ++++---- man/tlag_bluck_coward.Rd | 46 ++-- man/tlag_maes_ghoos.Rd | 52 ++-- man/usz_13c.Rd | 100 ++++----- man/usz_13c_a.Rd | 60 ++--- man/usz_13c_d.Rd | 136 ++++++------- tests/test-all.R | 4 tests/testthat/test_broom.R | 1 vignettes/methods_and_concepts.Rmd | 2 45 files changed, 1732 insertions(+), 2084 deletions(-)
More information about breathtestcore at CRAN
Permanent link
Title: Write Reusable, Composable and Modular R Code
Description: A modern module system for R. Organise code into hierarchical,
composable, reusable modules, and use it effortlessly across projects via a
flexible, declarative dependency loading syntax.
Author: Konrad Rudolph [aut, cre] (<https://orcid.org/0000-0002-9866-7051>),
Michael Schubert [ctb] (<https://orcid.org/0000-0002-6862-5221>)
Maintainer: Konrad Rudolph <konrad.rudolph@gmail.com>
Diff between box versions 1.0.1 dated 2021-03-20 and 1.0.2 dated 2021-04-22
box-1.0.1/box/man/figures/box.png |only box-1.0.1/box/man/figures/box.svg |only box-1.0.2/box/DESCRIPTION | 7 - box-1.0.2/box/MD5 | 63 +++++----- box-1.0.2/box/NEWS.md | 59 +++++---- box-1.0.2/box/R/box-package.r | 41 +++--- box-1.0.2/box/R/env.r | 13 +- box-1.0.2/box/R/help.r | 128 ++++++++++++--------- box-1.0.2/box/R/spec.r | 13 -- box-1.0.2/box/R/use.r | 6 box-1.0.2/box/inst/doc/box.html | 31 +++-- box-1.0.2/box/inst/doc/box.rmd | 37 ++++-- box-1.0.2/box/inst/doc/compiled-code.html | 37 ++++-- box-1.0.2/box/inst/doc/compiled-code.rmd | 13 ++ box-1.0.2/box/inst/doc/migration.html | 43 ++++--- box-1.0.2/box/inst/doc/migration.rmd | 39 ++++-- box-1.0.2/box/inst/doc/mod-env-hierarchy.html | 23 +++ box-1.0.2/box/inst/doc/mod-env-hierarchy.rmd | 13 ++ box-1.0.2/box/inst/doc/testing.html | 34 +++-- box-1.0.2/box/inst/doc/testing.rmd | 31 +++-- box-1.0.2/box/man/figures/logo.png |only box-1.0.2/box/man/figures/logo.svg |only box-1.0.2/box/man/help-internal.Rd | 13 +- box-1.0.2/box/man/help.Rd | 5 box-1.0.2/box/man/importing.Rd | 2 box-1.0.2/box/tests/testthat/mod/b/b.r |only box-1.0.2/box/tests/testthat/test-basic.r | 7 + box-1.0.2/box/tests/testthat/test-help.r | 2 box-1.0.2/box/tests/testthat/test-parse-mod-spec.r | 3 box-1.0.2/box/tests/testthat/test-pkg.r | 4 box-1.0.2/box/vignettes/box.rmd | 37 ++++-- box-1.0.2/box/vignettes/compiled-code.rmd | 13 ++ box-1.0.2/box/vignettes/migration.rmd | 39 ++++-- box-1.0.2/box/vignettes/mod-env-hierarchy.rmd | 13 ++ box-1.0.2/box/vignettes/testing.rmd | 31 +++-- 35 files changed, 528 insertions(+), 272 deletions(-)
Title: The Genie++ Hierarchical Clustering Algorithm with Noise Points
Detection
Description: A retake on the Genie algorithm - a robust
hierarchical clustering method
(Gagolewski, Bartoszuk, Cena, 2016 <DOI:10.1016/j.ins.2016.05.003>).
Now faster and more memory efficient; determining the whole hierarchy
for datasets of 10M points in low dimensional Euclidean spaces or
100K points in high-dimensional ones takes only 1-2 minutes.
Allows clustering with respect to mutual reachability distances
so that it can act as a noise point detector or a robustified version of
'HDBSCAN*' (that is able to detect a predefined number of
clusters and hence it does not dependent on the somewhat
fragile 'eps' parameter).
The package also features an implementation of economic inequity indices
(the Gini, Bonferroni index) and external cluster validity measures
(partition similarity scores; e.g., the adjusted Rand, Fowlkes-Mallows,
adjusted mutual information, pair sets index).
See also the 'Python' version of 'genieclust' available on 'PyPI', which
supports sparse data, more metrics, and even larger datasets.
Author: Marek Gagolewski [aut, cre, cph]
(<https://orcid.org/0000-0003-0637-6028>),
Maciej Bartoszuk [ctb],
Anna Cena [ctb],
Peter M. Larsen [ctb]
Maintainer: Marek Gagolewski <marek@gagolewski.com>
Diff between genieclust versions 0.9.8 dated 2021-01-08 and 1.0.0 dated 2021-04-22
DESCRIPTION | 12 +++---- MD5 | 51 ++++++++++++++++--------------- NEWS | 41 +++++++++---------------- R/RcppExports.R | 18 ++++------- R/gclust.R | 2 - R/genieclust-package.R | 2 - R/mst.R | 25 +++++++++++---- inst |only man/comparing_partitions.Rd | 14 ++++---- man/emst_mlpack.Rd | 12 +++++-- man/gclust.Rd | 2 - src/RcppExports.cpp | 14 -------- src/c_argfuns.h | 2 - src/c_compare_partitions.h | 2 - src/c_disjoint_sets.h | 2 - src/c_distance.h | 2 - src/c_genie.h | 2 - src/c_gini_disjoint_sets.h | 2 - src/c_inequity.h | 2 - src/c_int_dict.h | 2 - src/c_matrix.h | 2 - src/c_mst.h | 2 - src/c_postprocess.h | 2 - src/c_preprocess.h | 2 - src/r_compare_partitions.cpp | 14 ++++---- src/r_emst.cpp | 69 ++++++++++++++++++++++--------------------- src/r_inequity.cpp | 4 -- 27 files changed, 147 insertions(+), 157 deletions(-)
More information about epanet2toolkit at CRAN
Permanent link
Title: Sparse Tables
Description: Fast Multiplication and Marginalization of Sparse Tables.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>
Diff between sparta versions 0.7.2 dated 2021-04-03 and 0.7.3 dated 2021-04-22
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/api_sparta.R | 2 +- README.md | 2 +- 5 files changed, 15 insertions(+), 11 deletions(-)
Title: Running Operations for Vectors
Description: Lightweight library for rolling windows operations. Package enables
full control over the window length, window lag and a time indices. With a runner
one can apply any R function on a rolling windows. The package eases work with
equally and unequally spaced time series.
Author: Dawid Kałędkowski [aut, cre] (<https://orcid.org/0000-0001-9533-457X>)
Maintainer: Dawid Kałędkowski <dawid.kaledkowski@gmail.com>
Diff between runner versions 0.3.8 dated 2021-02-22 and 0.4.0 dated 2021-04-22
DESCRIPTION | 6 MD5 | 28 +-- NEWS.md | 8 - R/run.R | 78 +++------- build/vignette.rds |binary inst/doc/apply_any_r_function.html | 4 inst/tinytest/test_max_run.R | 26 +-- inst/tinytest/test_mean_run.R | 10 - inst/tinytest/test_min_run.R | 23 +-- inst/tinytest/test_runner.R | 264 +++++++++++++------------------------ inst/tinytest/test_runner_vec.R | 109 +++++++++------ inst/tinytest/test_streak_run.R | 13 - inst/tinytest/test_sum_run.R | 24 +-- man/runner.Rd | 35 ++-- src/vector_funs.h | 8 - 15 files changed, 271 insertions(+), 365 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-04 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-25 2.0.3
2020-07-19 2.0.2
2020-03-02 2.0.1
2020-02-17 2.0.0
2019-09-10 1.10.1
2019-07-11 1.10.0
2019-04-25 1.9.2
2019-04-17 1.9.1
2019-02-04 1.9
2018-01-23 1.8
2017-07-15 1.7
2017-06-08 1.6
2017-03-03 1.5
2016-02-02 1.4
2015-10-14 1.3
2015-05-11 1.2
2015-03-06 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-18 1.1.0
2019-06-24 1.0.0
Title: Correlation-Based Feature Selection for Single-Cell RNA
Sequencing Data
Description: Determining the optimal set of feature genes to characterise cell types in single-cell RNA sequencing data using stepwise regression on gene-gene correlations. <doi:10.1101/2020.10.07.330563>.
Author: Bobby Ranjan [aut, cre],
Kunal Mishra [ctb],
Shyam Lab [cph],
Bryan Hanson [ctb],
Damian Coventry [ctb],
Brandon Crosby [ctb],
Gregoire Thomas [ctb]
Maintainer: Bobby Ranjan <ranjan_bobby@gis.a-star.edu.sg>
Diff between DUBStepR versions 1.1 dated 2021-03-15 and 1.1.1 dated 2021-04-22
DESCRIPTION | 16 +++++++++------- LICENSE | 4 ++-- MD5 | 20 +++++++++++++------- R/DUBStepR.R | 9 +++++---- R/getCorrelationRange.R | 2 +- R/getFilteredData.R | 11 ++++++++--- R/getOptimalFeatureSet.R | 3 ++- build |only inst |only man/getCorrelationRange.Rd | 4 ++-- vignettes |only 11 files changed, 42 insertions(+), 27 deletions(-)
Title: Best Subset Selection in Linear, Logistic and CoxPH Models
Description: An implementation of best subset selection in generalized linear model and Cox proportional hazard model via the primal dual active set algorithm proposed by Wen, C., Zhang, A., Quan, S. and Wang, X. (2020) <doi:10.18637/jss.v094.i04>. The algorithm formulates coefficient parameters and residuals as primal and dual variables and utilizes efficient active set selection strategies based on the complementarity of the primal and dual variables.
Author: Canhong Wen [aut, cre],
Aijun Zhang [aut],
Shijie Quan [aut],
Xueqin Wang [aut]
Maintainer: Canhong Wen <wencanhong@gmail.com>
Diff between BeSS versions 2.0.2 dated 2021-01-23 and 2.0.3 dated 2021-04-22
BeSS-2.0.2/BeSS/NEWS.md |only BeSS-2.0.2/BeSS/R/data.R |only BeSS-2.0.2/BeSS/R/deviance_all.R |only BeSS-2.0.2/BeSS/R/package.R |only BeSS-2.0.2/BeSS/R/recover.R |only BeSS-2.0.2/BeSS/R/utilize.R |only BeSS-2.0.2/BeSS/README.md |only BeSS-2.0.2/BeSS/build |only BeSS-2.0.2/BeSS/data/duke.rda |only BeSS-2.0.2/BeSS/data/trim32.rda |only BeSS-2.0.2/BeSS/inst/doc |only BeSS-2.0.2/BeSS/man/BeSS-package.Rd |only BeSS-2.0.2/BeSS/man/duke.Rd |only BeSS-2.0.2/BeSS/man/trim32.Rd |only BeSS-2.0.2/BeSS/src/Algorithm.cpp |only BeSS-2.0.2/BeSS/src/Algorithm.h |only BeSS-2.0.2/BeSS/src/Data.cpp |only BeSS-2.0.2/BeSS/src/Data.h |only BeSS-2.0.2/BeSS/src/Makevars |only BeSS-2.0.2/BeSS/src/Makevars.win |only BeSS-2.0.2/BeSS/src/Metric.cpp |only BeSS-2.0.2/BeSS/src/Metric.h |only BeSS-2.0.2/BeSS/src/bess.h |only BeSS-2.0.2/BeSS/src/coxph.cpp |only BeSS-2.0.2/BeSS/src/coxph.h |only BeSS-2.0.2/BeSS/src/logistic.cpp |only BeSS-2.0.2/BeSS/src/logistic.h |only BeSS-2.0.2/BeSS/src/normalize.cpp |only BeSS-2.0.2/BeSS/src/normalize.h |only BeSS-2.0.2/BeSS/src/path.cpp |only BeSS-2.0.2/BeSS/src/path.h |only BeSS-2.0.2/BeSS/src/poisson.cpp |only BeSS-2.0.2/BeSS/src/poisson.h |only BeSS-2.0.2/BeSS/src/screening.cpp |only BeSS-2.0.2/BeSS/src/screening.h |only BeSS-2.0.2/BeSS/src/utilities.cpp |only BeSS-2.0.2/BeSS/src/utilities.h |only BeSS-2.0.2/BeSS/vignettes |only BeSS-2.0.3/BeSS/DESCRIPTION | 30 BeSS-2.0.3/BeSS/MD5 | 123 +- BeSS-2.0.3/BeSS/NAMESPACE | 75 - BeSS-2.0.3/BeSS/R/RcppExports.R | 32 BeSS-2.0.3/BeSS/R/aic.R | 88 -- BeSS-2.0.3/BeSS/R/bess.R | 1301 +++++++++++++------------------ BeSS-2.0.3/BeSS/R/bess.cox.R |only BeSS-2.0.3/BeSS/R/bess.glm.R |only BeSS-2.0.3/BeSS/R/bess.lm.R |only BeSS-2.0.3/BeSS/R/bess.one.R | 340 +------- BeSS-2.0.3/BeSS/R/coef.bess.R | 67 - BeSS-2.0.3/BeSS/R/deviance.bess.R | 125 -- BeSS-2.0.3/BeSS/R/gbess.cox.R |only BeSS-2.0.3/BeSS/R/gbess.glm.R |only BeSS-2.0.3/BeSS/R/gbess.lm.R |only BeSS-2.0.3/BeSS/R/gen.data.R | 304 +------ BeSS-2.0.3/BeSS/R/logLik.bess.R | 102 -- BeSS-2.0.3/BeSS/R/plot.bess.R | 527 ------------ BeSS-2.0.3/BeSS/R/predict.bess.R | 258 ++---- BeSS-2.0.3/BeSS/R/print.bess.R | 101 -- BeSS-2.0.3/BeSS/R/print.bess.one.R |only BeSS-2.0.3/BeSS/R/summary.bess.R | 172 +--- BeSS-2.0.3/BeSS/R/summary.bess.one.R |only BeSS-2.0.3/BeSS/README |only BeSS-2.0.3/BeSS/data/SAheart.RData |only BeSS-2.0.3/BeSS/data/gravier.RData |only BeSS-2.0.3/BeSS/data/prostate.RData |only BeSS-2.0.3/BeSS/inst/CITATION |only BeSS-2.0.3/BeSS/inst/include |only BeSS-2.0.3/BeSS/man/SAheart.Rd |only BeSS-2.0.3/BeSS/man/aic.Rd |only BeSS-2.0.3/BeSS/man/bess-internal.Rd |only BeSS-2.0.3/BeSS/man/bess.Rd | 502 +++-------- BeSS-2.0.3/BeSS/man/bess.one.Rd | 373 +++----- BeSS-2.0.3/BeSS/man/coef.bess.Rd | 83 - BeSS-2.0.3/BeSS/man/coef.bess.one.Rd |only BeSS-2.0.3/BeSS/man/deviance.bess.Rd | 68 - BeSS-2.0.3/BeSS/man/deviance.bess.one.Rd |only BeSS-2.0.3/BeSS/man/gen.data.Rd | 169 +--- BeSS-2.0.3/BeSS/man/gravier.Rd |only BeSS-2.0.3/BeSS/man/logLik.bess.Rd | 106 -- BeSS-2.0.3/BeSS/man/logLik.bess.one.Rd |only BeSS-2.0.3/BeSS/man/plot.bess.Rd | 80 - BeSS-2.0.3/BeSS/man/predict.bess.Rd | 117 -- BeSS-2.0.3/BeSS/man/predict.bess.one.Rd |only BeSS-2.0.3/BeSS/man/print.bess.Rd | 57 - BeSS-2.0.3/BeSS/man/print.bess.one.Rd |only BeSS-2.0.3/BeSS/man/prostate.Rd |only BeSS-2.0.3/BeSS/man/summary.bess.Rd | 74 - BeSS-2.0.3/BeSS/man/summary.bess.one.Rd |only BeSS-2.0.3/BeSS/src/RcppExports.cpp | 355 +++++++- BeSS-2.0.3/BeSS/src/bess.cpp | 469 ++++------- BeSS-2.0.3/BeSS/src/group.cpp |only 91 files changed, 2102 insertions(+), 3996 deletions(-)
Title: Who are You? Bayesian Prediction of Racial Category Using
Surname and Geolocation
Description: Predicts individual race/ethnicity using surname, geolocation,
and other attributes, such as gender and age. The method utilizes the Bayes'
Rule to compute the posterior probability of each racial category for any given
individual. The package implements methods described in Imai and Khanna (2015)
"Improving Ecological Inference by Predicting Individual Ethnicity from Voter
Registration Records" <DOI:10.1093/pan/mpw001>.
Author: Kabir Khanna [aut, cre],
Kosuke Imai [aut]
Maintainer: Kabir Khanna <kabirkhanna@gmail.com>
Diff between wru versions 0.1-10 dated 2020-10-22 and 0.1-11 dated 2021-04-22
DESCRIPTION | 9 +++++---- MD5 | 3 ++- data/datalist |only 3 files changed, 7 insertions(+), 5 deletions(-)
Title: Time Zone Database Information
Description: Provides an up-to-date copy of the Internet Assigned Numbers
Authority (IANA) Time Zone Database. It is updated periodically to
reflect changes made by political bodies to time zone boundaries, UTC
offsets, and daylight saving time rules. Additionally, this package
provides a C++ interface for working with the 'date' library. 'date'
provides comprehensive support for working with dates and date-times,
which this package exposes to make it easier for other R packages to
utilize. Headers are provided for calendar specific calculations,
along with a limited interface for time zone manipulations.
Author: Davis Vaughan [aut, cre],
Howard Hinnant [cph] (Author of the included date library),
RStudio [cph, fnd]
Maintainer: Davis Vaughan <davis@rstudio.com>
Diff between tzdb versions 0.1.0 dated 2021-03-04 and 0.1.1 dated 2021-04-22
DESCRIPTION | 31 ++++++++++++++++------- LICENSE.note |only MD5 | 51 +++++++++++++++++++++++++++++++++------ NAMESPACE | 3 ++ NEWS.md |only R/cpp11.R |only R/initialize.R |only R/names.R |only R/tzdb-package.R | 1 R/version.R | 11 ++++++-- R/zzz.R |only README.md | 24 ++++++++++++++++-- inst/include |only man/tzdb-package.Rd | 15 ++++++++--- man/tzdb_initialize.Rd |only man/tzdb_names.Rd |only man/tzdb_version.Rd | 7 +++-- src |only tests/testthat/test-initialize.R |only tests/testthat/test-names.R |only 20 files changed, 114 insertions(+), 29 deletions(-)
Title: R to Solr Interface
Description: A comprehensive R API for querying Apache Solr databases.
A Solr core is represented as a data frame or list that
supports Solr-side filtering, sorting,
transformation and aggregation, all through the familiar
base R API. Queries are processed
lazily, i.e., a query is only sent to the database when
the data are required.
Author: Michael Lawrence, Gabe Becker, Jan Vogel
Maintainer: Michael Lawrence <michafla@gene.com>
Diff between rsolr versions 0.0.10 dated 2020-10-12 and 0.0.11 dated 2021-04-22
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/test.R | 5 ++--- R/zzz.R | 10 ---------- build/vignette.rds |binary inst/doc/intro.pdf |binary 6 files changed, 10 insertions(+), 21 deletions(-)
Title: Downloading, Reading and Analysing POF Microdata
Description: Provides tools for downloading, reading and analysing the POF,
a household survey from Brazilian Institute of Geography and Statistics - IBGE.
The data must be downloaded from the official website <https://www.ibge.gov.br/>.
Further analysis must be made using package 'survey'.
Author: Gabriel Assuncao [aut, cre],
Luna Hidalgo [aut],
Douglas Braga [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between POFIBGE versions 0.1.0 dated 2020-12-16 and 0.1.1 dated 2021-04-22
DESCRIPTION | 17 MD5 | 36 NAMESPACE | 2 R/example.R | 4 R/get_pof.R | 61 - R/pof_deflator.R | 13 R/pof_design.R | 13 R/pof_labeller.R | 47 R/read_pof.R | 14 inst/extdata/deflatorexample.xls |binary inst/extdata/dictionaryexample.xls |binary inst/extdata/exampledata.txt | 2218 +++++++++++++------------------------ inst/extdata/input_example.txt | 921 +++++++++++---- man/get_pof.Rd | 8 man/pof_deflator.Rd | 4 man/pof_design.Rd | 4 man/pof_example.Rd | 2 man/pof_labeller.Rd | 2 man/read_pof.Rd | 6 19 files changed, 1672 insertions(+), 1700 deletions(-)
Title: Downloading, Reading and Analysing PNADC Microdata
Description: Provides tools for downloading, reading and analysing the PNADC,
a household survey from Brazilian Institute of Geography and Statistics - IBGE.
The data must be downloaded from the official website <https://www.ibge.gov.br/>.
Further analysis must be made using package 'survey'.
Author: Douglas Braga [aut],
Gabriel Assuncao [aut, cre],
Luna Hidalgo [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between PNADcIBGE versions 0.6.2 dated 2021-01-26 and 0.6.3 dated 2021-04-22
DESCRIPTION | 11 ++--- MD5 | 22 +++++------ NAMESPACE | 2 + R/example.R | 4 +- R/get_pnadc.R | 100 ++++++++++++++++++++++++++++++++++----------------- R/pnadc_deflator.R | 6 +-- R/pnadc_design.R | 10 ++--- R/pnadc_labeller.R | 4 +- R/read_pnadc.R | 4 +- man/get_pnadc.Rd | 6 +-- man/pnadc_design.Rd | 4 +- man/pnadc_example.Rd | 2 - 12 files changed, 105 insertions(+), 70 deletions(-)
Title: Methods for Graphical Models and Causal Inference
Description: Functions for causal structure
learning and causal inference using graphical models. The main algorithms
for causal structure learning are PC (for observational data without hidden
variables), FCI and RFCI (for observational data with hidden variables),
and GIES (for a mix of data from observational studies
(i.e. observational data) and data from experiments
involving interventions (i.e. interventional data) without hidden
variables). For causal inference the IDA algorithm, the Generalized
Backdoor Criterion (GBC), the Generalized Adjustment Criterion (GAC)
and some related functions are implemented. Functions for incorporating
background knowledge are provided.
Author: Markus Kalisch [aut, cre],
Alain Hauser [aut],
Martin Maechler [aut],
Diego Colombo [ctb],
Doris Entner [ctb],
Patrik Hoyer [ctb],
Antti Hyttinen [ctb],
Jonas Peters [ctb],
Nicoletta Andri [ctb],
Emilija Perkovic [ctb],
Preetam Nandy [ctb],
Philipp Ruetimann [ctb],
Daniel Stekhoven [ctb],
Manuel Schuerch [ctb],
Marco Eigenmann [ctb],
Leonard Henckel [ctb],
Joris Mooij [ctb]
Maintainer: Markus Kalisch <kalisch@stat.math.ethz.ch>
Diff between pcalg versions 2.7-1 dated 2021-01-09 and 2.7-2 dated 2021-04-22
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/AllClasses.R | 2 +- build/vignette.rds |binary inst/doc/pcalgDoc.pdf |binary inst/doc/vignette2018.pdf |binary man/fciPlus.Rd | 44 ++++++++++++++++++++++---------------------- 7 files changed, 33 insertions(+), 33 deletions(-)
Title: Multiple Locus Association Mapping on a Genome-Wide Scale
Description: An implementation of multiple-locus association mapping on a genome-wide scale. 'Eagle' can handle inbred and outbred study populations, populations of arbitrary unknown complexity, and data larger than the memory capacity of the computer. Since 'Eagle' is based on linear mixed models, it is best suited to the analysis of data on continuous traits. However, it can tolerate non-normal data. 'Eagle' reports, as its findings, the best set of snp in strongest association with a trait. For users unfamiliar with R, to perform an analysis, run 'OpenGUI()'. This opens a web browser to the menu-driven user interface for the input of data, and for performing genome-wide analysis.
Author: Andrew George [aut, cre],
Joshua Bowden [ctb],
Ryan Stephenson [ctb],
Hyun Kang [ctb],
Noah Zaitlen [ctb],
Claire Wade [ctb],
Andrew Kirby [ctb],
David Heckerman [ctb],
Mark Daly [ctb],
Eleazar Eskin [ctb]
Maintainer: Andrew George <andrew.george@csiro.au>
Diff between Eagle versions 2.4.3 dated 2021-01-12 and 2.4.4 dated 2021-04-22
Eagle-2.4.3/Eagle/build |only Eagle-2.4.3/Eagle/inst/doc |only Eagle-2.4.3/Eagle/vignettes |only Eagle-2.4.4/Eagle/DESCRIPTION | 9 +++------ Eagle-2.4.4/Eagle/MD5 | 19 ++++--------------- Eagle-2.4.4/Eagle/NEWS | 5 +++++ Eagle-2.4.4/Eagle/R/onAttach.R | 2 +- Eagle-2.4.4/Eagle/R/print_title.R | 2 +- 8 files changed, 14 insertions(+), 23 deletions(-)
Title: 'Drat' R Archive Template
Description: Creation and use of R Repositories via helper functions
to insert packages into a repository, and to add repository information
to the current R session. Two primary types of repositories are support:
gh-pages at GitHub, as well as local repositories on either the same machine
or a local network. Drat is a recursive acronym: Drat R Archive Template.
Author: Dirk Eddelbuettel with contributions by Carl Boettiger, Neal Fultz,
Sebastian Gibb, Colin Gillespie, Jan Górecki, Matt Jones, Thomas Leeper,
Steven Pav, Jan Schulz, Christoph Stepper, Felix G.M. Ernst and Patrick
Schratz.
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between drat versions 0.1.8 dated 2020-07-18 and 0.2.0 dated 2021-04-22
ChangeLog | 116 +++++++++ DESCRIPTION | 17 - MD5 | 62 ++--- R/archivePackages.R | 7 R/initRepo.R | 30 +- R/insertPackage.R | 39 ++- R/pruneRepo.R | 19 + README.md | 71 +++-- build/vignette.rds |binary inst/NEWS.Rd | 27 ++ inst/doc/CombiningDratAndTravis.Rmd | 13 - inst/doc/CombiningDratAndTravis.html | 337 +++++----------------------- inst/doc/DratFAQ.Rmd | 22 + inst/doc/DratFAQ.html | 412 +++++++--------------------------- inst/doc/DratForPackageAuthors.Rmd | 48 ++-- inst/doc/DratForPackageAuthors.html | 417 ++++++++--------------------------- inst/doc/DratForPackageUsers.Rmd | 16 - inst/doc/DratForPackageUsers.html | 373 +++++-------------------------- inst/doc/DratStepByStep.Rmd |only inst/doc/DratStepByStep.html |only inst/doc/WhyDrat.Rmd | 12 - inst/doc/WhyDrat.html | 368 +++++------------------------- man/drat-package.Rd | 2 man/initRepo.Rd | 22 + man/insertPackage.Rd | 6 man/pruneRepo.Rd | 11 tests/skeleton_git2r.R | 157 +++++++++---- tests/version.R |only vignettes/CombiningDratAndTravis.Rmd | 13 - vignettes/DratFAQ.Rmd | 22 + vignettes/DratForPackageAuthors.Rmd | 48 ++-- vignettes/DratForPackageUsers.Rmd | 16 - vignettes/DratStepByStep.Rmd |only vignettes/WhyDrat.Rmd | 12 - 34 files changed, 961 insertions(+), 1754 deletions(-)
Title: Density Based Clustering of Applications with Noise (DBSCAN) and
Related Algorithms
Description: A fast reimplementation of several density-based algorithms of
the DBSCAN family for spatial data. Includes the clustering algorithms
DBSCAN (density-based spatial clustering of applications with noise)
and HDBSCAN (hierarchical DBSCAN), the ordering algorithm
OPTICS (ordering points to identify the clustering structure),
and the outlier detection algorithm LOF (local outlier factor).
The implementations use the kd-tree data structure (from library ANN) for faster k-nearest neighbor search.
An R interface to fast kNN and fixed-radius NN search is also provided.
Hahsler, Piekenbrock and Doran (2019) <doi:10.18637/jss.v091.i01>.
Author: Michael Hahsler [aut, cre, cph],
Matthew Piekenbrock [aut, cph],
Sunil Arya [ctb, cph],
David Mount [ctb, cph]
Maintainer: Michael Hahsler <mhahsler@lyle.smu.edu>
Diff between dbscan versions 1.1-6 dated 2021-02-26 and 1.1-7 dated 2021-04-22
DESCRIPTION | 10 +- MD5 | 63 ++++++++-------- NEWS.md | 9 ++ R/LOF.R | 88 +++++++++++++++++++---- R/RcppExports.R | 4 + R/dbscan.R | 9 -- R/frNN.R | 8 -- R/kNN.R | 19 +++-- R/kNNdist.R | 2 R/optics.R | 10 +- R/pointdensity.R | 7 - build/partial.rdb |binary build/vignette.rds |binary inst/doc/dbscan.R | 18 ++-- inst/doc/dbscan.Rnw | 19 ++--- inst/doc/dbscan.pdf |binary inst/doc/hdbscan.html | 64 ++++++---------- man/dbscan.Rd | 79 ++++++++++++-------- man/frNN.Rd | 9 +- man/kNN.Rd | 22 +++-- man/kNNdist.Rd | 44 +++++------ man/lof.Rd | 39 +++++----- man/optics.Rd | 4 - src/R_dbscan.cpp | 2 src/R_frNN.cpp | 2 src/R_kNN.cpp | 2 src/R_lof.cpp |only src/R_optics.cpp | 2 src/R_regionQuery.cpp | 2 src/R_regionQuery.h | 2 src/RcppExports.cpp | 17 ++++ tests/testthat/test-lof.R | 174 ++++++++++++++++++++++++++++++++++++++++++++-- vignettes/dbscan.Rnw | 19 ++--- 33 files changed, 501 insertions(+), 248 deletions(-)
Title: Downloading, Reading and Analysing PNAD COVID19 Microdata
Description: Provides tools for downloading, reading and analysing the PNAD COVID19,
a household survey from Brazilian Institute of Geography and Statistics - IBGE.
The data must be downloaded from the official website <https://www.ibge.gov.br/>.
Further analysis must be made using package 'survey'.
Author: Gabriel Assuncao [aut, cre],
Luna Hidalgo [aut],
Douglas Braga [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between COVIDIBGE versions 0.1.2 dated 2021-01-31 and 0.1.3 dated 2021-04-22
DESCRIPTION | 11 +++++------ MD5 | 22 +++++++++++----------- NAMESPACE | 2 ++ R/covid_deflator.R | 6 +++--- R/covid_design.R | 10 +++++----- R/covid_labeller.R | 4 ++-- R/example.R | 4 ++-- R/get_covid.R | 45 +++++++++++++++++++++++++-------------------- R/read_covid.R | 4 ++-- man/covid_design.Rd | 4 ++-- man/covid_example.Rd | 2 +- man/get_covid.Rd | 6 +++--- 12 files changed, 63 insertions(+), 57 deletions(-)
Title: Amend, Augment and Aid Analysis of John Snow's Cholera Map
Description: Amends errors, augments data and aids analysis of John Snow's map
of the 1854 London cholera outbreak.
Author: Peter Li [aut, cre]
Maintainer: Peter Li <lindbrook@gmail.com>
Diff between cholera versions 0.7.0 dated 2019-08-28 and 0.7.5 dated 2021-04-21
cholera-0.7.0/cholera/man/figures/README-unnamed-chunk-6-2.png |only cholera-0.7.5/cholera/DESCRIPTION | 13 cholera-0.7.5/cholera/MD5 | 302 ++++---- cholera-0.7.5/cholera/NAMESPACE | 11 cholera-0.7.5/cholera/NEWS | 38 - cholera-0.7.5/cholera/R/addCase.R | 25 cholera-0.7.5/cholera/R/addEuclideanPath.R | 12 cholera-0.7.5/cholera/R/addKernelDensity.R | 8 cholera-0.7.5/cholera/R/addLandmarks.R | 3 cholera-0.7.5/cholera/R/addMilePosts.R | 8 cholera-0.7.5/cholera/R/addNeighborhoodCases.R | 4 cholera-0.7.5/cholera/R/addNeighborhoodEuclidean.R | 4 cholera-0.7.5/cholera/R/addNeighborhoodWalking.R | 4 cholera-0.7.5/cholera/R/addSnow.R | 2 cholera-0.7.5/cholera/R/addWhitehead.R | 36 cholera-0.7.5/cholera/R/caseLocator.R | 10 cholera-0.7.5/cholera/R/cholera.R | 4 cholera-0.7.5/cholera/R/classifierAudit.R | 10 cholera-0.7.5/cholera/R/data.R | 20 cholera-0.7.5/cholera/R/distanceTime.R | 4 cholera-0.7.5/cholera/R/euclidean.R | 32 cholera-0.7.5/cholera/R/euclideanPath.R | 57 - 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cholera-0.7.5/cholera/R/timeSeries.R | 5 cholera-0.7.5/cholera/R/unitMeter.R | 45 - cholera-0.7.5/cholera/R/unstack.R | 2 cholera-0.7.5/cholera/R/unstackAuxiliaryFunctions.R | 4 cholera-0.7.5/cholera/R/voronoi.R | 29 cholera-0.7.5/cholera/R/walking.R | 22 cholera-0.7.5/cholera/R/walkingAuxiliaryFunctions.R | 7 cholera-0.7.5/cholera/R/walkingPath.R | 10 cholera-0.7.5/cholera/R/winterTemperatures.R |only cholera-0.7.5/cholera/R/withinRadius.R | 2 cholera-0.7.5/cholera/README.md | 52 - cholera-0.7.5/cholera/build/vignette.rds |binary cholera-0.7.5/cholera/data/oxford.weather.rda |only cholera-0.7.5/cholera/inst/doc/duplicate.missing.cases.R | 8 cholera-0.7.5/cholera/inst/doc/duplicate.missing.cases.html | 290 +------ cholera-0.7.5/cholera/inst/doc/kernel.density.R | 26 cholera-0.7.5/cholera/inst/doc/kernel.density.Rmd | 21 cholera-0.7.5/cholera/inst/doc/kernel.density.html | 260 +----- cholera-0.7.5/cholera/inst/doc/parallelization.R | 2 cholera-0.7.5/cholera/inst/doc/parallelization.Rmd | 5 cholera-0.7.5/cholera/inst/doc/parallelization.html | 208 ----- cholera-0.7.5/cholera/inst/doc/roads.R | 12 cholera-0.7.5/cholera/inst/doc/roads.Rmd | 3 cholera-0.7.5/cholera/inst/doc/roads.html | 333 ++------ cholera-0.7.5/cholera/inst/doc/tiles.polygons.R | 8 cholera-0.7.5/cholera/inst/doc/tiles.polygons.html | 374 ++-------- cholera-0.7.5/cholera/inst/doc/time.series.R | 4 cholera-0.7.5/cholera/inst/doc/time.series.html | 248 +----- cholera-0.7.5/cholera/inst/doc/unstacking.bars.R | 14 cholera-0.7.5/cholera/inst/doc/unstacking.bars.html | 360 ++------- cholera-0.7.5/cholera/man/addCase.Rd | 8 cholera-0.7.5/cholera/man/addIndexCase.Rd | 3 cholera-0.7.5/cholera/man/addKernelDensity.Rd | 4 cholera-0.7.5/cholera/man/addMilePosts.Rd | 2 cholera-0.7.5/cholera/man/addNeighborhoodCases.Rd | 4 cholera-0.7.5/cholera/man/addNeighborhoodEuclidean.Rd | 4 cholera-0.7.5/cholera/man/addNeighborhoodWalking.Rd | 4 cholera-0.7.5/cholera/man/addSnow.Rd | 2 cholera-0.7.5/cholera/man/addVoronoi.Rd | 5 cholera-0.7.5/cholera/man/addWhitehead.Rd | 6 cholera-0.7.5/cholera/man/anchor.case.Rd | 6 cholera-0.7.5/cholera/man/border.Rd | 6 cholera-0.7.5/cholera/man/cholera-package.Rd | 4 cholera-0.7.5/cholera/man/fatalities.Rd | 6 cholera-0.7.5/cholera/man/fatalities.address.Rd | 6 cholera-0.7.5/cholera/man/fatalities.unstacked.Rd | 6 cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-10-1.png |binary cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-10-2.png |binary cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-11-1.png |only cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-11-2.png |only cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-4-1.png |binary cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-4-2.png |binary cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-5-1.png |binary cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-5-2.png |binary cholera-0.7.5/cholera/man/figures/README-unnamed-chunk-6-1.png |binary 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cholera-0.7.5/cholera/man/ortho.proj.pump.vestry.Rd | 6 cholera-0.7.5/cholera/man/orthogonalProjection.Rd | 5 cholera-0.7.5/cholera/man/oxford.weather.Rd |only cholera-0.7.5/cholera/man/oxfordWeather.Rd |only cholera-0.7.5/cholera/man/pearsonResiduals.Rd | 2 cholera-0.7.5/cholera/man/plague.pit.Rd | 6 cholera-0.7.5/cholera/man/plot.euclidean.Rd | 5 cholera-0.7.5/cholera/man/plot.euclidean_path.Rd | 3 cholera-0.7.5/cholera/man/plot.iso.Rd |only cholera-0.7.5/cholera/man/plot.oxfordWeather.Rd |only cholera-0.7.5/cholera/man/plot.povertyLondon.Rd |only cholera-0.7.5/cholera/man/plot.voronoi.Rd | 4 cholera-0.7.5/cholera/man/plot.walking.Rd | 2 cholera-0.7.5/cholera/man/plot.walking_path.Rd | 2 cholera-0.7.5/cholera/man/plot.winterTemperatures.Rd |only cholera-0.7.5/cholera/man/povertyLondon.Rd |only cholera-0.7.5/cholera/man/print.euclidean.Rd | 2 cholera-0.7.5/cholera/man/print.iso.Rd |only cholera-0.7.5/cholera/man/print.walking.Rd | 2 cholera-0.7.5/cholera/man/print.walking_path.Rd | 2 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Title: Collection of Household Survey Packages Conducted by IBGE
Description: Provides access to packages developed for downloading, reading and analysing microdata
from household surveys conducted by Brazilian Institute of Geography and Statistics - IBGE.
More information can be obtained from the official website <https://www.ibge.gov.br/>.
Author: Gabriel Assuncao [aut, cre],
Luna Hidalgo [aut],
Douglas Braga [ctb]
Maintainer: Gabriel Assuncao <pacotesipd@ibge.gov.br>
Diff between SIPDIBGE versions 0.1.1 dated 2021-01-29 and 0.1.2 dated 2021-04-21
SIPDIBGE-0.1.1/SIPDIBGE/inst/extdata/sipd_logo.png |only SIPDIBGE-0.1.2/SIPDIBGE/DESCRIPTION | 11 +++++------ SIPDIBGE-0.1.2/SIPDIBGE/MD5 | 5 +++-- SIPDIBGE-0.1.2/SIPDIBGE/inst/extdata/am_logo.png |only SIPDIBGE-0.1.2/SIPDIBGE/inst/extdata/sipd_logo.PNG |only 5 files changed, 8 insertions(+), 8 deletions(-)
Title: Actuarial Functions for Non-Life Insurance Modelling
Description: Assists actuaries and other insurance modellers in pricing,
reserving and capital modelling for non-life insurance and
reinsurance modelling. Provides functions that help model
excess levels, capping and pure Incurred but not reported
claims (pure IBNR).
Includes capped mean, exposure curves and increased limit
factor curves (ILFs) for LogNormal, Gamma, Pareto, Sliced
LogNormal-Pareto and Sliced Gamma-Pareto distributions.
Includes mean, probability density function (pdf), cumulative
probability function (cdf) and inverse cumulative probability
function for Sliced LogNormal-Pareto and Sliced Gamma-Pareto
distributions.
Includes calculating pure IBNR exposure with LogNormal and
Gamma distribution for reporting delay.
Author: Yiannis Parizas [aut, cre]
Maintainer: Yiannis Parizas <yiannis.parizas@gmail.com>
Diff between NetSimR versions 0.1.0 dated 2019-08-20 and 0.1.1 dated 2021-04-21
DESCRIPTION | 11 +++--- MD5 | 30 +++++++++---------- NEWS | 5 +++ build/vignette.rds |binary inst/CITATION | 8 ++--- inst/doc/CappedMean.R | 8 ++--- inst/doc/CappedMean.Rmd | 2 - inst/doc/CappedMean.html | 58 +++++++++++++++++++++++++++--------- inst/doc/PureIBNR.R | 6 +-- inst/doc/PureIBNR.Rmd | 2 - inst/doc/PureIBNR.html | 60 ++++++++++++++++++++++++++++---------- inst/doc/SlicedDistributions.R | 6 +-- inst/doc/SlicedDistributions.html | 56 +++++++++++++++++++++++++++-------- man/NetSimR.Rd | 1 vignettes/CappedMean.Rmd | 2 - vignettes/PureIBNR.Rmd | 2 - 16 files changed, 175 insertions(+), 82 deletions(-)
Title: Access the Trello API
Description: An R client for the Trello API. Supports free-tier features such as
access to private boards, creating and updating cards and other resources,
and downloading data in a structured way.
Author: Jakub Chromec [aut, cre]
Maintainer: Jakub Chromec <chromec.jakub@gmail.com>
Diff between trelloR versions 0.7.0 dated 2021-01-28 and 0.7.1 dated 2021-04-21
DESCRIPTION | 9 MD5 | 51 ++-- NAMESPACE | 1 R/create_wrappers.R | 24 ++ R/trello_api_verb.R | 19 + R/update_wrappers.R | 2 README.md | 20 - build/vignette.rds |binary inst/doc/auth-access.Rmd | 2 inst/doc/auth-access.html | 288 ++++--------------------- inst/doc/create-update-delete.html | 286 ++++--------------------- inst/doc/getting-public-data.html | 381 ++++++++-------------------------- man/add_board.Rd | 1 man/add_card.Rd | 3 man/add_card_attachment.Rd |only man/add_checkitem.Rd | 1 man/add_checklist.Rd | 1 man/add_comment.Rd | 1 man/add_label.Rd | 1 man/add_list.Rd | 1 man/add_member.Rd | 1 man/create_resource.Rd | 1 man/update_checkitem.Rd | 2 tests/testthat/attachment.jpg |only tests/testthat/image-attribution.txt |only tests/testthat/test-get.R | 3 tests/testthat/test-put-post-delete.R | 91 +++++--- vignettes/auth-access.Rmd | 2 28 files changed, 354 insertions(+), 838 deletions(-)
Title: Nonlinear Regression for Agricultural Applications
Description: Additional nonlinear regression functions using self-start (SS) algorithms. One of the functions is the Beta growth function proposed by Yin et al. (2003) <doi:10.1093/aob/mcg029>. There are several other functions with breakpoints (e.g. linear-plateau, plateau-linear, exponential-plateau, plateau-exponential, quadratic-plateau, plateau-quadratic and bilinear), a non-rectangular hyperbola and a bell-shaped curve. Twenty one (21) new self-start (SS) functions in total. This package also supports the publication 'Nonlinear regression Models and applications in agricultural research' by Archontoulis and Miguez (2015) <doi:10.2134/agronj2012.0506>, a book chapter with similar material <doi:10.2134/appliedstatistics.2016.0003.c15> and a publication by Oddi et. al. (2019) in Ecology and Evolution <doi:10.1002/ece3.5543>. The function 'nlsLMList' uses 'nlsLM' for fitting, but it is otherwise almost identical to 'nlme::nlsList'.In addition, this release of the package provides functions for conducting simulations for 'nlme' and 'gnls' objects as well as bootstrapping. These functions are intended to work with the modeling framework of the 'nlme' package. It also provides four vignettes with extended examples.
Author: Fernando Miguez [aut, cre] (<https://orcid.org/0000-0002-4627-8329>),
José Pinheiro [ctb, cph] (author of nlme::nlsList, nlme::predict.gnls,
nlme::predict.nlme),
Douglas Bates [ctb, cph] (author of nlme::nlsList, nlme::predict.gnls,
nlme::predict.nlme),
R-core [ctb, cph]
Maintainer: Fernando Miguez <femiguez@iastate.edu>
Diff between nlraa versions 0.83 dated 2021-01-05 and 0.89 dated 2021-04-21
DESCRIPTION | 6 +-- MD5 | 37 ++++++++++++-------- NAMESPACE | 14 +++++++ R/IA_tab.R |only R/SSpquad3.R |only R/SSquadp3.R |only R/predict_nlme.R | 12 ++++-- R/predict_nls.R | 11 +++--- README.md | 45 ++++++++++++++++++++++-- build/partial.rdb |binary inst/doc/Bootstrapping.html | 67 +++++++++---------------------------- inst/doc/Models-and-Functions.html | 53 ++++++----------------------- inst/doc/nlraa-AgronJ-paper.html | 53 ++++++----------------------- inst/doc/nlraa-Oddi-LFMC.html | 53 ++++++----------------------- inst/doc/nlraa.Rmd | 26 +++++++------- inst/doc/nlraa.html | 60 ++++++++------------------------- man/IA_tab.Rd |only man/R2M.Rd |only man/SSpquad3.Rd |only man/SSquadp3.Rd |only man/predict_nlme.Rd | 19 ++++++++-- man/predict_nls.Rd | 11 +++--- vignettes/nlraa.Rmd | 26 +++++++------- 23 files changed, 211 insertions(+), 282 deletions(-)
Title: Estimation and Prediction Methods for High-Dimensional Mixed
Frequency Time Series Data
Description: The 'midasml' package implements estimation and prediction methods for high-dimensional mixed-frequency (MIDAS) time-series and panel data regression models. The regularized MIDAS models are estimated using orthogonal (e.g. Legendre) polynomials and sparse-group LASSO (sg-LASSO) estimator. For more information on the `midasml' approach see Babii, Ghysels, and Striaukas (2021, JBES forthcoming) <doi:10.1080/07350015.2021.1899933>. The package is equipped with the fast implementation of the sg-LASSO estimator by means of proximal block coordinate descent. High-dimensional mixed frequency time-series data can also be easily manipulated with functions provided in the package.
Author: Jonas Striaukas [cre, aut],
Andrii Babii [aut],
Eric Ghysels [aut],
Alex Kostrov [ctb] (Contributions to analytical gradients for
non-linear low-dimensional MIDAS estimation code)
Maintainer: Jonas Striaukas <jonas.striaukas@gmail.com>
Diff between midasml versions 0.1.0 dated 2021-04-14 and 0.1.2 dated 2021-04-21
midasml-0.1.0/midasml/build |only midasml-0.1.2/midasml/DESCRIPTION | 10 +-- midasml-0.1.2/midasml/MD5 | 47 ++++++++------- midasml-0.1.2/midasml/NAMESPACE | 27 +++++++- midasml-0.1.2/midasml/R/cv.panel.sglfit.R | 58 ++++++++++++------- midasml-0.1.2/midasml/R/cv.sglfit.R | 55 ++++++++++++------ midasml-0.1.2/midasml/R/ic.panel.sglfit.R | 11 +-- midasml-0.1.2/midasml/R/ic.sglfit.R | 9 +- midasml-0.1.2/midasml/R/midasml-package.R |only midasml-0.1.2/midasml/R/predict.cv.sglfit.R |only midasml-0.1.2/midasml/R/predict.ic.sglfit.R |only midasml-0.1.2/midasml/R/reg.panel.sgl.R | 5 - midasml-0.1.2/midasml/R/reg.sgl.R | 5 - midasml-0.1.2/midasml/R/sglfit.R | 14 ++-- midasml-0.1.2/midasml/R/sglfitpath.R | 6 + midasml-0.1.2/midasml/man/cv.panel.sglfit.Rd | 30 ++++++--- midasml-0.1.2/midasml/man/cv.sglfit.Rd | 29 ++++++--- midasml-0.1.2/midasml/man/ic.panel.sglfit.Rd | 5 - midasml-0.1.2/midasml/man/ic.sglfit.Rd | 5 - midasml-0.1.2/midasml/man/midasml-package.Rd | 20 +----- midasml-0.1.2/midasml/man/predict.cv.panel.sglfit.Rd |only midasml-0.1.2/midasml/man/predict.cv.sglfit.Rd |only midasml-0.1.2/midasml/man/predict.ic.panel.sglfit.Rd |only midasml-0.1.2/midasml/man/predict.ic.sglfit.Rd |only midasml-0.1.2/midasml/man/reg.panel.sgl.Rd | 5 - midasml-0.1.2/midasml/man/reg.sgl.Rd | 5 - midasml-0.1.2/midasml/man/sglfit.Rd | 10 +-- midasml-0.1.2/midasml/src/maxlambda.f90 | 3 midasml-0.1.2/midasml/src/midasml_init.c |only 29 files changed, 229 insertions(+), 130 deletions(-)
Title: Synoptic Climate Classification and Spatial Regionalization of
Environmental Data
Description: Set of functions to compute different types of synoptic classification methods and for analysing their effect on environmental variables. More information about the methods used in Lemus-Canovas et al. 2019 <DOI:10.1016/j.atmosres.2019.01.018>, Martin-Vide et al. 2008 <DOI:10.5194/asr-2-99-2008>, Jenkinson and Collison 1977.
Author: Marc Lemus-Canovas [aut, cre] (<https://orcid.org/0000-0002-0925-3827>),
Dominic Roye [ctb] (<https://orcid.org/0000-0002-5516-6396>)
Maintainer: Marc Lemus-Canovas <mlemus@ub.edu>
Diff between synoptReg versions 1.2.0 dated 2021-04-20 and 1.2.1 dated 2021-04-21
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/lamb_clas.R | 3 +-- R/som_clas.R | 4 ++-- R/synoptclas.R | 2 +- man/som_clas.Rd | 4 ++-- man/synoptclas.Rd | 2 +- 7 files changed, 16 insertions(+), 17 deletions(-)
Title: Get Precision of Means Under Various Designs and Sampling
Schemes
Description: Computes standard error and confidence interval of various descriptive statistics under
various designs and sampling schemes. The main function, superbPlot(), can either return a plot
or a dataframe with the statistic and its precision interval so that other plotting package
can be used. See Cousineau (2017) <doi:10.5709/acp-0214-z> for a review or Cousineau (2005)
<doi:10.20982/tqmp.01.1.p042>, Morey (2008) <doi:10.20982/tqmp.04.2.p061>, Baguley (2012)
<doi:10.3758/s13428-011-0123-7>, Cousineau & Laurencelle (2016) <doi:10.1037/met0000055>,
Cousineau & O'Brien (2014) <doi:10.3758/s13428-013-0441-z>, Calderini & Harding
<doi:10.20982/tqmp.15.1.p001>.
Author: Denis Cousineau [aut, cre],
Bradley Harding [ctb],
Marc-Andre Goulet [ctb],
Jesika Walker [art]
Maintainer: Denis Cousineau <denis.cousineau@uottawa.ca>
Diff between superb versions 0.9.4.2 dated 2021-03-20 and 0.9.5.0 dated 2021-04-21
superb-0.9.4.2/superb/R/GRD.R |only superb-0.9.4.2/superb/R/MauchlySphericityTest.R |only superb-0.9.4.2/superb/R/WinerCompoundSymmetryTest.R |only superb-0.9.4.2/superb/R/epsilon.R |only superb-0.9.4.2/superb/R/lambda.R |only superb-0.9.4.2/superb/R/plottingFunctions.r |only superb-0.9.4.2/superb/R/statistics.R |only superb-0.9.4.2/superb/inst/apa-5th.csl |only superb-0.9.4.2/superb/man/epsilon.Rd |only superb-0.9.4.2/superb/man/lambda.Rd |only superb-0.9.4.2/superb/man/two_step_transform.Rd |only superb-0.9.4.2/superb/tests/testthat/figure1.png |only superb-0.9.4.2/superb/tests/testthat/figure2.png |only superb-0.9.4.2/superb/tests/testthat/figure3.png |only superb-0.9.4.2/superb/tests/testthat/figure4.png |only superb-0.9.5.0/superb/DESCRIPTION | 28 superb-0.9.5.0/superb/MD5 | 172 - superb-0.9.5.0/superb/NAMESPACE | 114 superb-0.9.5.0/superb/NEWS.md | 99 superb-0.9.5.0/superb/R/CousineauLaurencelleLambda.R |only superb-0.9.5.0/superb/R/HyunhFeldtEpsilon.R |only superb-0.9.5.0/superb/R/ShroutFleissICC1k.R | 6 superb-0.9.5.0/superb/R/TMB1964r.R | 298 +- superb-0.9.5.0/superb/R/WelchDegreeOfFreedom.R |only superb-0.9.5.0/superb/R/dataFigure1.R | 96 superb-0.9.5.0/superb/R/dataFigure2.R | 92 superb-0.9.5.0/superb/R/dataFigure3.R | 105 superb-0.9.5.0/superb/R/dataFigure4.R | 100 superb-0.9.5.0/superb/R/functionsLogical.R |only superb-0.9.5.0/superb/R/functionsPlotting_advanced.R |only superb-0.9.5.0/superb/R/functionsPlotting_base.R |only superb-0.9.5.0/superb/R/functionsStatistical.R |only superb-0.9.5.0/superb/R/functionsTransformation.R |only superb-0.9.5.0/superb/R/grd.R |only superb-0.9.5.0/superb/R/runDebug.R | 71 superb-0.9.5.0/superb/R/superb-package.R | 130 - 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superb-0.9.5.0/superb/vignettes/Vignette4.Rmd | 108 superb-0.9.5.0/superb/vignettes/Vignette5.Rmd | 286 +- superb-0.9.5.0/superb/vignettes/Vignette6.Rmd |only superb-0.9.5.0/superb/vignettes/Vignette7.Rmd |only superb-0.9.5.0/superb/vignettes/Vignette8.Rmd |only 119 files changed, 3983 insertions(+), 2630 deletions(-)
Title: Computation of Risk-Based Portfolios
Description: Collection of functions designed to compute risk-based portfolios as described
in Ardia et al. (2017) <doi:10.1007/s10479-017-2474-7> and Ardia et al. (2017) <doi:10.21105/joss.00171>.
Author: David Ardia [aut, cre, cph] (<https://orcid.org/0000-0003-2823-782X>),
Kris Boudt [aut],
Jean-Philippe Gagnon-Fleury [aut]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between RiskPortfolios versions 2.1.4 dated 2020-04-20 and 2.1.5 dated 2021-04-21
RiskPortfolios-2.1.4/RiskPortfolios/README.md |only RiskPortfolios-2.1.4/RiskPortfolios/data/Industry_10.rdata |only RiskPortfolios-2.1.5/RiskPortfolios/COPYING | 680 +++++------ RiskPortfolios-2.1.5/RiskPortfolios/DESCRIPTION | 10 RiskPortfolios-2.1.5/RiskPortfolios/MD5 | 39 RiskPortfolios-2.1.5/RiskPortfolios/NAMESPACE | 28 RiskPortfolios-2.1.5/RiskPortfolios/NEWS | 4 RiskPortfolios-2.1.5/RiskPortfolios/R/RiskPortfolios.R | 7 RiskPortfolios-2.1.5/RiskPortfolios/R/covEstimation.R | 4 RiskPortfolios-2.1.5/RiskPortfolios/R/meanEstimation.R | 2 RiskPortfolios-2.1.5/RiskPortfolios/R/optimalPortfolio.R | 8 RiskPortfolios-2.1.5/RiskPortfolios/R/semidevEstimation.R | 1 RiskPortfolios-2.1.5/RiskPortfolios/build/partial.rdb |binary RiskPortfolios-2.1.5/RiskPortfolios/data/Industry_10.rda |only RiskPortfolios-2.1.5/RiskPortfolios/inst/CITATION | 68 - RiskPortfolios-2.1.5/RiskPortfolios/inst/COPYRIGHTS | 2 RiskPortfolios-2.1.5/RiskPortfolios/man/Industry_10.Rd | 42 RiskPortfolios-2.1.5/RiskPortfolios/man/RiskPortfolios.Rd | 174 +- RiskPortfolios-2.1.5/RiskPortfolios/man/covEstimation.Rd | 311 ++--- RiskPortfolios-2.1.5/RiskPortfolios/man/meanEstimation.Rd | 161 +- RiskPortfolios-2.1.5/RiskPortfolios/man/optimalPortfolio.Rd | 515 ++++---- RiskPortfolios-2.1.5/RiskPortfolios/man/semidevEstimation.Rd | 142 +- 22 files changed, 1089 insertions(+), 1109 deletions(-)
More information about RiskPortfolios at CRAN
Permanent link
Title: Steve's Toy Data for Teaching About a Variety of Methodological,
Social, and Political Topics
Description: This is a collection of various kinds of data with broad uses for teaching.
My students, and academics like me who teach the same topics I teach, should find
this useful if their teaching workflow is also built around the R programming
language. The applications are multiple but mostly cluster on topics of statistical
methodology, international relations, and political economy.
Author: Steve Miller [aut, cre] (<https://orcid.org/0000-0003-4072-6263>)
Maintainer: Steve Miller <steven.v.miller@gmail.com>
Diff between stevedata versions 0.3.1 dated 2021-04-07 and 0.4.0 dated 2021-04-21
stevedata-0.3.1/stevedata/build |only stevedata-0.3.1/stevedata/inst |only stevedata-0.3.1/stevedata/vignettes |only stevedata-0.4.0/stevedata/DESCRIPTION | 11 stevedata-0.4.0/stevedata/MD5 | 24 - stevedata-0.4.0/stevedata/NEWS.md |only stevedata-0.4.0/stevedata/R/rd-af_crime93.R | 4 stevedata-0.4.0/stevedata/R/rd-anes_partytherms.R |only stevedata-0.4.0/stevedata/R/rd-co2emissions.R | 2 stevedata-0.4.0/stevedata/R/rd-turnips.R |only stevedata-0.4.0/stevedata/README.md | 284 ++++++++++---------- stevedata-0.4.0/stevedata/data/anes_partytherms.rda |only stevedata-0.4.0/stevedata/data/turnips.rda |only stevedata-0.4.0/stevedata/man/af_crime93.Rd | 4 stevedata-0.4.0/stevedata/man/anes_partytherms.Rd |only stevedata-0.4.0/stevedata/man/co2emissions.Rd | 2 stevedata-0.4.0/stevedata/man/turnips.Rd |only 17 files changed, 166 insertions(+), 165 deletions(-)
Title: Combining Tree-Boosting with Gaussian Process and Mixed Effects
Models
Description: An R package that allows for combining tree-boosting with Gaussian process and mixed effects models. It also allows for independently doing tree-boosting as well as inference and prediction for Gaussian process and mixed effects models. See <https://github.com/fabsig/GPBoost> for more information on the software and Sigrist (2020) <arXiv:2004.02653> for more information on the methodology.
Author: Fabio Sigrist [aut, cre],
Benoit Jacob [cph],
Gael Guennebaud [cph],
Nicolas Carre [cph],
Pierre Zoppitelli [cph],
Gauthier Brun [cph],
Jean Ceccato [cph],
Jitse Niesen [cph],
Other authors of Eigen for the included version of Eigen [ctb, cph],
Timothy A. Davis [cph],
Guolin Ke [ctb],
Damien Soukhavong [ctb],
James Lamb [ctb],
Other authors of LightGBM for the included version of LightGBM [ctb],
Microsoft Corporation [cph],
Dropbox, Inc. [cph],
Jay Loden [cph],
Dave Daeschler [cph],
Giampaolo Rodola [cph],
Alberto Ferreira [ctb],
Daniel Lemire [ctb],
Victor Zverovich [cph],
IBM Corporation [ctb],
Keith O'Hara [cph]
Maintainer: Fabio Sigrist <fabiosigrist@gmail.com>
Diff between gpboost versions 0.5.0 dated 2021-03-12 and 0.6.0 dated 2021-04-21
DESCRIPTION | 14 MD5 | 168 + NAMESPACE | 2 R/GPModel.R | 225 +- R/gpb.Dataset.R | 3 R/gpb.cv.R | 4 R/gpb.train.R | 4 R/gpboost.R | 13 configure.ac | 2 demo/GPBoost_algorithm.R | 32 demo/linear_Gaussian_process_mixed_effects_models.R | 8 man/GPModel.Rd | 25 man/GPModel_shared_params.Rd | 25 man/fit.GPModel.Rd | 4 man/fit.Rd | 4 man/fitGPModel.Rd | 29 man/gpb.cv.Rd | 15 man/gpb.grid.search.tune.parameters.Rd | 13 man/gpb.train.Rd | 13 man/gpb_shared_params.Rd | 13 man/gpboost.Rd | 13 man/loadGPModel.Rd | 3 man/saveGPModel.Rd | 3 man/set_prediction_data.GPModel.Rd |only man/set_prediction_data.Rd |only src/GP_utils.cpp | 186 +- src/Vecchia_utils.cpp | 37 src/c_api.cpp | 29 src/gpboost_R.cpp | 29 src/gpboost_R.h | 4 src/include/GPBoost/GP_utils.h | 83 src/include/GPBoost/cov_fcts.h | 295 ++- src/include/GPBoost/likelihoods.h | 334 ++- src/include/GPBoost/re_comp.h | 239 +- src/include/GPBoost/re_model.h | 46 src/include/GPBoost/re_model_template.h | 1182 +++++++++----- src/include/GPBoost/sparse_matrix_utils.h | 66 src/include/GPBoost/type_defs.h | 5 src/include/LICENSE |only src/include/LightGBM/c_api.h | 4 src/include/NOTICE.txt |only src/include/constrained |only src/include/line_search |only src/include/misc |only src/include/optim.hpp |only src/include/unconstrained |only src/include/zeros |only src/metric/binary_metric.hpp | 15 src/metric/random_effects_metric.hpp | 9 src/metric/regression_metric.hpp | 2 src/re_model.cpp | 125 - src/sparse_matrix_utils.cpp | 48 tests/testthat/test_GPBoost_algorithm.R | 168 + tests/testthat/test_GPBoost_algorithm_non_Gaussian_data.R | 590 ++++-- tests/testthat/test_GPModel_gaussian_process.R | 234 ++ tests/testthat/test_GPModel_grouped_random_effects.R | 39 tests/testthat/test_GPModel_non_Gaussian_data.R | 147 + tests/testthat/test_dataset.R | 2 58 files changed, 3104 insertions(+), 1449 deletions(-)
Title: Methods for Causal Inference with Interference
Description: Provides methods for estimating causal effects in the presence of interference described in B. Saul and M. Hugdens (2017) <doi:10.18637/jss.v082.i02>. Currently it implements the inverse-probability weighted (IPW) estimators proposed by E.J. Tchetgen Tchetgen and T.J. Vanderweele (2012) <doi:10.1177/0962280210386779>.
Author: Bradley Saul
Maintainer: Bradley Saul <bradleysaul@gmail.com>
Diff between inferference versions 1.0.0 dated 2017-11-24 and 1.0.2 dated 2021-04-21
DESCRIPTION | 13 - MD5 | 35 +-- R/datasets.R | 6 R/inferference.R | 6 R/interference.R | 4 build/partial.rdb |only build/vignette.rds |binary inst/doc/inferference_intro.R | 38 +-- inst/doc/inferference_intro.html | 446 +++++++++++++++++++++++---------------- inst/doc/inferference_plots.R | 10 inst/doc/inferference_plots.html | 228 ++++++++++++------- man/indirect_effect.Rd | 2 man/inferference.Rd | 7 man/interference.Rd | 25 +- man/vaccinesim.Rd | 8 man/voters.Rd | 10 man/wght_deriv_array.Rd | 13 - man/wght_deriv_calc.Rd | 9 man/wght_matrix.Rd | 13 - 19 files changed, 531 insertions(+), 342 deletions(-)
Title: Hazard Function Estimation in Survival Analysis
Description: Produces a smooth estimate of the hazard
function for censored data.
Author: S original by Kenneth Hess,
R port by R. Gentleman
Maintainer: David Winsemius <dwinsemius@comcast.net>
Diff between muhaz versions 1.2.6.3 dated 2021-04-01 and 1.2.6.4 dated 2021-04-21
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/init.c | 3 +-- 3 files changed, 6 insertions(+), 7 deletions(-)
Title: Vis-NIR Spectral Analysis Wrapper
Description: Originally designed application in the context of resource-limited plant research
and breeding programs, 'waves' provides an open-source solution to spectral data processing
and model development by bringing useful packages together into a streamlined pipeline.
This package is wrapper for functions related to the analysis of point visible and
near-infrared reflectance measurements. It includes visualization, filtering, aggregation,
preprocessing, cross-validation set formation, model training, and prediction functions to
enable open-source association of spectral and reference data. This package is documented
in a peer-reviewed manuscript in the Plant Phenome Journal <doi:10.1002/ppj2.20012>.
Specialized cross-validation schemes are described in detail in Jarquín et al. (2017)
<doi:10.3835/plantgenome2016.12.0130>. Example data is from Ikeogu et al. (2017)
<doi:10.1371/journal.pone.0188918>.
Author: Jenna Hershberger [aut, cre] (<https://orcid.org/0000-0002-3147-6867>),
Michael Gore [ths],
NSF BREAD IOS-1543958 [fnd]
Maintainer: Jenna Hershberger <jmh579@cornell.edu>
Diff between waves versions 0.1.0 dated 2020-09-17 and 0.1.1 dated 2021-04-21
DESCRIPTION | 11 ++++---- LICENSE | 2 - MD5 | 37 ++++++++++++++--------------- NAMESPACE | 2 + NEWS.md | 8 ++++++ R/FilterSpectra.R | 10 +++---- R/PlotSpectra.R | 8 ++++-- R/TestModelPerformance.R | 42 +++++++++++++++++++++++++-------- R/TrainSpectralModel.R | 21 ++++++++++------ README.md | 19 +++++++++++--- inst/CITATION | 24 +++++++----------- man/DoPreprocessing.Rd | 8 ++++-- man/FormatCV.Rd | 10 ++++++- man/PlotSpectra.Rd | 9 +++++-- man/PredictFromSavedModel.Rd | 9 +++++-- man/SaveModel.Rd | 26 ++++++++++++++------ man/TestModelPerformance.Rd | 24 ++++++++++++++---- man/TrainSpectralModel.Rd | 24 ++++++++++++++---- man/figures/testplot_all_R2_hlines.png |only man/ikeogu.2017.Rd | 4 ++- 20 files changed, 201 insertions(+), 97 deletions(-)
Title: Tidy Model Visualisation for Generalised Additive Models
Description: Provides functions for visualising generalised
additive models and getting predicted values using tidy tools from the 'tidyverse' packages.
Author: Stefano Coretta [aut, cre],
Jacolien van Rij [cph] (Imported functions from itsadug),
Martijn Wieling [cph] (Imported functions from itsadug)
Maintainer: Stefano Coretta <stefano.coretta@gmail.com>
Diff between tidymv versions 3.2.0 dated 2021-01-05 and 3.2.1 dated 2021-04-21
DESCRIPTION | 8 ++++---- MD5 | 32 ++++++++++++++++---------------- NEWS.md | 17 +++++++++++++++++ R/plotting.R | 12 ++++++++---- R/utils.R | 28 ++++++++++++++++++++++++---- README.md | 2 +- build/vignette.rds |binary inst/doc/plot-smooths.R | 19 ++++++++++++++++++- inst/doc/plot-smooths.Rmd | 23 ++++++++++++++++++++++- inst/doc/plot-smooths.html | 22 +++++++++++++++++++--- inst/doc/predict-gam.html | 4 ++-- man/get_gam_predictions.Rd | 7 +++++-- man/get_smooths_difference.Rd | 5 ++++- man/plot_difference.Rd | 8 +++++++- man/plot_smooths.Rd | 5 ++++- man/predict_gam.Rd | 2 +- vignettes/plot-smooths.Rmd | 23 ++++++++++++++++++++++- 17 files changed, 174 insertions(+), 43 deletions(-)
Title: Regression Spline Functions and Classes
Description: Constructs basis matrix of B-splines, M-splines,
I-splines, convex splines (C-splines), periodic M-splines,
natural cubic splines, generalized Bernstein polynomials,
and their integrals (except C-splines) and derivatives
of given order by close-form recursive formulas.
It also contains a C++ head-only library integrated with Rcpp.
See De Boor (1978) <doi:10.1002/zamm.19800600129>,
Ramsay (1988) <doi:10.1214/ss/1177012761>, and
Meyer (2008) <doi:10.1214/08-AOAS167>
for more information about the spline basis.
Author: Wenjie Wang [aut, cre] (<https://orcid.org/0000-0003-0363-3180>),
Jun Yan [aut] (<https://orcid.org/0000-0003-4401-7296>)
Maintainer: Wenjie Wang <wang@wwenjie.org>
Diff between splines2 versions 0.4.2 dated 2021-02-21 and 0.4.3 dated 2021-04-21
DESCRIPTION | 7 MD5 | 80 ++++-- NEWS.md | 17 + R/splines2-package.R | 2 README.md | 113 +++++---- build/vignette.rds |binary inst/CITATION | 2 inst/bib/splines2.bib | 4 inst/doc/splines2-intro.R | 8 inst/doc/splines2-intro.Rmd | 12 - inst/doc/splines2-intro.html | 37 +-- inst/doc/splines2-wi-rcpp.Rmd | 245 +++++++++++++-------- inst/doc/splines2-wi-rcpp.html | 241 +++++++++++--------- inst/examples/ex-deriv.R | 33 +- inst/include/splines2Armadillo/BSpline.h | 210 ++++++++++++------ inst/include/splines2Armadillo/BernsteinPoly.h | 72 +++--- inst/include/splines2Armadillo/CSpline.h | 33 +- inst/include/splines2Armadillo/ISpline.h | 80 ++++-- inst/include/splines2Armadillo/MSpline.h | 221 ++++++++++++------- inst/include/splines2Armadillo/NaturalSpline.h | 67 +++-- inst/include/splines2Armadillo/PeriodicMSpline.h | 264 ++++------------------- inst/include/splines2Armadillo/SplineBase.h | 230 ++++++++++++-------- inst/include/splines2Armadillo/utils.h | 24 +- inst/rcpp-tests |only inst/tinytest/test-bSpline.R | 4 inst/tinytest/test-cSpline.R | 4 inst/tinytest/test-dbs.R | 4 inst/tinytest/test-iSpline.R | 4 inst/tinytest/test-ibs.R | 4 inst/tinytest/test-mSpline.R | 4 man/deriv.Rd | 33 +- man/splines2.Rd | 2 tests/tinytest.R | 9 vignettes/splines2-intro.Rmd | 12 - vignettes/splines2-wi-rcpp.Rmd | 245 +++++++++++++-------- 35 files changed, 1311 insertions(+), 1016 deletions(-)
Title: A Wrapper for the Phonetic Software 'Praat'
Description: It allows running 'Praat' scripts from R and it provides some
wrappers for basic plotting. It also adds support for literate markdown
tangling. The package is designed to bring reproducible phonetic research
into R.
Author: Stefano Coretta [aut, cre]
Maintainer: Stefano Coretta <stefano.coretta@gmail.com>
Diff between speakr versions 3.1.0 dated 2021-04-19 and 3.1.1 dated 2021-04-21
DESCRIPTION | 10 +++++----- MD5 | 28 ++++++++++++++-------------- NAMESPACE | 3 +++ NEWS.md | 9 +++++++++ R/paths.R | 4 +++- R/speakr-package.R | 6 ++++++ R/zzz.R | 17 ++++++++++++++--- inst/doc/praat-plot.R | 2 -- inst/doc/praat-plot.Rmd | 2 -- inst/doc/run-praat.R | 4 +++- inst/doc/run-praat.Rmd | 4 +++- inst/doc/run-praat.html | 4 ++-- man/praat_path.Rd | 2 +- vignettes/praat-plot.Rmd | 2 -- vignettes/run-praat.Rmd | 4 +++- 15 files changed, 66 insertions(+), 35 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 0.6.3.1 dated 2021-04-20 and 0.6.3.2 dated 2021-04-21
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/Boost.R | 2 +- R/Stack.R | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Bayesian Meta-Analysis and Network Meta-Analysis
Description: Contains functions performing Bayesian inference for meta-analytic and network meta-analytic models through Markov chain Monte Carlo algorithm. Currently, the package implements Hui Yao, Sungduk Kim, Ming-Hui Chen, Joseph G. Ibrahim, Arvind K. Shah, and Jianxin Lin (2015) <doi:10.1080/01621459.2015.1006065> and Hao Li, Daeyoung Lim, Ming-Hui Chen, Joseph G. Ibrahim, Sungduk Kim, Arvind K. Shah, Jianxin Lin (2021) <doi:10.1002/sim.8983>. For maximal computational efficiency, the Markov chain Monte Carlo samplers for each model, written in C++, are fine-tuned. This software has been developed under the auspices of the National Institutes of Health and Merck & Co., Inc., Kenilworth, NJ, USA.
Author: Daeyoung Lim [aut, cre],
Ming-Hui Chen [ctb],
Sungduk Kim [ctb],
Joseph Ibrahim [ctb],
Arvind Shah [ctb],
Jianxin Lin [ctb]
Maintainer: Daeyoung Lim <daeyoung.lim@uconn.edu>
Diff between metapack versions 0.1.1 dated 2021-02-23 and 0.1.2 dated 2021-04-21
metapack-0.1.1/metapack/src/ListBuilder.h |only metapack-0.1.2/metapack/DESCRIPTION | 10 metapack-0.1.2/metapack/MD5 | 45 +-- metapack-0.1.2/metapack/NEWS.md | 4 metapack-0.1.2/metapack/R/RcppExports.R | 182 +++++++--------- metapack-0.1.2/metapack/R/bayes.parobs.R | 4 metapack-0.1.2/metapack/README.md | 6 metapack-0.1.2/metapack/inst/doc/intro-to-metapack.Rmd | 2 metapack-0.1.2/metapack/inst/doc/intro-to-metapack.html | 6 metapack-0.1.2/metapack/man/bayes.parobs.Rd | 4 metapack-0.1.2/metapack/src/BayesNMR.cpp | 34 +- metapack-0.1.2/metapack/src/RcppExports.cpp | 25 -- metapack-0.1.2/metapack/src/fmodel1.cpp | 12 - metapack-0.1.2/metapack/src/fmodel1p.cpp | 12 - metapack-0.1.2/metapack/src/fmodel2.cpp | 18 - metapack-0.1.2/metapack/src/fmodel2p.cpp | 18 - metapack-0.1.2/metapack/src/fmodel2p5.cpp | 18 - metapack-0.1.2/metapack/src/fmodel2p5p.cpp | 18 - metapack-0.1.2/metapack/src/fmodel3.cpp | 26 +- metapack-0.1.2/metapack/src/fmodel3pp.cpp | 27 +- metapack-0.1.2/metapack/src/fmodel4.cpp | 28 +- metapack-0.1.2/metapack/src/fmodel4p.cpp | 28 +- metapack-0.1.2/metapack/src/linearalgebra.cpp | 4 metapack-0.1.2/metapack/vignettes/intro-to-metapack.Rmd | 2 24 files changed, 252 insertions(+), 281 deletions(-)
Title: Genetic Analysis Package
Description: It is designed as an integrated package for genetic data
analysis of both population and family data. Currently, it
contains functions for sample size calculations of both
population-based and family-based designs, probability of
familial disease aggregation, kinship calculation, statistics
in linkage analysis, and association analysis involving genetic
markers including haplotype analysis with or without environmental
covariates. Over years, the package has been developed in-between
many projects hence also in line with the name (gap).
Author: Jing Hua Zhao and colleagues with inputs from Kurt Hornik and
Brian Ripley
Maintainer: Jing Hua Zhao <jinghuazhao@hotmail.com>
Diff between gap versions 1.2.2 dated 2020-02-02 and 1.2.3-1 dated 2021-04-21
ChangeLog | 28 +++ DESCRIPTION | 20 +- INDEX | 15 + MD5 | 57 +++--- NAMESPACE | 14 - R/ESplot.R | 35 +-- R/METAL_forestplot.R | 31 +-- R/mhtplot.trunc.R | 158 ++++++++--------- R/utils.R | 324 ++++++++++++++++++++++++++++++------ build/vignette.rds |binary data/datalist | 1 data/mr.rda |only inst/CITATION | 4 inst/doc/gap.R | 72 +++++--- inst/doc/gap.Rnw | 88 ++++++--- inst/doc/gap.pdf |binary inst/doc/jss.pdf |binary man/ESplot.Rd | 17 + man/MCMCgrm.Rd | 30 +++ man/METAL_forestplot.Rd | 11 + man/asplot.Rd | 1 man/gap-internal.Rd | 67 +++++-- man/gap-package.Rd | 34 ++- man/hwe.cc.Rd | 2 man/mhtplot.trunc.Rd | 67 ++++--- vignettes/figures/ESplot.pdf |binary vignettes/figures/INF1_CAD-FEV1.pdf |only vignettes/figures/lukas.pdf |binary vignettes/figures/miamiplot.png |only vignettes/figures/qqunif.pdf |binary vignettes/gap.Rnw | 88 ++++++--- 31 files changed, 805 insertions(+), 359 deletions(-)
Title: Randomized Response Techniques for Complex Surveys
Description: Point and interval estimation of linear parameters with data
obtained from complex surveys (including stratified and clustered samples)
when randomization techniques are used. The randomized response technique
was developed to obtain estimates that are more valid when studying
sensitive topics. Estimators and variances for 14 randomized response
methods for qualitative variables and 7 randomized response methods for
quantitative variables are also implemented. In addition, some data sets
from surveys with these randomization methods are included in the package.
Author: Beatriz Cobo Rodríguez, María del Mar Rueda García, Antonio Arcos
Cebrián
Maintainer: Beatriz Cobo Rodríguez <beacr@ugr.es>
Diff between RRTCS versions 0.0.3 dated 2015-11-03 and 0.0.4 dated 2021-04-21
DESCRIPTION | 10 +-- MD5 | 100 ++++++++++++++++++------------------ R/BarLevData.R | 2 R/ChaudhuriChristofidesData.R | 2 R/ChaudhuriChristofidesDatapij.R | 2 R/ChristofidesData.R | 2 R/DevoreData.R | 2 R/DianaPerri1Data.R | 2 R/DianaPerri2Data.R | 2 R/EichhornHayreData.R | 2 R/ErikssonData.R | 2 R/ForcedResponseData.R | 2 R/ForcedResponseDataSt.R | 2 R/HorvitzData.R | 2 R/HorvitzDataRealSurvey.R | 2 R/HorvitzDataStCl.R | 2 R/HorvitzUBData.R | 2 R/KukData.R | 2 R/MangatSinghData.R | 2 R/MangatSinghSinghData.R | 2 R/MangatSinghSinghUBData.R | 2 R/SahaData.R | 2 R/SinghJoarderData.R | 2 R/SoberanisCruzData.R | 2 R/WarnerData.R | 2 build/vignette.rds |binary inst/doc/my-vignette.R | 2 inst/doc/my-vignette.pdf |binary man/BarLevData.Rd | 2 man/ChaudhuriChristofidesData.Rd | 2 man/ChaudhuriChristofidesDatapij.Rd | 2 man/ChristofidesData.Rd | 2 man/DevoreData.Rd | 2 man/DianaPerri1Data.Rd | 2 man/DianaPerri2Data.Rd | 2 man/EichhornHayreData.Rd | 2 man/ErikssonData.Rd | 2 man/ForcedResponseData.Rd | 2 man/ForcedResponseDataSt.Rd | 2 man/HorvitzData.Rd | 2 man/HorvitzDataRealSurvey.Rd | 2 man/HorvitzDataStCl.Rd | 2 man/HorvitzUBData.Rd | 2 man/KukData.Rd | 2 man/MangatSinghData.Rd | 2 man/MangatSinghSinghData.Rd | 2 man/MangatSinghSinghUBData.Rd | 2 man/SahaData.Rd | 2 man/SinghJoarderData.Rd | 2 man/SoberanisCruzData.Rd | 2 man/WarnerData.Rd | 2 51 files changed, 102 insertions(+), 102 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-03 1.1
2017-01-17 1.0-7
2015-12-18 1.0-6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-09-19 1.0.1
More information about ccoptimalmatch at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-06 0.5
2021-01-25 0.4
2020-11-17 0.3
2020-11-16 0.2
Title: Connecting R and 'Raven' Sound Analysis Software
Description: A tool to exchange data between R and 'Raven' sound analysis software (Cornell Lab of Ornithology). Functions work on data formats compatible with the R package 'warbleR'.
Author: Marcelo Araya-Salas [aut, cre]
(<https://orcid.org/0000-0003-3594-619X>)
Maintainer: Marcelo Araya-Salas <marcelo.araya@ucr.ac.cr>
Diff between Rraven versions 1.0.12 dated 2021-03-09 and 1.0.13 dated 2021-04-21
DESCRIPTION | 10 ++++----- MD5 | 20 +++++++++--------- NEWS.md | 4 +++ R/exp_empty_sels.R | 2 - R/exp_raven.R | 8 ++++--- R/raven_batch_detec.R | 2 - R/run_raven.R | 8 +++---- inst/doc/Rraven.Rmd | 13 +++++++----- inst/doc/Rraven.html | 54 +++++--------------------------------------------- man/exp_empty_sels.Rd | 2 - vignettes/Rraven.Rmd | 13 +++++++----- 11 files changed, 53 insertions(+), 83 deletions(-)
Title: Number and Brightness Image Analysis
Description: Calculation of molecular number and brightness from
fluorescence microscopy image series. The software was published in a
2016 paper <doi:10.1093/bioinformatics/btx434>. The seminal paper for
the technique is Digman et al. 2008 <doi:10.1529/biophysj.107.114645>.
A review of the technique was published in 2017
<doi:10.1016/j.ymeth.2017.12.001>.
Author: Rory Nolan [aut, cre, cph] (<https://orcid.org/0000-0002-5239-4043>),
Luis Alvarez [ctb, cph] (<https://orcid.org/0000-0003-1316-1906>),
Sergi Padilla-Parra [ctb, ths, cph]
(<https://orcid.org/0000-0002-8010-9481>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between nandb versions 2.0.7 dated 2020-05-08 and 2.0.8 dated 2021-04-21
DESCRIPTION | 23 +++---- MD5 | 50 ++++++++-------- NEWS.md | 10 ++- README.md | 7 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/batch-mode.html | 23 ++++++- inst/doc/brightness-timeseries.html | 14 ++++ inst/doc/single-images.html | 99 +++++++++++++++++---------------- man/brightness.Rd | 2 man/brightness_folder.Rd | 2 man/brightness_timeseries.Rd | 2 man/brightness_timeseries_folder.Rd | 2 man/cc_brightness.Rd | 2 man/cc_brightness_folder.Rd | 2 man/cc_brightness_timeseries.Rd | 2 man/cc_brightness_timeseries_folder.Rd | 2 man/cc_number.Rd | 2 man/cc_number_folder.Rd | 2 man/cc_number_timeseries.Rd | 2 man/cc_number_timeseries_folder.Rd | 2 man/matrix_raster_plot.Rd | 8 +- man/number.Rd | 2 man/number_folder.Rd | 2 man/number_timeseries.Rd | 2 man/number_timeseries_folder.Rd | 2 26 files changed, 151 insertions(+), 115 deletions(-)
Title: Detrend Images
Description: Detrend fluorescence microscopy image series for
fluorescence fluctuation and correlation spectroscopy ('FCS' and
'FFS') analysis. This package contains functionality published in a
2016 paper <doi:10.1093/bioinformatics/btx434> but it has been
extended since then with the Robin Hood algorithm and thus contains
unpublished work.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>),
Luis Alvarez [ctb, cph] (<https://orcid.org/0000-0003-1316-1906>),
Sergi Padilla-Parra [ctb, ths, cph]
(<https://orcid.org/0000-0002-8010-9481>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between detrendr versions 0.6.12 dated 2021-02-08 and 0.6.13 dated 2021-04-21
DESCRIPTION | 7 +++---- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ README.md | 1 - inst/doc/batch-mode.html | 13 ++++++++++--- inst/doc/linescan-data.html | 9 ++++++++- inst/doc/single-images.html | 23 +++++++++++++++-------- 7 files changed, 48 insertions(+), 23 deletions(-)
Title: Quantifying Habitat-Induced Acoustic Signal Degradation
Description: Intended to facilitate acoustic analysis of (animal) sound transmission experiments, which typically aim to quantify changes in signal structure when transmitted in a given habitat by broadcasting and re-recording animal sounds at increasing distances. The package offers a workflow with functions to prepare the data set for analysis as well as to calculate and visualize several degradation metrics, including blur ratio, signal-to-noise ratio, excess attenuation and envelope correlation among others (Dabelsteen et al 1993 <doi:10.1121/1.406682>).
Author: Marcelo Araya-Salas [aut, cre]
Maintainer: Marcelo Araya-Salas <marcelo.araya@ucr.ac.cr>
Diff between baRulho versions 1.0.4 dated 2021-03-09 and 1.0.5 dated 2021-04-21
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NEWS.md | 8 ++++++++ R/master_sound_file.R | 17 +++++++++++------ R/search_templates.R | 2 +- inst/doc/baRulho_quantifying_sound_degradation.html | 8 ++++---- 6 files changed, 34 insertions(+), 21 deletions(-)
Title: Badge for R Package
Description: Query information and generate badge for using in README and GitHub Pages.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>),
Gregor de Cillia [ctb],
Dirk Eddelbuettel [ctb],
Maëlle Salmon [ctb],
Robrecht Cannoodt [ctb] (<https://orcid.org/0000-0003-3641-729X>,
rcannood),
Alexander Rossell Hayes [ctb] (<https://orcid.org/0000-0001-9412-0457>,
rossellhayes)
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between badger versions 0.0.9 dated 2020-12-05 and 0.1.0 dated 2021-04-21
DESCRIPTION | 9 +++---- MD5 | 16 ++++++------ R/badge.R | 60 ++++++++++++++++++++++++++++++----------------- R/utilities.R | 5 +++ man/badge_codecov.Rd | 7 +++-- man/badge_coveralls.Rd | 5 +++ man/badge_last_commit.Rd | 5 +++ man/badge_lifecycle.Rd | 3 +- man/badge_travis.Rd | 9 ++++--- 9 files changed, 77 insertions(+), 42 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-07 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-06 0.2.1
2020-11-09 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-17 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-02 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-30 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-03 1.0.1
2016-01-01 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-14 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-26 0.1.1
2020-11-20 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-12-18 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-20 1.1.1
2019-12-16 1.1
2018-12-17 1.0.2
2018-12-13 1.0.1
2018-12-11 1.0.0
2018-11-27 0.2.1
2018-07-05 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-09-14 1.1.4
2016-04-01 1.1.3
2015-11-30 1.1.2
2015-08-06 1.1.1
2015-07-27 1.1
2015-07-10 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-29 2019.8.27
2019-06-24 2019.6.24
2019-05-21 2019.5.19
2019-04-04 2019.4.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-20 0.1.2
2020-05-09 0.1.1
2020-03-25 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-07 3.0.1
2020-10-13 2.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-20 2019.8.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-26 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-14 0.3.8
2021-03-08 0.3.7
Title: Time Value of Money Functions
Description: Functions for managing cashflows and interest rate curves.
Author: Juan Manuel Truppia
Maintainer: Juan Manuel Truppia <jmtruppia@gmail.com>
Diff between tvm versions 0.4.0 dated 2019-03-06 and 0.5.0 dated 2021-04-21
DESCRIPTION | 12 LICENSE | 2 MD5 | 68 +- NAMESPACE | 56 +- NEWS.md | 24 R/CfFuncs.R | 496 ++++++++++---------- R/CurveFuncs.R | 468 +++++++++---------- R/tvm-package.R | 16 README.md | 92 +-- build/vignette.rds |binary inst/doc/intro.R | 38 - inst/doc/intro.Rmd | 150 +++--- inst/doc/intro.html | 971 ++++++++++++++++------------------------ man/adjust_disc.Rd | 38 - man/cashflow.Rd | 36 - man/cft.Rd | 60 +- man/disc_cf.Rd | 38 - man/disc_value.Rd | 54 +- man/find_rate.Rd | 54 +- man/irr.Rd | 47 - man/loan.Rd | 54 +- man/npv.Rd | 48 - man/plot.rate_curve.Rd | 56 +- man/pmt.Rd | 48 - man/rate.Rd | 56 +- man/rate_curve.Rd | 100 ++-- man/rem.Rd | 42 - man/sub-.rate_curve.Rd | 54 +- man/tvm.Rd | 19 man/xirr.Rd | 54 +- man/xnpv.Rd | 50 +- tests/test-all.R | 2 tests/testthat/test_cashflows.R | 32 - tests/testthat/test_curves.R | 90 +-- vignettes/intro.Rmd | 150 +++--- 35 files changed, 1719 insertions(+), 1856 deletions(-)
Title: Render SVG Images into PDF, PNG, PostScript, or Bitmap Arrays
Description: Renders vector-based svg images into high-quality custom-size bitmap
arrays using 'librsvg2'. The resulting bitmap can be written to e.g. png, jpeg
or webp format. In addition, the package can convert images directly to various
formats such as pdf or postscript.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between rsvg versions 2.1 dated 2020-05-19 and 2.1.1 dated 2021-04-21
DESCRIPTION | 10 - MD5 | 16 +- build/vignette.rds |binary cleanup | 2 configure | 26 ++-- inst/doc/svg-css.R | 3 inst/doc/svg-css.Rmd | 3 inst/doc/svg-css.html | 273 ++++++++------------------------------------------ vignettes/svg-css.Rmd | 3 9 files changed, 79 insertions(+), 257 deletions(-)
Title: Interface to 'Python'
Description: Interface to 'Python' modules, classes, and functions. When calling
into 'Python', R data types are automatically converted to their equivalent 'Python'
types. When values are returned from 'Python' to R they are converted back to R
types. Compatible with all versions of 'Python' >= 2.7.
Author: Kevin Ushey [aut, cre],
JJ Allaire [aut],
RStudio [cph, fnd],
Yuan Tang [aut, cph] (<https://orcid.org/0000-0001-5243-233X>),
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Sigrid Keydana [ctb],
Ryan Hafen [ctb, cph],
Marcus Geelnard [ctb, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/)
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between reticulate versions 1.18 dated 2020-10-25 and 1.19 dated 2021-04-21
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Title: Luck-Corrected Peer Performance Analysis in R
Description: Provides functions to perform the peer performance
analysis of funds' returns as described in Ardia and Boudt (2018) <doi:10.1016/j.jbankfin.2017.10.014>.
Author: David Ardia [aut, cre] (<https://orcid.org/0000-0003-2823-782X>),
Kris Boudt [aut],
Nabil Bouamara [ctb]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between PeerPerformance versions 2.2.2 dated 2020-04-21 and 2.2.3 dated 2021-04-21
PeerPerformance-2.2.2/PeerPerformance/README.md |only PeerPerformance-2.2.3/PeerPerformance/DESCRIPTION | 10 PeerPerformance-2.2.3/PeerPerformance/MD5 | 29 PeerPerformance-2.2.3/PeerPerformance/NAMESPACE | 34 - PeerPerformance-2.2.3/PeerPerformance/NEWS | 8 PeerPerformance-2.2.3/PeerPerformance/build/partial.rdb |binary PeerPerformance-2.2.3/PeerPerformance/inst/COPYRIGHTS | 2 PeerPerformance-2.2.3/PeerPerformance/man/PeerPerformance.Rd | 170 ++--- PeerPerformance-2.2.3/PeerPerformance/man/alphaScreening.Rd | 314 +++++----- PeerPerformance-2.2.3/PeerPerformance/man/hfdata.Rd | 38 - PeerPerformance-2.2.3/PeerPerformance/man/msharpe.Rd | 144 ++-- PeerPerformance-2.2.3/PeerPerformance/man/msharpeScreening.Rd | 312 ++++----- PeerPerformance-2.2.3/PeerPerformance/man/msharpeTesting.Rd | 300 ++++----- PeerPerformance-2.2.3/PeerPerformance/man/sharpe.Rd | 120 +-- PeerPerformance-2.2.3/PeerPerformance/man/sharpeScreening.Rd | 314 +++++----- PeerPerformance-2.2.3/PeerPerformance/man/sharpeTesting.Rd | 266 ++++---- 16 files changed, 1029 insertions(+), 1032 deletions(-)
More information about PeerPerformance at CRAN
Permanent link
Title: Automated Spatial Prediction using Ensemble Machine Learning
Description: Functions and tools for spatial interpolation and/or prediction of environmental variables (points to grids)
based on using Ensemble Machine Learning with geographical distances. Package also provides access to Global
Environmental Layers (<https://www.OpenLandMap.org>) produced by the OpenGeoHub.org foundation and collaborators. Some functions have been migrated and adopted from the
Global Soil Information Facilities package.
Author: Tomislav Hengl [aut, cre]
Maintainer: Tomislav Hengl <tom.hengl@opengeohub.org>
Diff between landmap versions 0.0.7 dated 2021-01-29 and 0.0.9 dated 2021-04-21
DESCRIPTION | 15 +++--- MD5 | 14 ++--- R/spsample.prob.R | 8 +-- R/train.spLearner.R | 100 ++++++++++++++++++++++++++++++++++------- build/partial.rdb |binary man/edgeroi.Rd | 31 ++++++------ man/predict.spLearner.Rd | 10 +++- man/train.spLearner-methods.Rd | 50 +++++++++++++++++--- 8 files changed, 170 insertions(+), 58 deletions(-)
Title: Genetic Algorithms
Description: Flexible general-purpose toolbox implementing genetic algorithms (GAs) for stochastic optimisation. Binary, real-valued, and permutation representations are available to optimize a fitness function, i.e. a function provided by users depending on their objective function. Several genetic operators are available and can be combined to explore the best settings for the current task. Furthermore, users can define new genetic operators and easily evaluate their performances. Local search using general-purpose optimisation algorithms can be applied stochastically to exploit interesting regions. GAs can be run sequentially or in parallel, using an explicit master-slave parallelisation or a coarse-grain islands approach.
Author: Luca Scrucca [aut, cre] (<https://orcid.org/0000-0003-3826-0484>)
Maintainer: Luca Scrucca <luca.scrucca@unipg.it>
Diff between GA versions 3.2 dated 2019-01-10 and 3.2.1 dated 2021-04-21
GA-3.2.1/GA/DESCRIPTION | 13 GA-3.2.1/GA/MD5 | 42 GA-3.2.1/GA/NEWS.md | 8 GA-3.2.1/GA/R/ga.R | 34 GA-3.2.1/GA/R/gaIslands.R | 11 GA-3.2.1/GA/R/gade.R | 44 GA-3.2.1/GA/README.md | 4 GA-3.2.1/GA/build/vignette.rds |binary GA-3.2.1/GA/inst/CITATION | 8 GA-3.2.1/GA/inst/doc/GA.R | 104 +- GA-3.2.1/GA/inst/doc/GA.Rmd | 57 + GA-3.2.1/GA/inst/doc/GA.html | 1477 ++++++++++++++------------------ GA-3.2.1/GA/man/GA-package.Rd | 4 GA-3.2.1/GA/man/binary2decimal.Rd | 2 GA-3.2.1/GA/man/de.Rd | 26 GA-3.2.1/GA/man/ga.Rd | 6 GA-3.2.1/GA/man/gaisl.Rd | 4 GA-3.2.1/GA/man/palettes.Rd | 2 GA-3.2.1/GA/src/Makevars |only GA-3.2.1/GA/vignettes/GA.Rmd | 57 + GA-3.2.1/GA/vignettes/vignette.css | 39 GA-3.2.1/GA/vignettes/vignette_old1.css |only GA-3.2.1/GA/vignettes/vignette_old2.css |only GA-3.2/GA/vignettes/vignette2.css |only 24 files changed, 989 insertions(+), 953 deletions(-)
Title: Automatic Processing of TLS Point Cloud Data for Forestry
Purposes
Description: Process automation of Terrestrial Laser Scanner (TLS) point cloud data derived from single scans. 'FORTLS' enables (i) detection of trees and estimation of diameter at breast height (dbh), (ii) estimation of some stand variables (e.g. density, basal area, mean and dominant height), (iii) computation of metrics related to important forest attributes estimated in Forest Inventories (FIs) at stand level and (iv) optimization of plot design for combining TLS data and field measured data. Documentation about 'FORTLS' is described in Molina-Valero et al. (2020, <doi:10.3390/IECF2020-08066>).
Author: Juan Alberto Molina-Valero [aut, cph, cre],
María José Ginzo Villamayor [aut, com],
Manuel Antonio Novo Pérez [aut, com],
Adela Martínez-Calvo [aut, com],
Juan Gabriel Álvarez-González [aut, ths],
Fernando Montes [aut],
César Pérez-Cruzado [aut, ths]
Maintainer: Juan Alberto Molina-Valero <juanalberto.molina.valero@usc.es>
Diff between FORTLS versions 1.0.1 dated 2021-03-02 and 1.0.2 dated 2021-04-21
DESCRIPTION | 8 MD5 | 35 ++- R/auxiliary.functions.R | 2 R/distance.sampling.R | 154 ++++++++--------- R/estimation.plot.size.R | 139 +++++++-------- R/metrics.variables.R | 106 +++++++---- R/normalize.R | 94 ++++++++-- R/simulations.R | 93 ++++++---- R/tree.detection.R | 366 +++++++++++++++++++++-------------------- R/tree.detection.multiple.R | 146 +++++++++++----- README.md |only build/partial.rdb |binary data/Rioja.data.RData |binary man/Rioja.data.Rd | 6 man/metrics.variables.Rd | 71 ++++--- man/normalize.Rd | 16 + man/simulations.Rd | 74 ++++---- man/tree.detection.Rd | 6 man/tree.detection.multiple.Rd | 20 +- 19 files changed, 778 insertions(+), 558 deletions(-)
Title: Shed Light on Black Box Machine Learning Models
Description: Shed light on black box machine learning models by the help
of model performance, variable importance, global surrogate models,
ICE profiles, partial dependence (Friedman J. H. (2001)
<doi:10.1214/aos/1013203451>), accumulated local effects (Apley D. W.
(2016) <arXiv:1612.08468>), further effects plots, scatter plots,
interaction strength, and variable contribution breakdown (approximate
SHAP) for single observations (Gosiewska and Biecek (2019)
<arxiv:1903.11420>). All tools are implemented to work with case
weights and allow for stratified analysis. Furthermore, multiple
flashlights can be combined and analyzed together.
Author: Michael Mayer [aut, cre, cph]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between flashlight versions 0.7.5 dated 2021-02-13 and 0.8.0 dated 2021-04-21
flashlight-0.7.5/flashlight/R/midpoints.R |only flashlight-0.7.5/flashlight/man/midpoints.Rd |only flashlight-0.8.0/flashlight/DESCRIPTION | 24 flashlight-0.8.0/flashlight/MD5 | 167 - flashlight-0.8.0/flashlight/NAMESPACE | 8 flashlight-0.8.0/flashlight/NEWS.md | 404 +- flashlight-0.8.0/flashlight/R/add_shap.R | 67 flashlight-0.8.0/flashlight/R/ale_profile.R | 98 flashlight-0.8.0/flashlight/R/auto_cut.R | 3 flashlight-0.8.0/flashlight/R/common_breaks.R | 13 flashlight-0.8.0/flashlight/R/flashlight.R | 12 flashlight-0.8.0/flashlight/R/grouped_center.R | 10 flashlight-0.8.0/flashlight/R/grouped_counts.R | 7 flashlight-0.8.0/flashlight/R/grouped_stats.R | 13 flashlight-0.8.0/flashlight/R/grouped_weighted_mean.R | 3 flashlight-0.8.0/flashlight/R/is_flashlight.R | 12 flashlight-0.8.0/flashlight/R/light_breakdown.R | 81 flashlight-0.8.0/flashlight/R/light_check.R | 2 flashlight-0.8.0/flashlight/R/light_combine.R | 14 flashlight-0.8.0/flashlight/R/light_effects.R | 107 flashlight-0.8.0/flashlight/R/light_global_surrogate.R | 56 flashlight-0.8.0/flashlight/R/light_ice.R | 93 flashlight-0.8.0/flashlight/R/light_importance.R | 85 flashlight-0.8.0/flashlight/R/light_interaction.R | 118 flashlight-0.8.0/flashlight/R/light_performance.R | 39 flashlight-0.8.0/flashlight/R/light_profile.R | 164 - flashlight-0.8.0/flashlight/R/light_profile2d.R |only flashlight-0.8.0/flashlight/R/light_recode.R | 12 flashlight-0.8.0/flashlight/R/light_scatter.R | 63 flashlight-0.8.0/flashlight/R/most_important.R | 17 flashlight-0.8.0/flashlight/R/multiflashlight.R | 23 flashlight-0.8.0/flashlight/R/plot_counts.R | 27 flashlight-0.8.0/flashlight/R/plot_light_breakdown.R | 30 flashlight-0.8.0/flashlight/R/plot_light_effects.R | 37 flashlight-0.8.0/flashlight/R/plot_light_global_surrogate.R | 9 flashlight-0.8.0/flashlight/R/plot_light_ice.R | 26 flashlight-0.8.0/flashlight/R/plot_light_importance.R | 50 flashlight-0.8.0/flashlight/R/plot_light_performance.R | 24 flashlight-0.8.0/flashlight/R/plot_light_profile.R | 27 flashlight-0.8.0/flashlight/R/plot_light_profile2d.R |only flashlight-0.8.0/flashlight/R/plot_light_scatter.R | 18 flashlight-0.8.0/flashlight/R/predict_flashlight.R | 14 flashlight-0.8.0/flashlight/R/print_light.R | 6 flashlight-0.8.0/flashlight/R/utils.R |only flashlight-0.8.0/flashlight/R/zzz.R |only flashlight-0.8.0/flashlight/README.md | 29 flashlight-0.8.0/flashlight/build/vignette.rds |binary flashlight-0.8.0/flashlight/inst/doc/caret.R | 4 flashlight-0.8.0/flashlight/inst/doc/caret.Rmd | 5 flashlight-0.8.0/flashlight/inst/doc/caret.html | 448 --- flashlight-0.8.0/flashlight/inst/doc/flashlight.R | 179 - flashlight-0.8.0/flashlight/inst/doc/flashlight.Rmd | 194 - flashlight-0.8.0/flashlight/inst/doc/flashlight.html | 1406 ++++------ flashlight-0.8.0/flashlight/inst/doc/mlr3.R | 4 flashlight-0.8.0/flashlight/inst/doc/mlr3.Rmd | 5 flashlight-0.8.0/flashlight/inst/doc/mlr3.html | 450 --- flashlight-0.8.0/flashlight/man/add_shap.Rd | 4 flashlight-0.8.0/flashlight/man/ale_profile.Rd | 11 flashlight-0.8.0/flashlight/man/common_breaks.Rd | 4 flashlight-0.8.0/flashlight/man/figures |only flashlight-0.8.0/flashlight/man/is.flashlight.Rd | 10 flashlight-0.8.0/flashlight/man/light_breakdown.Rd | 30 flashlight-0.8.0/flashlight/man/light_effects.Rd | 36 flashlight-0.8.0/flashlight/man/light_global_surrogate.Rd | 12 flashlight-0.8.0/flashlight/man/light_ice.Rd | 30 flashlight-0.8.0/flashlight/man/light_importance.Rd | 26 flashlight-0.8.0/flashlight/man/light_interaction.Rd | 32 flashlight-0.8.0/flashlight/man/light_performance.Rd | 16 flashlight-0.8.0/flashlight/man/light_profile.Rd | 41 flashlight-0.8.0/flashlight/man/light_profile2d.Rd |only flashlight-0.8.0/flashlight/man/light_recode.Rd | 2 flashlight-0.8.0/flashlight/man/light_scatter.Rd | 18 flashlight-0.8.0/flashlight/man/multiflashlight.Rd | 109 flashlight-0.8.0/flashlight/man/plot.light_ice.Rd | 4 flashlight-0.8.0/flashlight/man/plot.light_profile2d.Rd |only flashlight-0.8.0/flashlight/tests/testthat/tests-breakdown.R | 15 flashlight-0.8.0/flashlight/tests/testthat/tests-cut.R | 4 flashlight-0.8.0/flashlight/tests/testthat/tests-eff.R | 40 flashlight-0.8.0/flashlight/tests/testthat/tests-globaltree.R | 16 flashlight-0.8.0/flashlight/tests/testthat/tests-ice.R | 16 flashlight-0.8.0/flashlight/tests/testthat/tests-importance.R | 14 flashlight-0.8.0/flashlight/tests/testthat/tests-interaction.R | 17 flashlight-0.8.0/flashlight/tests/testthat/tests-methods.R | 17 flashlight-0.8.0/flashlight/tests/testthat/tests-perf.R | 16 flashlight-0.8.0/flashlight/tests/testthat/tests-profile2d.R |only flashlight-0.8.0/flashlight/tests/testthat/tests-shap.R | 6 flashlight-0.8.0/flashlight/tests/testthat/tests-utils.R |only flashlight-0.8.0/flashlight/vignettes/caret.Rmd | 5 flashlight-0.8.0/flashlight/vignettes/flashlight.Rmd | 194 - flashlight-0.8.0/flashlight/vignettes/mlr3.Rmd | 5 90 files changed, 2537 insertions(+), 2920 deletions(-)
Title: Adaptive Mixture of Student-t Distributions
Description: Provides functions to perform the fitting of an adaptive mixture
of Student-t distributions to a target density through its kernel function as described in
Ardia et al. (2009) <doi:10.18637/jss.v029.i03>. The
mixture approximation can then be used as the importance density in importance
sampling or as the candidate density in the Metropolis-Hastings algorithm to
obtain quantities of interest for the target density itself.
Author: David Ardia [aut, cre, cph] (<https://orcid.org/0000-0003-2823-782X>),
Lennart Hoogerheide [ctb],
Herman van Dijk [ctb]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between AdMit versions 2.1.5 dated 2020-04-20 and 2.1.6 dated 2021-04-21
AdMit-2.1.5/AdMit/build/vignette.rds |only AdMit-2.1.5/AdMit/inst/doc |only AdMit-2.1.5/AdMit/vignettes |only AdMit-2.1.6/AdMit/COPYING | 680 +++++++++++++++---------------- AdMit-2.1.6/AdMit/DESCRIPTION | 8 AdMit-2.1.6/AdMit/MD5 | 31 - AdMit-2.1.6/AdMit/NAMESPACE | 3 AdMit-2.1.6/AdMit/NEWS | 4 AdMit-2.1.6/AdMit/README.md | 4 AdMit-2.1.6/AdMit/build/partial.rdb |binary AdMit-2.1.6/AdMit/inst/CITATION | 8 AdMit-2.1.6/AdMit/inst/COPYRIGHTS | 2 AdMit-2.1.6/AdMit/man/AdMit.Rd | 2 AdMit-2.1.6/AdMit/man/AdMitIS.Rd | 2 AdMit-2.1.6/AdMit/man/AdMitMH.Rd | 2 AdMit-2.1.6/AdMit/man/Mit.Rd | 2 AdMit-2.1.6/AdMit/src/packagename_init.c |only 17 files changed, 373 insertions(+), 375 deletions(-)
Title: R Interface to 'Bloomberg'
Description: An R Interface to 'Bloomberg' is provided via the 'Blp API'.
Author: Whit Armstrong, Dirk Eddelbuettel and John Laing
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between Rblpapi versions 0.3.10 dated 2019-04-07 and 0.3.11 dated 2021-04-20
Rblpapi-0.3.10/Rblpapi/R/defaultConnection.R |only Rblpapi-0.3.10/Rblpapi/inst/auto |only Rblpapi-0.3.10/Rblpapi/inst/unitTests |only Rblpapi-0.3.10/Rblpapi/man/defaultConnection.Rd |only Rblpapi-0.3.10/Rblpapi/tests/doRUnit.R |only Rblpapi-0.3.11/Rblpapi/ChangeLog | 70 +++ Rblpapi-0.3.11/Rblpapi/DESCRIPTION | 13 Rblpapi-0.3.11/Rblpapi/MD5 | 77 +-- Rblpapi-0.3.11/Rblpapi/NAMESPACE | 1 Rblpapi-0.3.11/Rblpapi/R/RcppExports.R | 4 Rblpapi-0.3.11/Rblpapi/R/bdh.R | 6 Rblpapi-0.3.11/Rblpapi/R/bdp.R | 6 Rblpapi-0.3.11/Rblpapi/R/bds.R | 18 Rblpapi-0.3.11/Rblpapi/R/blpAuthenticate.R | 61 ++ Rblpapi-0.3.11/Rblpapi/R/defaults.R |only Rblpapi-0.3.11/Rblpapi/R/fieldSearch.R | 11 Rblpapi-0.3.11/Rblpapi/R/init.R | 11 Rblpapi-0.3.11/Rblpapi/R/portfolio.R | 6 Rblpapi-0.3.11/Rblpapi/R/subscribe.R | 10 Rblpapi-0.3.11/Rblpapi/README.md | 14 Rblpapi-0.3.11/Rblpapi/build/vignette.rds |binary Rblpapi-0.3.11/Rblpapi/cleanup | 2 Rblpapi-0.3.11/Rblpapi/configure | 21 Rblpapi-0.3.11/Rblpapi/inst/NEWS.Rd | 19 Rblpapi-0.3.11/Rblpapi/inst/doc/rblpapi-intro.R | 42 + Rblpapi-0.3.11/Rblpapi/inst/doc/rblpapi-intro.Rmd | 94 +++- Rblpapi-0.3.11/Rblpapi/inst/doc/rblpapi-intro.html | 446 ++++++--------------- Rblpapi-0.3.11/Rblpapi/inst/tinytest |only Rblpapi-0.3.11/Rblpapi/man/bdh.Rd | 9 Rblpapi-0.3.11/Rblpapi/man/bdp.Rd | 6 Rblpapi-0.3.11/Rblpapi/man/bds.Rd | 12 Rblpapi-0.3.11/Rblpapi/man/blpAuthenticate.Rd | 45 +- Rblpapi-0.3.11/Rblpapi/man/defaults.Rd |only Rblpapi-0.3.11/Rblpapi/man/fieldSearch.Rd | 6 Rblpapi-0.3.11/Rblpapi/man/getPortfolio.Rd | 7 Rblpapi-0.3.11/Rblpapi/man/subscribe.Rd | 12 Rblpapi-0.3.11/Rblpapi/src/RcppExports.cpp | 9 Rblpapi-0.3.11/Rblpapi/src/fieldsearch.cpp | 4 Rblpapi-0.3.11/Rblpapi/tests/tinytest.R |only Rblpapi-0.3.11/Rblpapi/vignettes/rblpapi-intro.Rmd | 94 +++- 40 files changed, 651 insertions(+), 485 deletions(-)
Title: Tidy Model Stacking
Description: Model stacking is an ensemble technique
that involves training a model to combine the outputs of many
diverse statistical models, and has been shown to improve
predictive performance in a variety of settings. 'stacks'
implements a grammar for 'tidymodels'-aligned model stacking.
Author: Simon Couch [aut, cre],
Max Kuhn [aut],
RStudio [cph]
Maintainer: Simon Couch <simonpatrickcouch@gmail.com>
Diff between stacks versions 0.1.0 dated 2020-11-23 and 0.2.0 dated 2021-04-20
DESCRIPTION | 22 MD5 | 99 +-- NAMESPACE | 3 NEWS.md | 44 + R/add_candidates.R | 117 +++ R/blend_predictions.R | 77 +- R/butcher.R | 8 R/example_data.R | 5 R/expressions.R | 3 R/fit_members.R | 15 R/plots.R | 8 R/print.R | 3 R/tree_frogs.R | 5 R/utils.R | 44 + README.md | 46 + build/partial.rdb |only build/vignette.rds |binary data/class_folds.rda |binary data/class_res_nn.rda |binary data/class_res_rf.rda |binary data/log_res_nn.rda |binary data/log_res_rf.rda |binary data/reg_folds.rda |binary data/reg_res_lr.rda |binary data/reg_res_sp.rda |binary data/reg_res_svm.rda |binary data/tree_frogs_class_test.rda |binary data/tree_frogs_reg_test.rda |binary inst/doc/basics.html | 858 +++++++++------------------ inst/doc/classification.Rmd | 6 inst/doc/classification.html | 642 ++++++-------------- man/blend_predictions.Rd | 23 man/example_data.Rd | 6 man/stacks_description.Rd | 11 man/tree_frogs.Rd | 3 tests/testthat/helper_functions.R | 18 tests/testthat/out/model_stack_class.txt | 27 tests/testthat/out/model_stack_class_fit.txt | 27 tests/testthat/out/model_stack_log.txt | 15 tests/testthat/out/model_stack_log_fit.txt | 15 tests/testthat/out/model_stack_reg.txt | 14 tests/testthat/out/model_stack_reg_fit.txt | 14 tests/testthat/test_add_candidates.R | 47 + tests/testthat/test_blend_predictions.R | 33 - tests/testthat/test_butcher.R | 37 - tests/testthat/test_collect_parameters.R | 8 tests/testthat/test_fit_members.R | 31 tests/testthat/test_predict.R | 8 tests/testthat/test_print.R | 8 tests/testthat/test_utils.R | 9 vignettes/classification.Rmd | 6 51 files changed, 1132 insertions(+), 1233 deletions(-)
Title: Download, Analyze & Clean New Jersey Car Crash Data
Description: Download and analyze motor vehicle crash data released by the New Jersey Department of Transportation (NJDOT).
The data in this package is collected through the filing of NJTR-1 form by police officers, which provide a standardized way of documenting a motor vehicle crash that occurred in New Jersey.
3 different data tables containing data on crashes, vehicles & pedestrians released from 2001 to the present can be downloaded & cleaned using this package.
Author: Gavin Rozzi [aut, cre] (<https://orcid.org/0000-0002-9969-8175>)
Maintainer: Gavin Rozzi <gr@gavinrozzi.com>
Diff between njtr1 versions 0.1.1 dated 2021-04-04 and 0.2.0 dated 2021-04-20
DESCRIPTION | 15 +++-- MD5 | 29 ++++++----- NAMESPACE | 5 - NEWS.md | 14 +++++ R/download_data.R | 60 +++++++++++++++++------ README.md | 2 build/vignette.rds |binary inst/doc/njtr1.html | 23 +++++--- inst/extdata/fields/2001 |only inst/extdata/fields/2017/Drivers.csv | 42 ++++++++-------- inst/extdata/fields/2017/Occupants.csv | 28 +++++----- inst/extdata/fields/2017/Pedestrians.csv | 70 +++++++++++++-------------- inst/extdata/fields/2017/Vehicles.csv | 80 +++++++++++++++---------------- man/get_njtr1.Rd | 12 ++-- 14 files changed, 218 insertions(+), 162 deletions(-)
Title: Delineate Region of Interests (ROI's) and Extract Time-Series
Data from Digital Repeat Photography Images
Description: Digital repeat photography and near-surface remote sensing have been used by environmental scientists to study the environmental change for nearly a decade. However, a user-friendly, reliable, and robust platform to extract color-based statistics and time-series from a large stack of images is still lacking. Here, we present an interactive open-source toolkit, called 'xROI', that facilitate the process time-series extraction and improve the quality of the final data. 'xROI' provides a responsive environment for scientists to interactively a) delineate regions of interest (ROI), b) handle field of view (FOV) shifts, and c) extract and export time series data characterizing image color (i.e. red, green and blue channel digital numbers for the defined ROI). Using 'xROI', user can detect FOV shifts without minimal difficulty. The software gives user the opportunity to readjust the mask files or redraw new ones every time an FOV shift occurs. 'xROI' helps to significantly improve data accuracy and continuity.
Author: Bijan Seyednasrollah, Thomas Milliman, Andrew D. Richardson
Maintainer: Bijan Seyednasrollah <bijan.s.nasr@gmail.com>
Diff between xROI versions 0.9.17 dated 2020-07-24 and 0.9.18 dated 2021-04-20
DESCRIPTION | 13 +- MD5 | 16 +- R/addMask.R | 2 R/zzz.R | 18 +++ README.md | 14 +- build/vignette.rds |binary inst/CITATION | 9 - inst/app/app.R | 4 inst/doc/Launch-xROI.html | 251 ++++++---------------------------------------- 9 files changed, 83 insertions(+), 244 deletions(-)
Title: Export Data Frames to Excel 'xlsx' Format
Description: Zero-dependency data frame to xlsx exporter based on 'libxlsxwriter'.
Fast and no Java or Excel required.
Author: Jeroen Ooms [aut, cre] (<https://orcid.org/0000-0002-4035-0289>),
John McNamara [cph] (Author of libxlsxwriter (see AUTHORS and COPYRIGHT
files for details))
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between writexl versions 1.3.1 dated 2020-08-26 and 1.4.0 dated 2021-04-20
DESCRIPTION | 9 MD5 | 95 NEWS | 3 src/Makevars | 5 src/include/xlsxwriter.h | 5 src/include/xlsxwriter/app.h | 3 src/include/xlsxwriter/chart.h | 222 + src/include/xlsxwriter/chartsheet.h | 2 src/include/xlsxwriter/comment.h |only src/include/xlsxwriter/common.h | 59 src/include/xlsxwriter/content_types.h | 6 src/include/xlsxwriter/core.h | 2 src/include/xlsxwriter/custom.h | 2 src/include/xlsxwriter/drawing.h | 23 src/include/xlsxwriter/format.h | 97 src/include/xlsxwriter/hash_table.h | 2 src/include/xlsxwriter/packager.h | 4 src/include/xlsxwriter/relationships.h | 2 src/include/xlsxwriter/shared_strings.h | 2 src/include/xlsxwriter/styles.h | 18 src/include/xlsxwriter/theme.h | 2 src/include/xlsxwriter/third_party/ioapi.h | 6 src/include/xlsxwriter/third_party/md5.h |only src/include/xlsxwriter/utility.h | 42 src/include/xlsxwriter/vml.h |only src/include/xlsxwriter/workbook.h | 149 - src/include/xlsxwriter/worksheet.h | 1669 ++++++++++++ src/include/xlsxwriter/xmlwriter.h | 6 src/libxlsxwriter/app.c | 7 src/libxlsxwriter/chart.c | 354 ++ src/libxlsxwriter/chartsheet.c | 2 src/libxlsxwriter/comment.c |only src/libxlsxwriter/content_types.c | 21 src/libxlsxwriter/core.c | 4 src/libxlsxwriter/custom.c | 2 src/libxlsxwriter/drawing.c | 160 + src/libxlsxwriter/format.c | 106 src/libxlsxwriter/hash_table.c | 2 src/libxlsxwriter/packager.c | 318 ++ src/libxlsxwriter/relationships.c | 2 src/libxlsxwriter/shared_strings.c | 6 src/libxlsxwriter/styles.c | 403 ++- src/libxlsxwriter/theme.c | 2 src/libxlsxwriter/utility.c | 37 src/libxlsxwriter/vml.c |only src/libxlsxwriter/workbook.c | 398 ++- src/libxlsxwriter/worksheet.c | 3779 +++++++++++++++++++++++++++-- src/libxlsxwriter/xmlwriter.c | 83 src/md5 |only src/minizip/ioapi.h | 10 src/minizip/zip.h | 10 51 files changed, 7520 insertions(+), 621 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization and Stochastic dominance. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 0.6.2 dated 2021-03-15 and 0.6.3.1 dated 2021-04-20
NNS-0.6.2/NNS/R/Co_PM_dep.R |only NNS-0.6.2/NNS/man/NNS.dep.hd.Rd |only NNS-0.6.3.1/NNS/DESCRIPTION | 9 NNS-0.6.3.1/NNS/MD5 | 74 - NNS-0.6.3.1/NNS/NAMESPACE | 2 NNS-0.6.3.1/NNS/R/ARMA.R | 26 NNS-0.6.3.1/NNS/R/ARMA_optim.R | 33 NNS-0.6.3.1/NNS/R/Boost.R | 111 +- NNS-0.6.3.1/NNS/R/Copula.R |only NNS-0.6.3.1/NNS/R/Dependence.R | 113 +- NNS-0.6.3.1/NNS/R/Internal_Functions.R | 12 NNS-0.6.3.1/NNS/R/LPM_UPM_VaR.R | 4 NNS-0.6.3.1/NNS/R/Multivariate_Regression.R | 32 NNS-0.6.3.1/NNS/R/NNS_VAR.R | 334 +++---- NNS-0.6.3.1/NNS/R/NNS_term_matrix.R | 10 NNS-0.6.3.1/NNS/R/Partial_Moments.R | 10 NNS-0.6.3.1/NNS/R/Regression.R | 49 - NNS-0.6.3.1/NNS/R/Stack.R | 94 +- NNS-0.6.3.1/NNS/build/vignette.rds |binary NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Classification.Rmd | 8 NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Classification.html | 336 ++------ NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Clustering_and_Regression.Rmd | 2 NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Clustering_and_Regression.html | 330 +------ NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Correlation_and_Dependence.R | 80 - NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Correlation_and_Dependence.Rmd | 95 +- NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Correlation_and_Dependence.html | 420 ++-------- NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Forecasting.html | 384 ++------- NNS-0.6.3.1/NNS/inst/doc/NNSvignette_Partial_Moments.html | 328 +------ NNS-0.6.3.1/NNS/man/LPM.VaR.Rd | 2 NNS-0.6.3.1/NNS/man/NNS.VAR.Rd | 7 NNS-0.6.3.1/NNS/man/NNS.boost.Rd | 15 NNS-0.6.3.1/NNS/man/NNS.copula.Rd |only NNS-0.6.3.1/NNS/man/NNS.dep.Rd | 53 - NNS-0.6.3.1/NNS/man/NNS.stack.Rd | 6 NNS-0.6.3.1/NNS/man/NNS.term.matrix.Rd | 2 NNS-0.6.3.1/NNS/man/PM.matrix.Rd | 8 NNS-0.6.3.1/NNS/man/UPM.VaR.Rd | 2 NNS-0.6.3.1/NNS/vignettes/NNSvignette_Classification.Rmd | 8 NNS-0.6.3.1/NNS/vignettes/NNSvignette_Clustering_and_Regression.Rmd | 2 NNS-0.6.3.1/NNS/vignettes/NNSvignette_Correlation_and_Dependence.Rmd | 95 +- 40 files changed, 1040 insertions(+), 2056 deletions(-)
Title: Bayesian Estimation of the GARCH(1,1) Model with Student-t
Innovations
Description: Provides the bayesGARCH() function which performs the
Bayesian estimation of the GARCH(1,1) model with Student's t innovations as described in Ardia (2008) <doi:10.1007/978-3-540-78657-3>.
Author: David Ardia [aut, cre]
Maintainer: David Ardia <david.ardia.ch@gmail.com>
Diff between bayesGARCH versions 2.1.5 dated 2020-04-20 and 2.1.7 dated 2021-04-20
COPYING | 680 ++++++++++++++++++------------------ DESCRIPTION | 13 MD5 | 30 - NAMESPACE | 2 NEWS | 12 R/functions.R | 102 ++--- R/sampler.R | 920 ++++++++++++++++++++++++------------------------- README |only README.md | 26 - THANKS | 10 build/partial.rdb |binary inst/CITATION | 5 inst/COPYRIGHTS | 2 man/bayesGARCH.Rd | 17 man/dem2gbp.Rd | 3 man/formSmpl.Rd | 84 ++-- src/packagename_init.c |only 17 files changed, 952 insertions(+), 954 deletions(-)
Title: Utilities for Streamlined Data Import, Imputation and Modelling
Description: Provides functions streamlining the data analysis workflow:
Outsourcing data import, renaming and type casting to a *.csv.
Manipulating imputed datasets and fitting models on them. Summarizing models.
Author: J. Peter Marquardt [aut] (<https://orcid.org/0000-0002-5596-1357>),
Till D. Best [aut, cre] (<https://orcid.org/0000-0001-7323-827X>)
Maintainer: Till D. Best <till-best@gmx.de>
Diff between basecamb versions 0.9.0 dated 2021-04-10 and 1.0.1 dated 2021-04-20
DESCRIPTION | 13 - MD5 | 23 +- NAMESPACE | 5 R/Tidy_names_types_factors.R | 311 ++++++++++++++++++++++++-------- R/filter_nth_entry.R |only README.md | 13 - man/apply_data_dictionary.Rd | 33 ++- man/assign_factorial_levels.Rd | 18 + man/assign_types_names.Rd | 79 ++++---- man/dot-find_NA_coercions.Rd |only man/dot-parse_string_to_named_vector.Rd | 4 man/filter_nth_entry.Rd |only man/parse_date_columns.Rd |only tests |only 14 files changed, 361 insertions(+), 138 deletions(-)
Title: Contextualization and Evaluation of COI-5P Barcode Data
Description: Designed for the cleaning, contextualization and assessment of cytochrome c
oxidase I DNA barcode data (COI-5P, or the five prime portion of COI). It contains
functions for placing COI-5P barcode sequences into a common reading frame,
translating DNA sequences to amino acids and for assessing the likelihood that a
given barcode sequence includes an insertion or deletion error. The error assessment
relies on the comparison of input sequences against nucleotide and amino acid profile
hidden Markov models (PHMMs) (for details see Durbin et al. 1998, ISBN: 9780521629713)
trained on a taxonomically diverse set of reference sequences. The functions are
provided as a complete pipeline and are also available individually for efficient and
targeted analysis of barcode data.
Author: Cameron M. Nugent
Maintainer: Cameron M. Nugent <nugentc@uoguelph.ca>
Diff between coil versions 1.2.2 dated 2020-10-29 and 1.2.3 dated 2021-04-20
DESCRIPTION | 6 MD5 | 4 inst/doc/coil-vignette.html | 949 +++++++++++++++++++++----------------------- 3 files changed, 463 insertions(+), 496 deletions(-)
Title: Kinetic Evaluation of Chemical Degradation Data
Description: Calculation routines based on the FOCUS Kinetics Report (2006,
2014). Includes a function for conveniently defining differential equation
models, model solution based on eigenvalues if possible or using numerical
solvers. If a C compiler (on windows: 'Rtools') is installed, differential
equation models are solved using automatically generated C functions. Please
note that no warranty is implied for correctness of results or fitness for a
particular purpose.
Author: Johannes Ranke [aut, cre, cph]
(<https://orcid.org/0000-0003-4371-6538>),
Katrin Lindenberger [ctb] (contributed to mkinresplot()),
René Lehmann [ctb] (ilr() and invilr()),
Eurofins Regulatory AG [cph] (copyright for some of the contributions
of JR 2012-2014)
Maintainer: Johannes Ranke <jranke@uni-bremen.de>
Diff between mkin versions 1.0.3 dated 2021-02-15 and 1.0.4 dated 2021-04-20
DESCRIPTION | 8 MD5 | 42 +-- NEWS.md | 16 - R/mkinparplot.R | 4 R/mmkin.R | 5 R/plot.mixed.mmkin.R | 1 R/plot.mkinfit.R | 4 R/plot.mmkin.R | 3 README.md | 5 build/partial.rdb |binary build/vignette.rds |binary inst/doc/FOCUS_D.html | 66 +---- inst/doc/FOCUS_L.html | 132 ++++------ inst/doc/mkin.html | 74 +---- inst/doc/twa.html | 2 man/mmkin.Rd | 5 tests/figs/plotting/mixed-model-fit-for-mmkin-object.svg | 5 tests/figs/plotting/mixed-model-fit-for-nlme-object.svg | 5 tests/figs/plotting/mkinfit-plot-for-focus-c-with-residuals-like-in-gmkin.svg | 42 +-- tests/figs/plotting/mkinfit-plot-for-focus-c-with-sep-true.svg | 42 +-- tests/figs/plotting/plot-res-for-focus-c.svg | 42 +-- tests/figs/plotting/plot-res-for-focus-d.svg | 98 +++---- 22 files changed, 275 insertions(+), 326 deletions(-)
Title: Journal Abbreviations for BibTeX Documents
Description: Since the reference management software (such as 'Zotero', 'Mendeley') exports Bib file journal abbreviation is not detailed enough, the 'journalabbr' package only abbreviates the journal field of Bib file, and then outputs a new Bib file for generating reference format with journal abbreviation on other software (such as 'texstudio'). The abbreviation table is from 'JabRef'. At the same time, 'Shiny' application is provided to generate 'thebibliography', a reference format that can be directly used for latex paper writing based on 'Rmd' files.
Author: ShuCai Zou [aut, cre],
Yu Chen [aut]
Maintainer: ShuCai Zou <zscmoyujian@163.com>
Diff between journalabbr versions 0.2.2 dated 2020-08-06 and 0.2.5 dated 2021-04-20
DESCRIPTION | 17 - MD5 | 26 +- NAMESPACE | 2 R/abbr2bib.R | 7 R/abbrTable.R | 10 - R/read_bib2tib.R | 4 R/sysdata.rda |binary R/write_tib2bib.R | 8 README.md | 26 ++ inst/shiny-examples/appckwx/MEMIO_default.bib |only inst/shiny-examples/appckwx/app.R | 201 +++++++++++++++++++++ inst/shiny-examples/appckwx/navigation_default.csl |only inst/shiny-examples/appckwx/rmd_finally.Rmd |only inst/shiny-examples/appckwx/rmd_finally.tex |only man/abbrTable.Rd | 9 man/write_tib2bib.Rd | 3 16 files changed, 288 insertions(+), 25 deletions(-)
Title: "Eating the Liver of Data Science"
Description: Provides a collection of helper functions that make various techniques from data science more user-friendly for non-experts. In this way, our aim is to allow non-experts to become familiar with the techniques with only a minimal level of coding knowledge. Indeed, following an ancient Persian idiom, we refer to this as "eating the liver of data science" which could be interpreted as "getting intimately close with data science". Examples of procedures we include are: data partitioning for out-of-sample testing, computing Mean Squared Error (MSE) for quantifying prediction accuracy, and data transformation (z-score and min-max). Besides such helper functions, the package also includes several interesting datasets that are useful for multivariate analysis.
Author: Reza Mohammadi [aut, cre] (<https://orcid.org/0000-0001-9538-0648>),
Kevin Burke [aut]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between liver versions 1.6 dated 2021-04-06 and 1.7 dated 2021-04-20
DESCRIPTION | 6 ++--- MD5 | 20 +++++++++-------- NAMESPACE | 1 NEWS.md | 13 ++++++++++- R/accuracy.R |only R/conf.mat.R | 20 +++++++++++------ R/conf.mat.plot.R | 32 +++++---------------------- R/kNN.plot.R | 60 ++++++++++++++++++++++++++++++++++++--------------- man/accuracy.Rd |only man/conf.mat.Rd | 11 +++++++-- man/conf.mat.plot.Rd | 5 ++-- man/kNN.plot.Rd | 11 +++++---- 12 files changed, 109 insertions(+), 70 deletions(-)
Title: Import Surface Meteorological Data from NOAA Integrated Surface
Database (ISD)
Description: Functions to import data from more than 30,000 surface
meteorological sites around the world managed by the National Oceanic and Atmospheric Administration (NOAA) Integrated Surface
Database (ISD, see <https://www.ncdc.noaa.gov/isd>).
Author: David Carslaw [aut, cre]
Maintainer: David Carslaw <david.carslaw@york.ac.uk>
Diff between worldmet versions 0.9.4 dated 2021-04-09 and 0.9.5 dated 2021-04-20
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/getMeta.R | 32 ++++++++++++++++---------------- man/getMeta.Rd | 2 +- 4 files changed, 24 insertions(+), 24 deletions(-)
Title: Tidy Tuning Tools
Description: The ability to tune models is important. 'tune' contains functions and
classes to be used in conjunction with other 'tidymodels' packages for
finding reasonable values of hyper-parameters in models, pre-processing
methods, and post-processing steps.
Author: Max Kuhn [aut, cre] (<https://orcid.org/0000-0003-2402-136X>),
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between tune versions 0.1.3 dated 2021-02-28 and 0.1.4 dated 2021-04-20
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++--------------- NAMESPACE | 1 - NEWS.md | 13 +++++++++++-- R/conf_mat_resampled.R | 6 ++++-- R/finalize.R | 16 ++++++---------- R/load_ns.R | 25 ++++--------------------- R/logging.R | 2 +- R/tunable.R | 2 ++ README.md | 27 ++++++++++++++------------- man/conf_mat_resampled.Rd | 5 +++-- man/message_wrap.Rd | 2 +- man/required_pkgs.Rd | 3 --- tests/testthat/test-conf-mat-resampled.R | 2 +- tests/testthat/test-finalization.R | 17 +++++++++++++++++ tests/testthat/test-tunable.R | 5 ++++- 16 files changed, 87 insertions(+), 77 deletions(-)
Title: Spatial and Space-Time Point Pattern Analysis
Description: The Splancs package was written as an enhancement to S-Plus for display and analysis of spatial point pattern data; it has been ported to R and is in "maintenance mode".
Author: Roger Bivand [cre],
Barry Rowlingson [aut],
Peter Diggle [aut],
Giovanni Petris [ctb],
Stephen Eglen [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between splancs versions 2.01-40 dated 2017-04-16 and 2.01-42 dated 2021-04-20
DESCRIPTION | 10 +-- MD5 | 132 ++++++++++++++++++++++++++-------------------------- man/Fhat.Rd | 4 - man/Fzero.Rd | 4 - man/Ghat.Rd | 4 - man/Kenv.csr.Rd | 4 - man/Kenv.label.Rd | 4 - man/Kenv.tor.Rd | 4 - man/Kenv.tor1.Rd | 2 man/addpoints.Rd | 4 - man/amacrines.Rd | 2 man/areapl.Rd | 4 - man/as.points.Rd | 4 - man/bbox.Rd | 4 - man/bodmin.Rd | 2 man/burkitt.Rd | 2 man/cardiff.Rd | 2 man/csr.Rd | 4 - man/delpoints.Rd | 4 - man/dsquare.Rd | 4 - man/gen.Rd | 4 - man/getpoly.Rd | 4 - man/gridpts.Rd | 4 - man/inout.Rd | 4 - man/inpip.Rd | 4 - man/is.points.Rd | 4 - man/k12hat.Rd | 4 - man/kernel2d.Rd | 4 - man/kernel3d.Rd | 4 - man/kernrat.Rd | 4 - man/kerview.Rd | 4 - man/khat.Rd | 6 +- man/khvc.Rd | 4 - man/khvmat.Rd | 4 - man/mpoint.Rd | 4 - man/mse2d.Rd | 4 - man/n2dist.Rd | 4 - man/nndistF.Rd | 4 - man/nndistG.Rd | 4 - man/npts.Rd | 4 - man/okblack.Rd | 2 man/okwhite.Rd | 2 man/pdense.Rd | 4 - man/pip.Rd | 4 - man/plt.Rd | 4 - man/pointmap.Rd | 4 - man/polymap.Rd | 4 - man/print.ribfit.Rd | 4 - man/ranpts.Rd | 4 - man/rlabel.Rd | 4 - man/rtor.shift.Rd | 4 - man/sbox.Rd | 4 - man/secal.Rd | 4 - man/shift.Rd | 4 - man/splancs.Rd | 4 - man/spoints.Rd | 4 - man/stdiagn.Rd | 4 - man/stkhat.Rd | 4 - man/stmctest.Rd | 4 - man/stsecal.Rd | 4 - man/stvmat.Rd | 4 - man/thin.Rd | 4 - man/tor.shift.Rd | 4 - man/tribble.Rd | 4 - man/triblik.Rd | 4 - man/uganda.Rd | 2 man/zoom.Rd | 4 - 67 files changed, 194 insertions(+), 194 deletions(-)
Title: Recognize and Parse Dates in Various Formats, Including All ISO
8601 Formats
Description: Parse dates automatically, without the need of
specifying a format. Currently it includes the git date parser.
It can also recognize and parse all ISO 8601 formats.
Author: Gábor Csárdi, Linus Torvalds
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between parsedate versions 1.2.0 dated 2019-05-08 and 1.2.1 dated 2021-04-20
parsedate-1.2.0/parsedate/inst |only parsedate-1.2.1/parsedate/DESCRIPTION | 7 ++--- parsedate-1.2.1/parsedate/MD5 | 17 +++++------- parsedate-1.2.1/parsedate/NEWS.md |only parsedate-1.2.1/parsedate/R/parsedate-package.r | 2 - parsedate-1.2.1/parsedate/README.md |only parsedate-1.2.1/parsedate/man/parse_iso_8601.Rd | 2 - parsedate-1.2.1/parsedate/tests/testthat.R | 2 - parsedate-1.2.1/parsedate/tests/testthat/helper.R | 18 ------------- parsedate-1.2.1/parsedate/tests/testthat/test-time-zones.R | 10 +++---- 10 files changed, 19 insertions(+), 39 deletions(-)
Title: Finite Difference Method for Multi-Asset Option Valuation
Description: Efficient finite difference method for valuing European and American multi-asset options.
Author: Michael Eichenberger and Carlo Rosa
Maintainer: Michael Eichenberger <mike.eichenberger@gmail.com>
Diff between multiAssetOptions versions 0.1-1 dated 2015-01-31 and 0.1-2 dated 2021-04-20
DESCRIPTION | 10 MD5 | 20 - NAMESPACE | 3 R/matrixFDM.R | 576 +++++++++++++++++----------------- R/multiAssetOption.R | 332 +++++++++---------- R/plotOptionValues.R | 54 +-- inst/doc/multiAssetOptions-manual.pdf |binary man/matrixFDM.Rd | 99 ++--- man/multiAssetOption.Rd | 4 man/multiAssetOptions-package.Rd | 52 +-- man/nodeSpacer.Rd | 108 +++--- 11 files changed, 628 insertions(+), 630 deletions(-)
More information about multiAssetOptions at CRAN
Permanent link
Title: Call R from R
Description: It is sometimes useful to perform a computation in a
separate R process, without affecting the current R process at all.
This packages does exactly that.
Author: Gábor Csárdi [aut, cre, cph] (<https://orcid.org/0000-0001-7098-9676>),
Winston Chang [aut],
RStudio [cph, fnd],
Mango Solutions [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between callr versions 3.6.0 dated 2021-03-28 and 3.7.0 dated 2021-04-20
DESCRIPTION | 10 +-- MD5 | 52 +++++++++---------- NEWS.md | 10 +++ R/error.R | 2 R/errors.R | 107 +++++++++++++++++++++++++++------------- R/hook.R | 5 + R/load-client.R | 50 +++++++++++++----- R/package.R | 1 R/presets.R | 2 R/r-session.R | 4 + R/rscript.R | 2 R/script.R | 11 ++-- R/setup.R | 32 +++++++---- R/utils.R | 5 + README.md | 93 +++++++++++++++------------------- man/r.Rd | 10 +++ man/r_bg.Rd | 10 +++ man/r_process.Rd | 12 ++++ man/r_session.Rd | 14 +++++ man/r_vanilla.Rd | 12 ++++ man/rcmd.Rd | 5 + man/rcmd_process.Rd | 8 ++ man/rscript_process.Rd | 8 ++ tests/testthat/helper.R | 10 --- tests/testthat/test-bugs.R | 14 +---- tests/testthat/test-libpath.R | 32 +++++++++++ tests/testthat/test-r-session.R | 6 -- 27 files changed, 349 insertions(+), 178 deletions(-)
Title: Package for Community Ecology and Suitability Analysis
Description: Graphical User Interface (via the R-Commander) and utility functions (often based on the vegan package) for statistical analysis of biodiversity and ecological communities, including species accumulation curves, diversity indices, Renyi profiles, GLMs for analysis of species abundance and presence-absence, distance matrices, Mantel tests, and cluster, constrained and unconstrained ordination analysis. A book on biodiversity and community ecology analysis is available for free download from the website. In 2012, methods for (ensemble) suitability modelling and mapping were expanded in the package.
Author: Roeland Kindt [cre, aut] (<https://orcid.org/0000-0002-7672-0712>)
Maintainer: Roeland Kindt <R.KINDT@CGIAR.ORG>
Diff between BiodiversityR versions 2.12-3 dated 2020-12-17 and 2.13-1 dated 2021-04-20
BiodiversityR-2.12-3/BiodiversityR/data/BCI.env.txt.gz |only BiodiversityR-2.12-3/BiodiversityR/data/faramea.txt.gz |only BiodiversityR-2.12-3/BiodiversityR/data/ifri.txt.gz |only BiodiversityR-2.12-3/BiodiversityR/data/transfgradient.txt.gz |only BiodiversityR-2.12-3/BiodiversityR/data/transfspecies.txt.gz |only BiodiversityR-2.12-3/BiodiversityR/data/warcom.txt.gz |only BiodiversityR-2.12-3/BiodiversityR/data/warenv.txt.gz |only BiodiversityR-2.12-3/BiodiversityR/inst/doc |only BiodiversityR-2.13-1/BiodiversityR/DESCRIPTION | 10 BiodiversityR-2.13-1/BiodiversityR/MD5 | 57 - BiodiversityR-2.13-1/BiodiversityR/NAMESPACE | 64 - BiodiversityR-2.13-1/BiodiversityR/R/ensemble.PET.seasons.R |only BiodiversityR-2.13-1/BiodiversityR/R/ensemble.blockCV.R |only BiodiversityR-2.13-1/BiodiversityR/R/ensemble.ecocrop.season.R |only BiodiversityR-2.13-1/BiodiversityR/R/sites.long.R | 471 +++++----- BiodiversityR-2.13-1/BiodiversityR/README.md |only BiodiversityR-2.13-1/BiodiversityR/build |only BiodiversityR-2.13-1/BiodiversityR/data/BCI.env.txt |only BiodiversityR-2.13-1/BiodiversityR/data/faramea.txt |only BiodiversityR-2.13-1/BiodiversityR/data/ifri.txt |only BiodiversityR-2.13-1/BiodiversityR/data/transfgradient.txt |only BiodiversityR-2.13-1/BiodiversityR/data/transfspecies.txt |only BiodiversityR-2.13-1/BiodiversityR/data/warcom.txt |only BiodiversityR-2.13-1/BiodiversityR/data/warenv.txt |only BiodiversityR-2.13-1/BiodiversityR/inst/ChangeLog | 24 BiodiversityR-2.13-1/BiodiversityR/man/ensemble.PET.season.Rd | 4 BiodiversityR-2.13-1/BiodiversityR/man/ensemble.PET.seasons.Rd |only BiodiversityR-2.13-1/BiodiversityR/man/ensemble.Rd | 2 BiodiversityR-2.13-1/BiodiversityR/man/ensemble.batch.Rd | 2 BiodiversityR-2.13-1/BiodiversityR/man/ensemble.blockCV.Rd |only BiodiversityR-2.13-1/BiodiversityR/man/ensemble.ecocrop.Rd | 6 BiodiversityR-2.13-1/BiodiversityR/man/ensemble.evaluate.Rd | 6 BiodiversityR-2.13-1/BiodiversityR/man/ensemble.raster.Rd | 3 BiodiversityR-2.13-1/BiodiversityR/man/ensemble.red.Rd | 6 BiodiversityR-2.13-1/BiodiversityR/man/evaluation.strip.Rd | 3 BiodiversityR-2.13-1/BiodiversityR/man/figures |only BiodiversityR-2.13-1/BiodiversityR/man/sites.long.Rd | 65 + 37 files changed, 423 insertions(+), 300 deletions(-)
Title: Inference of Transmission Tree from a Dated Phylogeny
Description: Inference of transmission tree from a dated phylogeny.
Includes methods to simulate and analyse outbreaks.
The methodology is described in
Didelot et al. (2014) <doi:10.1093/molbev/msu121>,
Didelot et al. (2017) <doi:10.1093/molbev/msw275>.
Author: Xavier Didelot [aut, cre] (<https://orcid.org/0000-0003-1885-500X>),
Yuanwei Xu [ctb]
Maintainer: Xavier Didelot <xavier.didelot@gmail.com>
Diff between TransPhylo versions 1.4.4 dated 2020-06-08 and 1.4.5 dated 2021-04-20
DESCRIPTION | 12 +- MD5 | 58 +++++------ R/interpret.R | 69 +++++++------ R/plotTTree2.R | 6 - R/probTTree.R | 13 ++ build/vignette.rds |binary inst/doc/TransPhylo.R | 4 inst/doc/TransPhylo.html | 78 ++++++++++---- inst/doc/infer.R | 36 +++--- inst/doc/infer.html | 156 ++++++++++++++++++----------- inst/doc/multitree.R | 20 +-- inst/doc/multitree.html | 188 +++++++++++++++++++++--------------- inst/doc/simulate.R | 24 ++-- inst/doc/simulate.html | 120 ++++++++++++++-------- man/getGenerationTimeDist.Rd | 9 + man/getIncidentCases.Rd | 11 +- man/getInfectionTimeDist.Rd | 3 man/getSamplingTimeDist.Rd | 9 + man/inferTTree.Rd | 33 ++++-- man/infer_multittree_share_param.Rd | 33 ++++-- man/makeCTreeFromPTree.Rd | 16 ++- man/makeTTree.Rd | 13 ++ man/plot.ttree.Rd | 3 man/plotCTree.Rd | 10 + man/plotTTree.Rd | 3 man/plotTTree2.Rd | 10 + man/probTTree.Rd | 14 ++ man/probTTreeR.Rd | 13 ++ man/simulateOutbreak.Rd | 21 +++- tests/testthat/Rplots.pdf |binary 30 files changed, 625 insertions(+), 360 deletions(-)
Title: Plot Scaled 'ggplot' Representations of Sports Playing Surfaces
Description: Create scaled 'ggplot' representations of playing surfaces.
Playing surfaces are drawn pursuant to rule-book specifications.
This package should be used as a baseline plot for displaying player
tracking data.
Author: Ross Drucker [aut, cre]
Maintainer: Ross Drucker <ross.a.drucker@gmail.com>
Diff between sportyR versions 1.0.0 dated 2021-04-19 and 1.0.1 dated 2021-04-20
sportyR-1.0.0/sportyR/man/wnba_feature_backboard.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_basket_ring.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_center_circles.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_court_apron.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_court_bground.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_division_line.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_endline.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_free_throw_dashed_semi_circle.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_free_throw_lane.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_free_throw_lane_lines.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_free_throw_semi_circle.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_lower_defensive_box.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_net.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_restricted_area_arc.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_sideline.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_substitution_area.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_team_bench.Rd |only sportyR-1.0.0/sportyR/man/wnba_feature_three_point_line.Rd |only sportyR-1.0.0/sportyR/man/wnba_features_set_colors.Rd |only sportyR-1.0.1/sportyR/DESCRIPTION | 8 - sportyR-1.0.1/sportyR/MD5 | 28 +----- sportyR-1.0.1/sportyR/NEWS.md |only sportyR-1.0.1/sportyR/R/math-functions.R | 17 +++ sportyR-1.0.1/sportyR/tests/testthat/test-shapes.R | 43 ++++++++-- sportyR-1.0.1/sportyR/tests/testthat/test-unit-conversions.R | 4 25 files changed, 65 insertions(+), 35 deletions(-)
Title: Flexible Polyline Encoding
Description: Binding to the C++ implementation of the flexible polyline
encoding by HERE <https://github.com/heremaps/flexible-polyline>. The
flexible polyline encoding is a lossy compressed representation of a list of
coordinate pairs or coordinate triples. The encoding is achieved by:
(1) Reducing the decimal digits of each value;
(2) encoding only the offset from the previous point;
(3) using variable length for each coordinate delta; and
(4) using 64 URL-safe characters to display the result.
Author: Merlin Unterfinger [aut, cre] (<https://orcid.org/0000-0003-2020-2366>),
HERE Europe B.V. [aut, cph] (Flexible polyline encoding C++
implementation)
Maintainer: Merlin Unterfinger <info@munterfinger.ch>
Diff between flexpolyline versions 0.2.1 dated 2021-01-04 and 0.2.2 dated 2021-04-20
DESCRIPTION | 7 MD5 | 36 +- NEWS.md | 85 ++--- R/RcppExports.R | 254 +++++++-------- R/decode_sf.R | 2 R/encode_sf.R | 28 + README.md | 5 build/vignette.rds |binary inst/doc/cpp-binding.R | 72 ++-- inst/doc/cpp-binding.html | 443 ++++++++++++++------------- inst/doc/flexpolyline.R | 68 ++-- inst/doc/flexpolyline.html | 469 ++++++++++++++--------------- inst/doc/sf-support.R | 112 +++---- inst/doc/sf-support.html | 607 +++++++++++++++++++------------------- inst/include/hf/flexpolyline.h | 4 man/encode_sf.Rd | 24 + tests/testthat/test-cpp_binding.R | 47 +- tests/testthat/test-decode_sf.R | 31 - tests/testthat/test-encode_sf.R | 31 + 19 files changed, 1184 insertions(+), 1141 deletions(-)
Title: Lasso, Group Lasso, and Sparse-Group Lasso for Mixed Models
Description: Proximal gradient descent solver for the operators lasso, (fitted)
group lasso, and (fitted) sparse-group lasso. The implementation involves
backtracking line search and warm starts. Input data needs to be clustered/
grouped for each group lasso variant before calling these algorithms.
Author: Jan Klosa [aut, cre],
Noah Simon [ths],
Dörte Wittenburg [ths]
Maintainer: Jan Klosa <klosa@fbn-dummerstorf.de>
Diff between seagull versions 1.0.6 dated 2020-03-25 and 1.1.0 dated 2021-04-20
DESCRIPTION | 20 - MD5 | 45 +-- NAMESPACE | 4 NEWS.md | 21 + R/RcppExports.R | 324 ++++++++++++++++++++++- R/seagull.R | 353 ++++++++++++++++++++++--- README.md | 42 +-- build/vignette.rds |binary inst/doc/seagull.Rmd | 61 +++- inst/doc/seagull.pdf |binary man/genotypes.Rd | 6 man/groups.Rd | 4 man/lambda_max.Rd | 22 + man/lasso_variants.Rd | 419 +++++++++++++++++++----------- man/phenotypes.Rd | 6 man/seagull.Rd | 52 +++ man/seagull_data.Rd | 6 src/RcppExports.cpp | 130 ++++++++- src/lambda_max_fitted_group_lasso.cpp |only src/seagull_fitted_group_lasso.cpp |only src/seagull_fitted_sparse_group_lasso.cpp |only src/seagull_group_lasso.cpp | 169 +++++++++--- src/seagull_lasso.cpp | 169 +++++++++--- src/seagull_sparse_group_lasso.cpp | 175 +++++++++--- vignettes/seagull.Rmd | 61 +++- 25 files changed, 1658 insertions(+), 431 deletions(-)
Title: Multistage Sampling Allocation and PSU Selection
Description: Multivariate optimal allocation for different domains in one and two stages stratified sample design.R2BEAT extends the Neyman (1934) – Tschuprow (1923) allocation method to the case of several variables, adopting a generalization of the Bethel’s proposal (1989). R2BEAT develops this methodology but, moreover, it allows to determine the sample allocation in the multivariate and multi-domains case of estimates for two-stage stratified samples. It also allows to perform Primary Stage Units selection. This package requires the availability of ReGenesees, that can be installed from <https://github.com/DiegoZardetto/ReGenesees>.
Author: Andrea Fasulo,Giulio Barcaroli,Raffaella Cianchetta,Stefano Falorsi,Alessio Guandalini,Daniela Pagliuca,Marco Dionisio Terribili
Maintainer: Andrea Fasulo <fasulo@istat.it>
Diff between R2BEAT versions 1.0.2 dated 2021-01-11 and 1.0.2-1 dated 2021-04-20
R2BEAT-1.0.2-1/R2BEAT/DESCRIPTION | 8 +-- R2BEAT-1.0.2-1/R2BEAT/MD5 | 17 +++---- R2BEAT-1.0.2-1/R2BEAT/R/beatcv.R | 6 +- R2BEAT-1.0.2-1/R2BEAT/R/beth1.R | 6 +- R2BEAT-1.0.2-1/R2BEAT/R/beth2.R | 17 +++++-- R2BEAT-1.0.2-1/R2BEAT/man/beth1.Rd | 26 +++++------ R2BEAT-1.0.2-1/R2BEAT/man/beth2.Rd | 50 +++++++++++------------ R2BEAT-1.0.2-1/R2BEAT/man/check_input.Rd | 2 R2BEAT-1.0.2-1/R2BEAT/man/input_to_beat.2st_1.Rd | 4 - R2BEAT-1.0.2/R2BEAT/inst |only 10 files changed, 72 insertions(+), 64 deletions(-)
Title: Quality Improvement Charts
Description: Functions for making run charts
[Anhoej, Olesen (2014) <doi:10.1371/journal.pone.0113825>] and basic
Shewhart control charts [Mohammed, Worthington, Woodall (2008)
<doi:10.1136/qshc.2004.012047>] for measure and count data.
The main function, qic(), creates run and control charts and has a
simple interface with a rich set of options to control data analysis
and plotting, including options for automatic data aggregation by
subgroups, easy analysis of before-and-after data, exclusion of one
or more data points from analysis, and splitting charts into
sequential time periods.
Missing values and empty subgroups are handled gracefully.
Author: Jacob Anhoej [aut, cre],
Timo Roeder [ctb]
Maintainer: Jacob Anhoej <jacob@anhoej.net>
Diff between qicharts versions 0.5.5 dated 2017-08-28 and 0.5.8 dated 2021-04-20
DESCRIPTION | 18 - MD5 | 30 +- NEWS | 14 + build/vignette.rds |binary inst/doc/controlcharts.R | 24 +- inst/doc/controlcharts.Rmd | 10 inst/doc/controlcharts.html | 508 +++++++++++++++++++++++++------------------- inst/doc/runcharts.R | 18 - inst/doc/runcharts.Rmd | 4 inst/doc/runcharts.html | 267 ++++++++++++++--------- man/paretochart.Rd | 11 man/qic.Rd | 47 +++- man/tcc.Rd | 42 +++ man/trc.Rd | 16 + vignettes/controlcharts.Rmd | 10 vignettes/runcharts.Rmd | 4 16 files changed, 627 insertions(+), 396 deletions(-)
Title: Download and Display Map Tiles
Description: To create maps from tiles, 'maptiles' downloads, composes and
displays tiles from a large number of providers (e.g. 'OpenStreetMap',
'Stamen', 'Esri', 'CARTO', or 'Thunderforest').
Author: Timothée Giraud [cre, aut] (<https://orcid.org/0000-0002-1932-3323>),
Diego Hernangómez [ctb] (<https://orcid.org/0000-0001-8457-4658>),
Robert J. Hijmans [ctb] (<https://orcid.org/0000-0001-5872-2872>)
Maintainer: Timothée Giraud <timothee.giraud@cnrs.fr>
Diff between maptiles versions 0.1.1 dated 2020-11-20 and 0.1.2 dated 2021-04-20
DESCRIPTION | 32 +++++++++++++++++++++++--------- MD5 | 21 +++++++++++---------- NAMESPACE | 4 +++- NEWS.md |only R/get_tiles.R | 41 +++++++++++++++++++++++++++++++++-------- R/sysdata.rda |binary R/tiles.R | 19 ++++++------------- R/zzz.R | 2 +- README.md | 17 +++++++++-------- inst/tinytest/test_get_tiles.R | 6 ++++++ man/get_tiles.Rd | 5 +++-- man/plot_tiles.Rd | 1 + 12 files changed, 96 insertions(+), 52 deletions(-)
Title: Binning and Plotting of Linearly Referenced Data
Description: Short for 'linear binning', the linbin package provides functions
for manipulating, binning, and plotting linearly referenced data. Although
developed for data collected on river networks, it can be used with any interval
or point data referenced to a 1-dimensional coordinate system. Flexible bin
generation and batch processing makes it easy to compute and visualize variables
at multiple scales, useful for identifying patterns within and between variables
and investigating the influence of scale of observation on data interpretation.
Author: Ethan Z. Welty [aut, cre],
Christian E. Torgersen [ctb] (author support and guidance),
Samuel J. Brenkman [ctb] (elwha and quinault datasets),
Jeffrey J. Duda [ctb] (elwha dataset),
Jonathan B. Armstrong [ctb] (fishmotion dataset)
Maintainer: Ethan Z. Welty <ethan.welty+linbin@gmail.com>
Diff between linbin versions 0.1.2 dated 2017-03-14 and 0.1.3 dated 2021-04-20
linbin-0.1.2/linbin/data/datalist |only linbin-0.1.3/linbin/DESCRIPTION | 12 linbin-0.1.3/linbin/MD5 | 66 +- linbin-0.1.3/linbin/NAMESPACE | 5 linbin-0.1.3/linbin/NEWS.md | 5 linbin-0.1.3/linbin/R/datasets.R | 10 linbin-0.1.3/linbin/R/event_creation.R | 47 +- linbin-0.1.3/linbin/R/event_metrics.R | 19 linbin-0.1.3/linbin/R/plot_events.R | 12 linbin-0.1.3/linbin/R/time.R |only linbin-0.1.3/linbin/README.md | 42 + linbin-0.1.3/linbin/build/partial.rdb |only linbin-0.1.3/linbin/build/vignette.rds |binary linbin-0.1.3/linbin/inst/doc/examples.R | 14 linbin-0.1.3/linbin/inst/doc/examples.Rmd | 2 linbin-0.1.3/linbin/inst/doc/examples.html | 375 ++++++++++------- linbin-0.1.3/linbin/inst/doc/introduction.R | 54 +- linbin-0.1.3/linbin/inst/doc/introduction.Rmd | 4 linbin-0.1.3/linbin/inst/doc/introduction.html | 269 +++++++----- linbin-0.1.3/linbin/man/as_events.Rd | 16 linbin-0.1.3/linbin/man/build_function_call.Rd | 10 linbin-0.1.3/linbin/man/elwha.Rd | 6 linbin-0.1.3/linbin/man/event_midpoints.Rd |only linbin-0.1.3/linbin/man/events.Rd | 2 linbin-0.1.3/linbin/man/fishmotion.Rd | 8 linbin-0.1.3/linbin/man/netmap.Rd | 8 linbin-0.1.3/linbin/man/plot_events.Rd | 40 + linbin-0.1.3/linbin/man/plot_events_single.Rd | 28 - linbin-0.1.3/linbin/man/quinault.Rd | 4 linbin-0.1.3/linbin/man/read_events.Rd | 5 linbin-0.1.3/linbin/man/sample_events.Rd | 10 linbin-0.1.3/linbin/man/simple.Rd | 4 linbin-0.1.3/linbin/man/to_date.Rd |only linbin-0.1.3/linbin/man/to_datetime.Rd |only linbin-0.1.3/linbin/tools/README-unnamed-chunk-3-1.png |binary linbin-0.1.3/linbin/vignettes/examples.Rmd | 2 linbin-0.1.3/linbin/vignettes/introduction.Rmd | 4 37 files changed, 681 insertions(+), 402 deletions(-)
Title: Comprehensive TIFF I/O with Full Support for 'ImageJ' TIFF Files
Description: General purpose TIFF file I/O for R users.
Currently the only such package with read and write support for TIFF
files with floating point (real-numbered) pixels, and the only package
that can correctly import TIFF files that were saved from 'ImageJ' and
write TIFF files than can be correctly read by 'ImageJ'
<https://imagej.nih.gov/ij/>. Also supports text image I/O.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>),
Kent Johnson [aut],
Simon Urbanek [ctb],
Sergi Padilla-Parra [ths] (<https://orcid.org/0000-0002-8010-9481>),
Jeroen Ooms [rev, ctb] (<https://orcid.org/0000-0002-4035-0289>),
Jon Clayden [rev] (<https://orcid.org/0000-0002-6608-0619>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between ijtiff versions 2.2.5 dated 2021-01-14 and 2.2.6 dated 2021-04-20
DESCRIPTION | 9 +++---- MD5 | 20 ++++++++--------- NEWS.md | 7 ++++++ README.md | 3 -- inst/doc/reading-and-writing-images.html | 29 +++++++++++++++--------- inst/doc/text-images.html | 4 +-- inst/doc/the-imagej-problem.html | 15 +++++++++--- man/as_EBImage.Rd | 8 ++++-- tests/testthat.R | 2 - tests/testthat/_snaps/print.md | 10 -------- tools/config/configure.R | 36 +++++++++++++++++++------------ 11 files changed, 81 insertions(+), 62 deletions(-)
Title: Synoptic Climate Classification and Spatial Regionalization of
Environmental Data
Description: Set of functions to compute different types of synoptic classification methods and for analysing their effect on environmental variables. More information about the methods used in Lemus-Canovas et al. 2019 <DOI:10.1016/j.atmosres.2019.01.018>, Martin-Vide et al. 2008 <DOI:10.5194/asr-2-99-2008>, Jenkinson and Collison 1977.
Author: Marc Lemus-Canovas [aut, cre] (<https://orcid.org/0000-0002-0925-3827>),
Dominic Roye [ctb] (<https://orcid.org/0000-0002-5516-6396>)
Maintainer: Marc Lemus-Canovas <mlemus@ub.edu>
Diff between synoptReg versions 1.1.0 dated 2020-11-20 and 1.2.0 dated 2021-04-20
DESCRIPTION | 17 +++-- MD5 | 17 +++-- NAMESPACE | 5 + R/globals.R |only R/lamb_clas.R | 40 ++++++++++---- R/som_clas.R |only R/synoptclas.R | 154 +++++++++++++++++++++++++++++++++++++++--------------- R/tidy_nc.R | 6 +- man/lamb_clas.Rd | 13 +++- man/som_clas.Rd |only man/synoptclas.Rd | 12 +--- 11 files changed, 186 insertions(+), 78 deletions(-)
Title: General Equilibrium Modeling
Description: Some tools for developing general equilibrium models and some general equilibrium models. These models can be used for teaching economic theory and are built by the methods of new structural economics (see <https://www.nse.pku.edu.cn/> and LI Wu, 2019, ISBN: 9787521804225, General Equilibrium and Structural Dynamics: Perspectives of New Structural Economics. Beijing: Economic Science Press). The model form and mathematical methods can be traced back to von Neumann, J. (1945, A Model of General Economic Equilibrium. The Review of Economic Studies, 13. pp. 1-9) and Kemeny, J. G., O. Morgenstern and G. L. Thompson (1956, A Generalization of the von Neumann Model of an Expanding Economy, Econometrica, 24, pp. 115-135) et al. By the way, J. G. Kemeny is a co-inventor of the computer language BASIC.
Author: LI Wu <liwu@staff.shu.edu.cn>
Maintainer: LI Wu <liwu@staff.shu.edu.cn>
Diff between GE versions 0.1.6 dated 2020-11-25 and 0.1.8 dated 2021-04-20
DESCRIPTION | 7 +++---- MD5 | 6 +++--- R/node_print.R | 2 +- man/CES.Rd | 1 + 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Modular Leaf Ordering Methods for Dendrogram Nodes
Description: An implementation of functions to optimize ordering of nodes in a dendrogram, without affecting the meaning of the dendrogram. A dendrogram can be sorted based on the average distance of subtrees, or based on the smallest distance value. These sorting methods improve readability and interpretability of tree structure, especially for tasks such as comparison of different distance measures or linkage types and identification of tight clusters and outliers. As a result, it also introduces more meaningful reordering for a coupled heatmap visualization. This method is described in "dendsort: modular leaf ordering methods for dendrogram representations in R", F1000Research 2014, 3: 177 <doi:10.12688/f1000research.4784.1>.
Author: Ryo Sakai [aut],
Evan Biederstedt [cre, aut]
Maintainer: Evan Biederstedt <evan.biederstedt@gmail.com>
Diff between dendsort versions 0.3.3 dated 2015-12-14 and 0.3.4 dated 2021-04-20
DESCRIPTION | 32 - MD5 | 44 +- README.md |only build/vignette.rds |binary inst/doc/example_figures.R | 45 +- inst/doc/example_figures.Rmd | 73 +--- inst/doc/example_figures.html | 715 +++++++++++++++++------------------------- man/cal_length.Rd | 1 man/cal_node_limit.Rd | 1 man/cal_total_length.Rd | 1 man/dendsort-package.Rd | 1 man/dendsort.Rd | 1 man/sample_tcga.Rd | 5 man/sort_average.Rd | 1 man/sort_average_r.Rd | 1 man/sort_smallest.Rd | 1 man/sort_smallest_r.Rd | 1 vignettes/example_figures.Rmd | 73 +--- vignettes/example_figures.md |only vignettes/figure_dendsort |only 20 files changed, 420 insertions(+), 576 deletions(-)
Title: Access Databases from the Federal Statistical Office of Germany
Description: Retrieve and import data from different databases of the Federal Statistical Office of Germany (DESTATIS) using their SOAP XML web service <https://www-genesis.destatis.de/>.
Author: Moritz Marbach <moritz.marbach@tamu.edu> [aut, cre]
Maintainer: Moritz Marbach <moritz.marbach@tamu.edu>
Diff between wiesbaden versions 1.2.3 dated 2020-06-18 and 1.2.4 dated 2021-04-20
wiesbaden-1.2.3/wiesbaden/inst/doc/using-wiesbaden.R |only wiesbaden-1.2.3/wiesbaden/inst/doc/using-wiesbaden.Rmd |only wiesbaden-1.2.3/wiesbaden/inst/doc/using-wiesbaden.html |only wiesbaden-1.2.3/wiesbaden/vignettes/using-wiesbaden.Rmd |only wiesbaden-1.2.4/wiesbaden/DESCRIPTION | 15 ++++---- wiesbaden-1.2.4/wiesbaden/MD5 | 28 ++++++++-------- wiesbaden-1.2.4/wiesbaden/NEWS.md | 6 +++ wiesbaden-1.2.4/wiesbaden/R/download_csv.R | 4 +- wiesbaden-1.2.4/wiesbaden/R/read_gv100.R | 2 - wiesbaden-1.2.4/wiesbaden/R/retrieve_datalist.R | 4 +- wiesbaden-1.2.4/wiesbaden/R/test_login.R | 2 - wiesbaden-1.2.4/wiesbaden/build/vignette.rds |binary wiesbaden-1.2.4/wiesbaden/inst/doc/wiesbaden.R |only wiesbaden-1.2.4/wiesbaden/inst/doc/wiesbaden.Rmd |only wiesbaden-1.2.4/wiesbaden/inst/doc/wiesbaden.html |only wiesbaden-1.2.4/wiesbaden/man/download_csv.Rd | 4 +- wiesbaden-1.2.4/wiesbaden/man/read_gv100.Rd | 2 - wiesbaden-1.2.4/wiesbaden/man/retrieve_datalist.Rd | 4 +- wiesbaden-1.2.4/wiesbaden/vignettes/wiesbaden.Rmd |only 19 files changed, 38 insertions(+), 33 deletions(-)
Title: Lioness Algorithm (LA)
Description: Contains Lioness Algorithm (LA) for finding optimal designs over continuous design space, optimal Latin hypercube designs, and optimal order-of-addition designs. LA is a brand new nature-inspired meta-heuristic optimization algorithm. Detailed methodologies of LA and its implementation on numerical simulations can be found at Hongzhi Wang, Qian Xiao and Abhyuday Mandal (2021) <arXiv:2010.09154>.
Author: Hongzhi Wang [aut, cre],
Qian Xiao [aut],
Abhyuday Mandal [aut]
Maintainer: Hongzhi Wang <hw34508@uga.edu>
Diff between LA versions 0.1.0 dated 2021-04-15 and 0.1.1 dated 2021-04-20
DESCRIPTION | 10 +- MD5 | 5 - NEWS.md |only inst/doc/Vignette_for_LA.html | 144 +++++++++++++++++++++--------------------- 4 files changed, 80 insertions(+), 79 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-09-03 1.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-10-12 1.0.3
2015-10-03 1.0.2
2015-06-15 1.0.1
2015-04-16 1.0.0
2014-08-29 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-10-25 0.1.0
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of node support;
calculation of ancestor-descendant relationships;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <http://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph]
(<https://orcid.org/0000-0001-5660-1727>),
Emmanuel Paradis [cph] (<https://orcid.org/0000-0003-3092-2199>)
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 1.4.3 dated 2021-04-12 and 1.4.4 dated 2021-04-20
DESCRIPTION | 6 +- MD5 | 28 ++++++------ NAMESPACE | 1 NEWS.md | 6 ++ R/tree_properties.R | 6 ++ R/tree_rearrangement.R | 6 +- build/partial.rdb |binary inst/doc/filesystem-navigation.html | 4 - inst/doc/load-data.html | 4 - inst/doc/load-trees.html | 4 - man/MakeTreeBinary.Rd | 5 +- man/NTip.Rd | 3 + man/as.multiPhylo.Rd | 78 +++++++++++++++++----------------- tests/testthat/test-tree_properties.R | 1 tests/testthat/test-tree_rearrange.R | 11 ---- 15 files changed, 85 insertions(+), 78 deletions(-)
Title: Tools for Statistical Content Analysis
Description: A framework for statistical analysis in content analysis. In addition to a pipeline for preprocessing text corpora and linking to the latent Dirichlet allocation from the 'lda' package, plots are offered for the descriptive analysis of text corpora and topic models. In addition, an implementation of Chang's intruder words and intruder topics is provided. Sample data for the vignette is included in the toscaData package, which is available on gitHub: <https://github.com/Docma-TU/toscaData>.
Author: Lars Koppers [aut, cre] (<https://orcid.org/0000-0002-1642-9616>),
Jonas Rieger [aut] (<https://orcid.org/0000-0002-0007-4478>),
Karin Boczek [ctb] (<https://orcid.org/0000-0003-1516-4094>),
Gerret von Nordheim [ctb] (<https://orcid.org/0000-0001-7553-3838>)
Maintainer: Lars Koppers <koppers@statistik.tu-dortmund.de>
Diff between tosca versions 0.2-0 dated 2020-03-10 and 0.3-1 dated 2021-04-20
tosca-0.2-0/tosca/R/wikinews.R |only tosca-0.2-0/tosca/data |only tosca-0.2-0/tosca/man/wikinews.Rd |only tosca-0.3-1/tosca/DESCRIPTION | 17 tosca-0.3-1/tosca/MD5 | 245 tosca-0.3-1/tosca/NAMESPACE | 153 tosca-0.3-1/tosca/R/LDAgen.R | 214 tosca-0.3-1/tosca/R/LDAprep.R | 134 tosca-0.3-1/tosca/R/as.corpus.textmeta.R | 114 tosca-0.3-1/tosca/R/as.meta.R | 110 tosca-0.3-1/tosca/R/as.textmeta.corpus.R | 248 tosca-0.3-1/tosca/R/cleanTexts.R | 254 tosca-0.3-1/tosca/R/clusterTopics.R | 112 tosca-0.3-1/tosca/R/deleteAndRenameDuplicates.R | 299 tosca-0.3-1/tosca/R/duplist.R | 384 tosca-0.3-1/tosca/R/filterCount.R | 130 tosca-0.3-1/tosca/R/filterDate.R | 146 tosca-0.3-1/tosca/R/filterID.R | 104 tosca-0.3-1/tosca/R/filterWord.R | 256 tosca-0.3-1/tosca/R/intruderTopics.R | 332 tosca-0.3-1/tosca/R/intruderWords.R | 266 tosca-0.3-1/tosca/R/makeWordlist.R | 102 tosca-0.3-1/tosca/R/mergeLDA.R | 96 tosca-0.3-1/tosca/R/mergeTextmeta.R | 160 tosca-0.3-1/tosca/R/plotArea.R | 257 tosca-0.3-1/tosca/R/plotFreq.R | 472 tosca-0.3-1/tosca/R/plotHeat.R | 222 tosca-0.3-1/tosca/R/plotScot.R | 312 tosca-0.3-1/tosca/R/plotTopic.R | 406 tosca-0.3-1/tosca/R/plotTopicWord.R | 594 - tosca-0.3-1/tosca/R/plotWordSub.R | 438 tosca-0.3-1/tosca/R/plotWordpt.R | 608 - tosca-0.3-1/tosca/R/precisionrecall.R | 156 tosca-0.3-1/tosca/R/readTextmeta.R | 314 tosca-0.3-1/tosca/R/readWhatsApp.R | 316 tosca-0.3-1/tosca/R/readWiki.R | 154 tosca-0.3-1/tosca/R/readWikinews.R | 150 tosca-0.3-1/tosca/R/removeXML.R | 4902 +++++----- tosca-0.3-1/tosca/R/sampling.R | 290 tosca-0.3-1/tosca/R/showMeta.R | 100 tosca-0.3-1/tosca/R/showTexts.R | 114 tosca-0.3-1/tosca/R/textmeta.R | 356 tosca-0.3-1/tosca/R/tidy.textmeta.R | 220 tosca-0.3-1/tosca/R/topTexts.R | 124 tosca-0.3-1/tosca/R/topWords.R | 150 tosca-0.3-1/tosca/R/topicCoherence.R | 114 tosca-0.3-1/tosca/R/topicsInText.R | 210 tosca-0.3-1/tosca/build/vignette.rds |binary tosca-0.3-1/tosca/inst/CITATION | 36 tosca-0.3-1/tosca/inst/doc/Vignette.R | 286 tosca-0.3-1/tosca/inst/doc/Vignette.Rmd | 1178 +- tosca-0.3-1/tosca/inst/doc/Vignette.pdf |binary tosca-0.3-1/tosca/man/LDAgen.Rd | 2 tosca-0.3-1/tosca/man/as.corpus.textmeta.Rd | 9 tosca-0.3-1/tosca/man/clusterTopics.Rd | 4 tosca-0.3-1/tosca/man/deleteAndRenameDuplicates.Rd | 30 tosca-0.3-1/tosca/man/intruderTopics.Rd | 2 tosca-0.3-1/tosca/man/intruderWords.Rd | 2 tosca-0.3-1/tosca/man/mergeLDA.Rd | 6 tosca-0.3-1/tosca/man/plotArea.Rd | 2 tosca-0.3-1/tosca/man/plotFreq.Rd | 2 tosca-0.3-1/tosca/man/plotHeat.Rd | 2 tosca-0.3-1/tosca/man/plotScot.Rd | 6 tosca-0.3-1/tosca/man/plotTopic.Rd | 2 tosca-0.3-1/tosca/man/plotTopicWord.Rd | 2 tosca-0.3-1/tosca/man/plotWordSub.Rd | 2 tosca-0.3-1/tosca/man/plotWordpt.Rd | 2 tosca-0.3-1/tosca/man/readTextmeta.Rd | 18 tosca-0.3-1/tosca/man/readWiki.Rd | 2 tosca-0.3-1/tosca/man/topTexts.Rd | 4 tosca-0.3-1/tosca/man/topWords.Rd | 16 tosca-0.3-1/tosca/man/topicCoherence.Rd | 4 tosca-0.3-1/tosca/man/topicsInText.Rd | 2 tosca-0.3-1/tosca/tests/run-all.R | 20 tosca-0.3-1/tosca/tests/testthat/data/WhatsApp/WhatsApp1.html | 334 tosca-0.3-1/tosca/tests/testthat/data/WhatsApp/WhatsApp2.html | 352 tosca-0.3-1/tosca/tests/testthat/data/Wikinews/Wikinews1.xml | 632 - tosca-0.3-1/tosca/tests/testthat/data/Wikinews/Wikinews2.xml | 382 tosca-0.3-1/tosca/tests/testthat/data/plotArea.RData |binary tosca-0.3-1/tosca/tests/testthat/data/readTextmeta.csv | 16 tosca-0.3-1/tosca/tests/testthat/data/test-k3i20b70s24602alpha0.33eta0.33_orig.csv | 24 tosca-0.3-1/tosca/tests/testthat/data/tm.RData |binary tosca-0.3-1/tosca/tests/testthat/data/topicsInText.csv | 292 tosca-0.3-1/tosca/tests/testthat/test_LDAgen.R | 86 tosca-0.3-1/tosca/tests/testthat/test_LDAprep.R | 32 tosca-0.3-1/tosca/tests/testthat/test_as.corpus.textmeta.R | 34 tosca-0.3-1/tosca/tests/testthat/test_as.meta.R | 30 tosca-0.3-1/tosca/tests/testthat/test_as.textmeta.corpus.R | 42 tosca-0.3-1/tosca/tests/testthat/test_cleanTexts.R | 124 tosca-0.3-1/tosca/tests/testthat/test_clusterTopics.R | 30 tosca-0.3-1/tosca/tests/testthat/test_duplist.R | 205 tosca-0.3-1/tosca/tests/testthat/test_filterCount.R | 70 tosca-0.3-1/tosca/tests/testthat/test_filterDate.R | 38 tosca-0.3-1/tosca/tests/testthat/test_filterID.R | 74 tosca-0.3-1/tosca/tests/testthat/test_filterWord.R | 220 tosca-0.3-1/tosca/tests/testthat/test_intruderTopics.R | 110 tosca-0.3-1/tosca/tests/testthat/test_intruderWords.R | 110 tosca-0.3-1/tosca/tests/testthat/test_makeWordlist.R | 72 tosca-0.3-1/tosca/tests/testthat/test_mergeLDA.R | 66 tosca-0.3-1/tosca/tests/testthat/test_mergeTextmeta.R | 42 tosca-0.3-1/tosca/tests/testthat/test_plotArea.R | 59 tosca-0.3-1/tosca/tests/testthat/test_plotFreq.R | 80 tosca-0.3-1/tosca/tests/testthat/test_plotHeat.R | 80 tosca-0.3-1/tosca/tests/testthat/test_plotScot.R | 64 tosca-0.3-1/tosca/tests/testthat/test_plotTopic.R | 84 tosca-0.3-1/tosca/tests/testthat/test_plotTopicWord.R | 98 tosca-0.3-1/tosca/tests/testthat/test_plotWordSub.R | 148 tosca-0.3-1/tosca/tests/testthat/test_plotWordpt.R | 98 tosca-0.3-1/tosca/tests/testthat/test_precisionrecall.R | 70 tosca-0.3-1/tosca/tests/testthat/test_readTextmeta.R | 84 tosca-0.3-1/tosca/tests/testthat/test_readWhatsApp.R | 50 tosca-0.3-1/tosca/tests/testthat/test_readWiki.R | 30 tosca-0.3-1/tosca/tests/testthat/test_readWikinews.R | 58 tosca-0.3-1/tosca/tests/testthat/test_removeXML.R | 148 tosca-0.3-1/tosca/tests/testthat/test_sampling.R | 50 tosca-0.3-1/tosca/tests/testthat/test_showMeta.R | 26 tosca-0.3-1/tosca/tests/testthat/test_showTexts.R | 34 tosca-0.3-1/tosca/tests/testthat/test_textmeta.R | 68 tosca-0.3-1/tosca/tests/testthat/test_tidy.textmeta.R | 86 tosca-0.3-1/tosca/tests/testthat/test_topTexts.R | 60 tosca-0.3-1/tosca/tests/testthat/test_topWords.R | 44 tosca-0.3-1/tosca/tests/testthat/test_topicCoherence.R | 42 tosca-0.3-1/tosca/tests/testthat/test_topicsInText.R | 86 tosca-0.3-1/tosca/vignettes/Vignette.Rmd | 1178 +- 124 files changed, 11331 insertions(+), 11407 deletions(-)
Title: Tidy Structural Equation Modeling
Description: A tidy workflow for generating, estimating, reporting,
and plotting structural equation models using 'lavaan' or 'Mplus'.
Throughout this workflow, elements of syntax, results, and graphs are
represented as 'tidy' data, making them easy to customize.
Author: Caspar J. van Lissa [aut, cre]
(<https://orcid.org/0000-0002-0808-5024>)
Maintainer: Caspar J. van Lissa <c.j.vanlissa@uu.nl>
Diff between tidySEM versions 0.1.8 dated 2021-03-13 and 0.1.9 dated 2021-04-20
DESCRIPTION | 9 ++++----- MD5 | 24 ++++++++++++------------ NAMESPACE | 3 +++ R/plot-generate_layout.R | 10 ++++++++-- R/plot-plot_sem.R | 33 +++++++++++++++++++++++++++------ R/syntax-create_scales.R | 2 -- R/syntax-get_data.R | 16 ++++++++-------- inst/doc/Plotting_graphs.Rmd | 2 +- inst/doc/Plotting_graphs.html | 16 ++++++++-------- inst/doc/sem_graph.html | 4 ++-- man/graph_sem.Rd | 9 +++++++++ man/prepare_graph.Rd | 9 +++++++++ vignettes/Plotting_graphs.Rmd | 2 +- 13 files changed, 92 insertions(+), 47 deletions(-)
Title: Extension to 'spatstat' for Local Composite Likelihood
Description: Extension to the 'spatstat' package, enabling the user
to fit point process models to point pattern data
by local composite likelihood ('geographically weighted
regression').
Author: Adrian Baddeley [aut, cre]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.local versions 4.1-0 dated 2021-03-31 and 4.1-1 dated 2021-04-20
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 13 +++++++++++++ man/locmincon.Rd | 2 +- man/methods.locppm.Rd | 2 +- man/plot.loccit.Rd | 5 +++-- man/plot.locmincon.Rd | 5 +++-- man/plot.locppm.Rd | 5 +++-- 8 files changed, 35 insertions(+), 19 deletions(-)
More information about spatstat.local at CRAN
Permanent link
Title: Interactive Studio for Explanatory Model Analysis
Description: Automate the explanatory analysis of machine learning predictive models.
Generate advanced interactive model explanations in the form of a serverless HTML
site with only one line of code. This tool is model agnostic, therefore compatible
with most of the black box predictive models and frameworks. The main function
computes various (instance and dataset level) model explanations and produces
a customisable dashboard, which consists of multiple panels for plots with their
short descriptions. Easily save the dashboard and share it with others. Tools
for Explanatory Model Analysis unite with tools for Exploratory Data Analysis
to give a broad overview of the model behavior.
Author: Hubert Baniecki [aut, cre] (<https://orcid.org/0000-0001-6661-5364>),
Przemyslaw Biecek [aut] (<https://orcid.org/0000-0001-8423-1823>),
Piotr Piatyszek [ctb]
Maintainer: Hubert Baniecki <hbaniecki@gmail.com>
Diff between modelStudio versions 2.1.1 dated 2021-01-07 and 2.1.2 dated 2021-04-20
DESCRIPTION | 7 MD5 | 14 NEWS.md | 3 R/modelStudio.R | 4 R/prepare.R | 2 build/vignette.rds |binary inst/doc/ms-perks-features.html | 595 +++++--------------- inst/doc/ms-r-python-examples.html | 1095 ++++++++++++++----------------------- 8 files changed, 616 insertions(+), 1104 deletions(-)
Title: Genetic Linkage Maps in Autopolyploids
Description: Construction of genetic maps in autopolyploid full-sib populations.
Uses pairwise recombination fraction estimation as the first
source of information to sequentially position allelic variants
in specific homologues. For situations where pairwise analysis has
limited power, the algorithm relies on the multilocus likelihood
obtained through a hidden Markov model (HMM). For more detail,
please see Mollinari and Garcia (2019) <doi:10.1534/g3.119.400378>
and Mollinari et al. (2020) <doi:10.1534/g3.119.400620>.
Author: Marcelo Mollinari [aut, cre] (<https://orcid.org/0000-0002-7001-8498>),
Gabriel Gesteira [aut] (<https://orcid.org/0000-0002-4106-7346>),
Guilhereme Pereira [ctb] (<https://orcid.org/0000-0002-7106-8630>),
Augusto Garcia [ctb] (<https://orcid.org/0000-0003-0634-3277>),
Zhao-Bang Zeng [ctb] (<https://orcid.org/0000-0002-3115-1149>),
Katharine Preedy [ctb, cph] (MDS ordering algorithm),
Robert Gentleman [cph] (C code for MLE optimization in
src/pairwise_estimation.cpp),
Ross Ihaka [cph] (C code for MLE optimization in
src/pairwise_estimation.cpp),
R Foundation [cph] (C code for MLE optimization in
src/pairwise_estimation.cpp),
R-core [cph] (C code for MLE optimization in
src/pairwise_estimation.cpp)
Maintainer: Marcelo Mollinari <mmollin@ncsu.edu>
Diff between mappoly versions 0.2.1 dated 2020-11-23 and 0.2.3 dated 2021-04-20
DESCRIPTION | 15 - MD5 | 208 +++++++-------- NAMESPACE | 13 NEWS.md | 9 R/RcppExports.R | 5 R/cache_twopts.R | 2 R/calc_genoprob.R | 2 R/calc_genoprob_dist.R | 2 R/calc_genoprob_error.R | 2 R/check_phase_configurations.R | 7 R/eliminate_redundant.R | 2 R/est_map_hmm.R | 90 ++++-- R/export_map_list.R | 2 R/get_submap.R | 2 R/group.R | 2 R/haplotype_map_utils.R | 94 ++++--- R/homolog_probs.R | 9 R/import_from_polymapR.R | 49 --- R/import_from_updog.R | 6 R/loglike_hmm.R | 2 R/make_mat.R | 2 R/make_pairs.R | 2 R/make_seq.R | 27 +- R/marker_info.R | 4 R/mds.R | 8 R/merge_maps.R | 11 R/pairwise_rf.R | 2 R/plot_genome_vs_map.R | 7 R/plot_map_list.R | 2 R/poly_cross_simulate.R | 2 R/preferential_pairing.R | 2 R/read_fitpoly.R | 33 +- R/read_mappoly.R | 4 R/read_mappoly_csv.R | 4 R/read_mappoly_prob.R | 4 R/read_mappoly_vcf.R | 268 ++++++++++++-------- R/reestimate_map.R | 4 R/reestimate_map_with_global_genotypic_error.R | 2 R/reestimate_map_with_prior_genotypic_probability.R | 2 R/rf_list_to_matrix.R | 2 R/rf_snp_filter.R | 4 R/segreg_poly.R | 4 R/sim_homologous.R | 2 R/single_map_hmm.R | 4 R/split_and_rephase.R | 2 R/utils.R | 121 ++++++--- README.md | 30 +- build |only man/cache_counts_twopt.Rd | 2 man/calc_genoprob.Rd | 2 man/calc_genoprob_dist.Rd | 2 man/calc_genoprob_error.Rd | 2 man/calc_genoprob_haplo.Rd | 3 man/calc_homoprob.Rd | 2 man/calc_prefpair_profiles.Rd | 2 man/check_data_sanity.Rd | 2 man/elim_redundant.Rd | 2 man/est_full_hmm_with_global_error.Rd | 2 man/est_full_hmm_with_prior_prob.Rd | 2 man/est_haplo_hmm.Rd | 5 man/est_pairwise_rf.Rd | 2 man/est_rf_hmm.Rd | 4 man/est_rf_hmm_sequential.Rd | 2 man/est_rf_hmm_single.Rd | 4 man/export_data_to_polymapR.Rd | 17 - man/export_map_list.Rd | 2 man/get_genomic_order.Rd | 17 + man/get_submap.Rd | 2 man/group_mappoly.Rd | 2 man/import_data_from_polymapR.Rd | 14 - man/import_from_updog.Rd | 4 man/import_phased_maplist_from_polymapR.Rd | 27 -- man/loglike_hmm.Rd | 2 man/ls_linkage_phases.Rd | 7 man/make_mat_mappoly.Rd | 2 man/make_pairs_mappoly.Rd | 2 man/make_seq_mappoly.Rd | 8 man/mds_mappoly.Rd | 8 man/merge_datasets.Rd | 2 man/plot.mappoly.homoprob.Rd | 2 man/plot_GIC.Rd |only man/plot_genome_vs_map.Rd | 7 man/plot_map_list.Rd | 2 man/plot_mrk_info.Rd | 2 man/poly_cross_simulate.Rd | 2 man/read_fitpoly.Rd | 4 man/read_geno.Rd | 4 man/read_geno_csv.Rd | 4 man/read_geno_prob.Rd | 4 man/read_vcf.Rd | 18 + man/reest_rf.Rd | 4 man/rf_list_to_matrix.Rd | 2 man/rf_snp_filter.Rd | 4 man/segreg_poly.Rd | 4 man/sim_homologous.Rd | 2 man/split_and_rephase.Rd | 2 src/RcppExports.cpp | 17 + src/calc_genoprob_based_on_phased_marker_blocks.cpp | 128 +++++++++ src/calc_genoprob_based_on_phased_marker_blocks.h | 9 src/est_hmm_map_based_on_phased_mrk_blocks.cpp | 245 +++++++++++++++++- src/est_hmm_map_based_on_phased_mrk_blocks.h | 9 src/hmm_elements.cpp | 125 ++++++--- src/hmm_elements.h | 14 + src/read_mappoly_vcf.cpp | 111 ++++++++ tests/testthat.R | 9 tests/testthat/test-utility_func.R | 23 - 106 files changed, 1382 insertions(+), 613 deletions(-)
Title: Identification of Parental Lines via Genomic Prediction
Description: Combining genomic prediction with Monte Carlo simulation, three different
strategies are implemented to select parental lines for multiple traits in plant
breeding. The selection strategies include (i) GEBV-O considers only genomic
estimated breeding values (GEBVs) of the candidate individuals; (ii) GD-O
considers only genomic diversity (GD) of the candidate individuals; and (iii)
GEBV-GD considers both GEBV and GD. The above method can be seen in Chung PY,
Liao CT (2020) <doi:10.1371/journal.pone.0243159>. Multi-trait genomic best
linear unbiased prediction (MT-GBLUP) model is used to simultaneously estimate
GEBVs of the target traits, and then a selection index is adopted to evaluate
the composite performance of an individual.
Author: Ping-Yuan Chung [cre],
Chen-Tuo Liao [aut]
Maintainer: Ping-Yuan Chung <r06621204@ntu.edu.tw>
Diff between IPLGP versions 0.1.0 dated 2021-02-17 and 1.1.0 dated 2021-04-20
DESCRIPTION | 7 +-- MD5 | 28 ++++++------ R/GA.Dscore.R | 2 R/GBLUP.fit.R | 91 +++++++++++++++++++++++++++++------------ R/output.best.R | 115 ++++++++++++++++++++++++++++------------------------- R/output.gain.R | 108 ++++++++++++++++++++++++++----------------------- R/simu.GDO.R | 51 +++++++++++++++++------ R/simu.GEBVGD.R | 91 +++++++++++++++++++++++------------------ R/simu.GEBVO.R | 110 ++++++++++++++++++++++++++++---------------------- man/GBLUP.fit.Rd | 28 ++++++++++-- man/output.best.Rd | 12 +++-- man/output.gain.Rd | 12 +++-- man/simu.GDO.Rd | 36 +++++++++++++--- man/simu.GEBVGD.Rd | 43 +++++++++++++++---- man/simu.GEBVO.Rd | 44 +++++++++++++++----- 15 files changed, 491 insertions(+), 287 deletions(-)
Title: Explore and Visualize Your Data Interactively
Description: A 'shiny' gadget to create 'ggplot2' figures interactively with drag-and-drop to map your variables to different aesthetics.
You can quickly visualize your data accordingly to their type, export in various formats,
and retrieve the code to reproduce the plot.
Author: Fanny Meyer [aut],
Victor Perrier [aut, cre],
Ian Carroll [ctb] (Faceting support),
Xiangnan Dang [ctb] (Facets rows and cols, X/Y limits)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between esquisse versions 1.0.0 dated 2021-04-12 and 1.0.1 dated 2021-04-20
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 2 ++ NEWS.md | 8 ++++++++ R/esquisse-server.R | 14 +++++++------- R/esquisser.R | 3 +-- R/ggcall.R | 7 ++++++- R/module-controls.R | 33 ++++++++++++++++++++++----------- 8 files changed, 58 insertions(+), 33 deletions(-)
Title: Emoji and Font Awesome in Graphics
Description: An implementation of using emoji and fontawesome for using in both
base and 'ggplot2' graphics.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>),
Claus Thorn Ekstrøm [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between emojifont versions 0.5.3 dated 2019-12-12 and 0.5.5 dated 2021-04-20
emojifont-0.5.3/emojifont/README.md |only emojifont-0.5.5/emojifont/DESCRIPTION | 12 - emojifont-0.5.5/emojifont/MD5 | 13 - emojifont-0.5.5/emojifont/NEWS.md | 4 emojifont-0.5.5/emojifont/build/vignette.rds |binary emojifont-0.5.5/emojifont/inst/doc/emojifont.Rmd | 10 - emojifont-0.5.5/emojifont/inst/doc/emojifont.html | 148 +++++++++++----------- emojifont-0.5.5/emojifont/vignettes/emojifont.Rmd | 10 - 8 files changed, 98 insertions(+), 99 deletions(-)
Title: Dive Analysis and Calibration
Description: Utilities to represent, visualize, filter, analyse, and summarize
time-depth recorder (TDR) data. Miscellaneous functions for
handling location data are also provided.
Author: Sebastian P. Luque <spluque@gmail.com>
Maintainer: Sebastian P. Luque <spluque@gmail.com>
Diff between diveMove versions 1.5.3 dated 2021-02-26 and 1.5.4 dated 2021-04-20
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS | 5 +++++ R/speedStats.R | 2 +- inst/doc/diveMove.html | 4 ++-- 5 files changed, 15 insertions(+), 10 deletions(-)
Title: Modules to Import and Manipulate Data in 'Shiny'
Description: 'Shiny' modules to import data into an application or 'addin'
from various sources, and to manipulate them after that.
Author: Victor Perrier [aut, cre, cph],
Fanny Meyer [aut],
Zauad Shahreer Abeer [aut]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between datamods versions 1.1.3 dated 2021-04-13 and 1.1.4 dated 2021-04-20
DESCRIPTION | 6 MD5 | 10 NEWS.md | 7 R/filter-data.R | 1096 +++++++++++++++++++++++++-------------------------- R/import-globalenv.R | 10 R/utils.R | 15 6 files changed, 591 insertions(+), 553 deletions(-)
Title: Analyses of Circadian Data
Description: Uses non-linear regression to statistically compare two circadian rhythms.
Groups are only compared if both are rhythmic (amplitude is non-zero).
Performs analyses regarding mesor, phase, and amplitude, reporting on estimates and statistical differences, for each, between groups.
Details can be found in Parsons et al (2020) <doi:10.1093/bioinformatics/btz730>.
Author: Rex Parsons [aut, cre] (<https://orcid.org/0000-0002-6053-8174>)
Maintainer: Rex Parsons <Rex.Parsons94@gmail.com>
Diff between circacompare versions 0.1.0 dated 2021-02-08 and 0.1.1 dated 2021-04-20
DESCRIPTION | 8 MD5 | 42 +-- NEWS.md |only R/circa_single.R | 124 ++++++--- R/circa_single_mixed.R | 113 ++++++-- R/circacompare.R | 294 ++++++++--------------- R/circacompare_mixed.R | 390 ++++++++++++------------------- R/make_data.R | 45 +-- R/utils.R |only README.md | 27 ++ inst/doc/circacompare-vignette.R | 84 ++++++ inst/doc/circacompare-vignette.Rmd | 210 +++++++++++++++- inst/doc/circacompare-vignette.html | 349 ++++++++++++++++++++------- man/circa_single.Rd | 8 man/circa_single_mixed.Rd | 139 +++++------ man/circacompare.Rd | 5 man/circacompare_mixed.Rd | 140 ++++++----- man/make_data.Rd | 31 ++ tests/testthat/test-circa_single.R | 61 ++++ tests/testthat/test-circa_single_mixed.R | 24 + tests/testthat/test-circacompare.R | 46 +++ tests/testthat/test-circacompare_mixed.R | 26 +- vignettes/circacompare-vignette.Rmd | 210 +++++++++++++++- 23 files changed, 1554 insertions(+), 822 deletions(-)
Title: Testing Generalized Linear Hypotheses for Generalized Linear
Model Parameters by Profile Deviance
Description: Calculation of signed root deviance profiles for linear combinations of parameters in a generalized linear model. Multiple tests and simultaneous confidence intervals are provided.
Author: Daniel Gerhard [aut, cre]
Maintainer: Daniel Gerhard <00gerhard@gmail.com>
Diff between mcprofile versions 1.0-0 dated 2020-06-04 and 1.0-1 dated 2021-04-20
DESCRIPTION | 10 ++++----- MD5 | 6 ++--- build/vignette.rds |binary inst/doc/mcprofile.html | 52 ++++++++++++++++++++++++------------------------ 4 files changed, 34 insertions(+), 34 deletions(-)
Title: Sample Size Calculations for Longitudinal Data
Description: Compute power and sample size for linear models of longitudinal
data. Supported models include mixed-effects models and models fit by
generalized least squares and generalized estimating equations. Relevant
formulas are derived by Liu and Liang (1997) <DOI:10.2307/2533554>,
Diggle et al (2002) <ISBN:9780199676750>, and Lu, Luo, and Chen (2008)
<DOI:10.2202/1557-4679.1098>.
Author: Michael C. Donohue [aut, cre],
Steve D. Edland [ctb]
Maintainer: Michael C. Donohue <mdonohue@usc.edu>
Diff between longpower versions 1.0-21 dated 2020-04-21 and 1.0.23 dated 2021-04-20
DESCRIPTION | 12 - MD5 | 28 +- R/diggle.linear.power.R | 33 +-- R/edland.linear.power.R | 2 R/liu.liang.linear.power.R | 52 ++--- R/longpower-package.R | 8 build/vignette.rds |binary inst/doc/longpower.R | 36 +-- inst/doc/longpower.Rmd | 62 +++--- inst/doc/longpower.html | 406 +++++++++++++----------------------------- man/diggle.linear.power.Rd | 34 +-- man/edland.linear.power.Rd | 2 man/liu.liang.linear.power.Rd | 52 ++--- man/longpower-package.Rd | 8 vignettes/longpower.Rmd | 62 +++--- 15 files changed, 337 insertions(+), 460 deletions(-)
Title: Dimension Reduction Techniques for Conditional Quantiles
Description: An implementation of dimension reduction techniques
for conditional quantiles. Nonparametric estimation of
conditional quantiles is also available.
Author: Eliana Christou [aut, cre] (<https://orcid.org/0000-0001-5044-0969>)
Maintainer: Eliana Christou <echris15@uncc.edu>
Diff between quantdr versions 1.1.0 dated 2020-12-15 and 1.2.0 dated 2021-04-20
DESCRIPTION | 14 - MD5 | 25 +-- NAMESPACE | 1 NEWS.md | 14 + R/ValAR.R |only R/cqs.R | 10 + R/llqr.R | 9 - R/llqrcv.R | 2 inst/doc/quantdr.R | 84 +++++++++- inst/doc/quantdr.Rmd | 125 ++++++++++++++-- inst/doc/quantdr.html | 343 ++++++++++++++++++++++++++++---------------- man/ValAR.Rd |only tests/testthat/test_ValAR.R |only vignettes/quantdr.Rmd | 125 ++++++++++++++-- vignettes/returns1.png |only vignettes/returns2.png |only 16 files changed, 570 insertions(+), 182 deletions(-)
Title: Language Server Protocol
Description: An implementation of the Language Server Protocol
for R. The Language Server protocol is used by an editor client to
integrate features like auto completion. See
<https://microsoft.github.io/language-server-protocol/> for details.
Author: Randy Lai [aut, cre],
Kun Ren [ctb]
Maintainer: Randy Lai <randy.cs.lai@gmail.com>
Diff between languageserver versions 0.3.9 dated 2020-12-18 and 0.3.10 dated 2021-04-20
DESCRIPTION | 14 +- MD5 | 95 ++++++++------ NEWS.md | 48 +++++++ R/call_hierarchy.R |only R/capabilities.R | 10 + R/completion.R | 81 +++++++++--- R/definition.R | 27 +++- R/document.R | 69 +++++++++- R/formatting.R | 52 ++------ R/handlers-langfeatures.R | 60 +++++++++ R/hover.R | 16 ++ R/languageserver.R | 6 R/link.R | 43 +++++- R/namespace.R | 4 R/selection.R |only R/signature.R | 17 ++ R/symbol.R | 28 ++-- R/utils.R | 57 ++++++++ R/workspace.R | 30 ++++ README.md | 21 +-- man/call_hierarchy_incoming_calls.Rd |only man/call_hierarchy_outgoing_calls.Rd |only man/definition_reply.Rd | 2 man/document_link_reply.Rd | 3 man/sanitize_names.Rd | 2 man/selection_range_reply.Rd |only man/style_text.Rd | 2 man/text_document_linked_editing_range.Rd |only man/text_document_prepare_call_hierarchy.Rd |only src/fsm.c | 92 +++++++++++++- src/fsm.h | 5 src/search.c | 6 tests/testthat/helper-utils.R | 49 +++++++ tests/testthat/test-call-hierarchy.R |only tests/testthat/test-codeunits.R | 2 tests/testthat/test-color.R | 2 tests/testthat/test-completion.R | 179 +++++++++++++++++++++++++++- tests/testthat/test-definition.R | 30 ++++ tests/testthat/test-folding.R | 6 tests/testthat/test-formatting.R | 2 tests/testthat/test-highlight.R | 2 tests/testthat/test-hover.R | 7 - tests/testthat/test-langauagecilent.R | 2 tests/testthat/test-link.R | 74 ++++++++--- tests/testthat/test-lintr.R | 2 tests/testthat/test-null-root.R | 2 tests/testthat/test-references.R | 2 tests/testthat/test-rename.R | 2 tests/testthat/test-search.R | 21 ++- tests/testthat/test-selection.R |only tests/testthat/test-signature.R | 2 tests/testthat/test-stdio.R | 2 tests/testthat/test-symbol.R | 67 +++++++--- 53 files changed, 1001 insertions(+), 244 deletions(-)
More information about languageserver at CRAN
Permanent link
Title: A Shiny Application for Automatic Measurements of Tree-Ring
Widths on Digital Images
Description: Use morphological image processing and edge detection algorithms to automatically measure tree ring widths on digital images. Users can also manually mark tree rings on species with complex anatomical structures. The arcs of inner-rings and angles of successive inclined ring boundaries are used to correct ring-width series. The package provides a Shiny-based application, allowing R beginners to easily analyze tree ring images and export ring-width series in standard file formats.
Author: Jingning Shi [aut, cre],
Wei Xiang [aut]
Maintainer: Jingning Shi <snow940220@bjfu.edu.cn>
Diff between MtreeRing versions 1.4.4 dated 2021-03-15 and 1.4.5 dated 2021-04-19
DESCRIPTION | 10 MD5 | 8 NEWS.md | 6 README.md | 2 inst/mtr_app/app.R | 816 ++++++++++++++++++++++++++++++++--------------------- 5 files changed, 517 insertions(+), 325 deletions(-)
Title: Retrieve and Analyze Clinical Trials in Public Registers
Description: Provides functions for querying, retrieving and analyzing
protocol- and results-related information on clinical trials from
two public registers, the 'European Union Clinical Trials Register'
('EUCTR', <https://www.clinicaltrialsregister.eu/>) and
'ClinicalTrials.gov' ('CTGOV', <https://clinicaltrials.gov/>). The
trial information is transformed and stored in a database ('SQLite'
or 'MongoDB', via 'nodbi'). Functions are provided to identify de-
duplicated records, to easily find and extract variables (fields)
of interest even from complex nesting as used by the registers,
and to update previous queries that users retrieved in a database.
The package can be used for meta analysis and trend-analysis of
the design and conduct as well as results of clinical trials.
Author: Ralf Herold [aut, cre] (<https://orcid.org/0000-0002-8148-6748>)
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between ctrdata versions 1.5.2 dated 2021-04-06 and 1.5.3 dated 2021-04-19
DESCRIPTION | 6 +- MD5 | 20 ++++----- NEWS.md | 10 ++++ R/main.R | 79 ++++++++++++++++++++++++++----------- R/utils.R | 50 +++++++++++++++-------- build/vignette.rds |binary inst/doc/ctrdata_analyse.pdf.asis | 2 inst/tinytest/ctrdata_ctgov.R | 2 inst/tinytest/ctrdata_euctr.R | 27 ++++++++++-- man/dbFindFields.Rd | 11 ++--- vignettes/ctrdata_analyse.pdf.asis | 2 11 files changed, 145 insertions(+), 64 deletions(-)
Title: Binary Expansion Testing
Description: Nonparametric detection of nonuniformity and dependence with Binary Expansion Testing (BET). See Kai Zhang (2019) BET on Independence, Journal of the American Statistical Association, 114:528, 1620-1637, <DOI:10.1080/01621459.2018.1537921> and Zhigen Zhao, Michael Baiocchi, Kai Zhang. SorBET: A Fast and Powerful Algorithm to Test Dependence of Variables.
Author: Wan Zhang [aut, cre],
Zhigen Zhao [aut],
Michael Baiocchi [aut],
Kai Zhang [aut]
Maintainer: Wan Zhang <wanz63@live.unc.edu>
Diff between BET versions 0.3.6 dated 2021-04-09 and 0.3.7 dated 2021-04-19
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NAMESPACE | 4 ++-- R/plot.R | 8 ++++---- build/partial.rdb |binary man/BET.Rd | 12 ++++++------ man/BET_package.Rd | 5 +++-- man/BETs.Rd | 12 ++++++------ man/Beast.Rd | 6 +++++- man/star.Rd | 2 +- src/BET3.cpp | 18 +++++++++--------- 11 files changed, 49 insertions(+), 44 deletions(-)
Title: Statistical Methods for Anthropometric Data
Description: Statistical methodologies especially developed to analyze anthropometric data. These methods are aimed at providing effective solutions to some commons problems related to Ergonomics and Anthropometry. They are based on clustering, the statistical concept of data depth, statistical shape analysis and archetypal analysis. Please see Vinue (2017) <doi:10.18637/jss.v077.i06>.
Author: Guillermo Vinue, Irene Epifanio, Amelia Simo, M. Victoria Ibanez, Juan Domingo, Guillermo Ayala
Maintainer: Guillermo Vinue <Guillermo.Vinue@uv.es>
Diff between Anthropometry versions 1.14 dated 2020-04-06 and 1.15 dated 2021-04-19
DESCRIPTION | 10 +++++----- MD5 | 26 +++++++++++++------------- NEWS | 5 +++++ R/Anthropometry-internalTDDclust.R | 2 +- build/vignette.rds |binary inst/doc/Anthropometry.pdf |binary man/Anthropometry-internalArchetypoids.Rd | 2 +- man/Anthropometry-package.Rd | 4 ++-- man/USAFSurvey.Rd | 4 ++-- man/archetypesBoundary.Rd | 2 +- man/archetypoids.Rd | 2 +- man/screeArchetypal.Rd | 2 +- man/stepArchetypesRawData.Rd | 2 +- man/stepArchetypoids.Rd | 2 +- 14 files changed, 34 insertions(+), 29 deletions(-)
Title: Geocoding Made Easy
Description: An intuitive interface for getting data from geocoder services.
Author: Jesse Cambon [aut, cre] (<https://orcid.org/0000-0001-6854-1514>),
Diego Hernangómez [aut] (<https://orcid.org/0000-0001-8457-4658>),
Christopher Belanger [aut],
Daniel Possenriede [aut] (<https://orcid.org/0000-0002-6738-9845>)
Maintainer: Jesse Cambon <jesse.cambon@gmail.com>
Diff between tidygeocoder versions 1.0.2 dated 2021-01-18 and 1.0.3 dated 2021-04-19
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Title: An Integrated Framework for Textual Sentiment Time Series
Aggregation and Prediction
Description: Optimized prediction based on textual sentiment, accounting for the intrinsic challenge that sentiment can be computed and pooled across texts and time in various ways. See Ardia et al. (2020) <doi:10.2139/ssrn.3067734>.
Author: Samuel Borms [aut, cre] (<https://orcid.org/0000-0001-9533-1870>),
David Ardia [aut] (<https://orcid.org/0000-0003-2823-782X>),
Keven Bluteau [aut] (<https://orcid.org/0000-0003-2990-4807>),
Kris Boudt [aut] (<https://orcid.org/0000-0002-1000-5142>),
Jeroen Van Pelt [ctb],
Andres Algaba [ctb]
Maintainer: Samuel Borms <borms_sam@hotmail.com>
Diff between sentometrics versions 0.8.3 dated 2021-02-17 and 0.8.4 dated 2021-04-19
DESCRIPTION | 10 +- MD5 | 36 +++---- NEWS.md | 4 R/sentiment_engines.R | 18 +-- R/sentocorpus.R | 10 +- R/sentomeasures_main.R | 2 R/sentomeasures_measures_xyz.R | 2 R/sentometrics.R | 2 build/partial.rdb |binary man/aggregate.sentiment.Rd | 134 ++++++++++++++-------------- man/compute_sentiment.Rd | 12 +- man/merge.sentiment.Rd | 126 +++++++++++++------------- man/usnews.Rd | 2 src/SentimentScorerBigrams.h | 9 + src/SentimentScorerClusters.h | 12 +- src/SentimentScorerOnegrams.h | 11 +- src/SentimentScorerSentences.h | 12 +- tests/testthat/test_aggregation.R | 2 tests/testthat/test_sentiment_computation.R | 52 +++++----- 19 files changed, 239 insertions(+), 217 deletions(-)
Title: Linked Inference of Genomic Experimental Relationships
Description: Uses an extension of nonnegative matrix factorization to identify shared and dataset-specific factors. See Welch J, Kozareva V, et al (2019) <doi:10.1016/j.cell.2019.05.006>, and Liu J, Gao C, Sodicoff J, et al (2020) <doi:10.1038/s41596-020-0391-8> for more details.
Author: Joshua Welch [aut, ctb],
Chao Gao [aut, ctb, cre],
Jialin Liu [aut, ctb],
Joshua Sodicoff [aut, ctb],
Velina Kozareva [aut, ctb],
Evan Macosko [aut, ctb],
Paul Hoffman [ctb],
Ilya Korsunsky [ctb],
Robert Lee [ctb]
Maintainer: Chao Gao <gchao@umich.edu>
Diff between rliger versions 0.5.0 dated 2021-01-25 and 1.0.0 dated 2021-04-19
DESCRIPTION | 15 +--- MD5 | 32 +++++----- R/rliger.R | 98 ++++++++++++++----------------- README.md | 54 ++++++----------- man/calcARI.Rd | 4 - man/calcPurity.Rd | 4 - man/createLiger.Rd | 3 man/makeRiverplot.Rd | 4 - man/normalize.Rd | 12 +++ man/plotByDatasetAndCluster.Rd | 2 man/plotClusterFactors.Rd | 2 man/plotGene.Rd | 4 - man/plotGeneViolin.Rd | 4 - man/runTSNE.Rd | 2 man/runUMAP.Rd | 2 tests/testthat/test_post_factorization.R | 2 tests/testthat/test_preprocessing.R | 8 +- 17 files changed, 120 insertions(+), 132 deletions(-)
Title: Summary Tables and Plots for Statistical Models and Data:
Beautiful, Customizable, and Publication-Ready
Description: Create beautiful and customizable tables to summarize several
statistical models side-by-side. Draw coefficient plots, multi-level
cross-tabs, dataset summaries, balance tables (a.k.a. "Table 1s"), and
correlation matrices. This package supports dozens of statistical models,
and it can produce tables in HTML, LaTeX, Word, Markdown, PDF, PowerPoint,
Excel, RTF, JPG, or PNG. Tables can easily be embedded in 'Rmarkdown' or
'knitr' dynamic documents.
Author: Vincent Arel-Bundock [aut, cre]
(<https://orcid.org/0000-0003-2042-7063>),
Joachim Gassen [ctb] (<https://orcid.org/0000-0003-4364-2911>),
Nick Huntington-Klein [ctb] (<https://orcid.org/0000-0002-7352-3991>)
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between modelsummary versions 0.6.6 dated 2021-02-16 and 0.7.0 dated 2021-04-19
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Title: Composite-Based Structural Equation Modeling
Description: Estimate, assess, test, and study linear, nonlinear, hierarchical
and multigroup structural equation models using composite-based approaches
and procedures, including estimation techniques such as partial least squares
path modeling (PLS-PM) and its derivatives (PLSc, ordPLSc, robustPLSc),
generalized structured component analysis (GSCA), generalized structured
component analysis with uniqueness terms (GSCAm), generalized canonical
correlation analysis (GCCA), principal component analysis (PCA),
factor score regression (FSR) using sum score, regression or
bartlett scores (including bias correction using Croon’s approach),
as well as several tests and typical postestimation procedures
(e.g., verify admissibility of the estimates, assess the model fit,
test the model fit etc.).
Author: Manuel E. Rademaker [aut, cre]
(<https://orcid.org/0000-0002-8902-3561>),
Florian Schuberth [aut] (<https://orcid.org/0000-0002-2110-9086>),
Tamara Schamberger [ctb] (<https://orcid.org/0000-0002-7845-784X>),
Michael Klesel [ctb] (<https://orcid.org/0000-0002-2884-1819>),
Theo K. Dijkstra [ctb],
Jörg Henseler [ctb] (<https://orcid.org/0000-0002-9736-3048>)
Maintainer: Manuel E. Rademaker <manuel.rademaker@uni-wuerzburg.de>
Diff between cSEM versions 0.3.1 dated 2021-02-14 and 0.4.0 dated 2021-04-19
DESCRIPTION | 10 MD5 | 55 NAMESPACE | 1 R/exportToExcel.R |only R/helper_assess.R | 5 R/postestimate_assess.R | 6 R/postestimate_predict.R | 39 R/postestimate_summarize.R | 5 R/postestimate_test_OMF.R | 17 R/zz_arguments.R | 14 README.md | 344 build/cSEM.pdf |14544 ++++++++++++++++++------------------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/Notation.html | 2 inst/doc/Terminology.html | 2 inst/doc/Using-assess.html | 3 inst/doc/cSEM.Rmd | 4 inst/doc/cSEM.html | 75 man/assess.Rd | 2 man/csem_arguments.Rd | 14 man/exportToExcel.Rd |only man/predict.Rd | 8 man/summarize.Rd | 2 man/testOMF.Rd | 7 tests/testthat/test-assess.R | 2 tests/testthat/test-csem.r | 20 tests/testthat/test-exportToExcel.R |only tests/testthat/test-predict.R | 5 vignettes/cSEM.Rmd | 4 30 files changed, 7833 insertions(+), 7357 deletions(-)
Title: Computation of Satellite Position
Description: Provides basic functionalities to calculate the position of
satellites given a known state vector. The package includes implementations
of the SGP4 and SDP4 simplified perturbation models to propagate orbital
state vectors, as well as utilities to read TLE files and convert coordinates
between different frames of reference.
Felix R. Hoots, Ronald L. Roehrich and T.S. Kelso (1988) <https://celestrak.com/NORAD/documentation/spacetrk.pdf>.
David Vallado, Paul Crawford, Richard Hujsak and T.S. Kelso (2012) <doi:10.2514/6.2006-6753>.
Felix R. Hoots, Paul W. Schumacher Jr. and Robert A. Glover (2014) <doi:10.2514/1.9161>.
Author: Rafael Ayala [aut, cre] (<https://orcid.org/0000-0002-9332-4623>),
Daniel Ayala [aut] (<https://orcid.org/0000-0003-2095-1009>),
Lara Selles Vidal [aut] (<https://orcid.org/0000-0003-2537-6824>)
Maintainer: Rafael Ayala <rafael.ayala@oist.jp>
Diff between asteRisk versions 0.99.1 dated 2021-03-23 and 0.99.4 dated 2021-04-19
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- build/vignette.rds |binary inst/doc/asteRisk.Rmd | 2 +- inst/doc/asteRisk.html | 10 +++++----- vignettes/asteRisk.Rmd | 2 +- 6 files changed, 18 insertions(+), 18 deletions(-)
Title: Data Import, Cleaning, and Conversions for Swimming Results
Description: The goal for of the 'SwimmeR' package is to provide means of acquiring, and then analyzing, data from swimming (and diving) competitions. To that end 'SwimmeR' allows results to be read in from .html sources, like 'Hy-Tek' real time results pages, '.pdf' files, 'ISL' results, and (on a development basis) '.hy3' files. Once read in, 'SwimmeR' can convert swimming times (performances) between the computationally useful format of seconds reported to the '100ths' place (e.g. 95.37), and the conventional reporting format (1:35.37) used in the swimming community. 'SwimmeR' can also score meets in a variety of formats with user defined point values, convert times between courses ('LCM', 'SCM', 'SCY') and draw single elimination brackets, as well as providing a suite of tools for working cleaning swimming data. This is a developmental package, not yet mature.
Author: Greg Pilgrim [aut, cre] (<https://orcid.org/0000-0001-7831-442X>),
Caitlin Baldwin [ctb]
Maintainer: Greg Pilgrim <gpilgrim2670@gmail.com>
Diff between SwimmeR versions 0.8.0 dated 2021-03-20 and 0.9.0 dated 2021-04-19
DESCRIPTION | 6 LICENSE | 4 MD5 | 220 +- NAMESPACE | 169 - NEWS.md | 173 - R/Course_Convert.R | 182 - R/Course_Convert_DF.R | 208 +- R/King200Breast.R | 28 R/Read_Results.R | 126 - R/SwimR.R | 12 R/Swim_Parse.R | 1642 +++++++-------- R/add_row_numbers.R | 38 R/age_format.R | 44 R/age_format_helper.R | 52 R/collect_relay_swimmers.R | 250 +- R/collect_relay_swimmers_2.R | 286 +- R/correct_split_distance.R |only R/correct_split_distance_helper.R |only R/discard_errors.R | 67 R/dive_place.R | 76 R/draw_bracket.R | 632 +++--- R/event_parse.R | 156 - R/event_parse_ISL.R | 126 - R/fill_down.R | 42 R/fill_left.R | 49 R/fold.R | 60 R/format_results.R | 92 R/get_mode.R | 92 R/globals.R | 183 - R/hy3_parse.R | 1018 ++++----- R/hy3_places.R | 154 - R/hy3_times.R | 162 - R/interleave_results.R | 72 R/is_link_broken.R | 46 R/lines_sort.R | 108 - R/list_transform.R | 38 R/mmss_format.R | 52 R/name_reorder.R | 169 - R/not_in.R | 48 R/relay_aggregate.R | 16 R/results_score.R | 752 +++---- R/samms_parse.R | 1780 ++++++++--------- R/sec_format.R | 52 R/sec_format_helper.R | 58 R/splits_parse.R | 548 ++--- R/splits_parse_ISL.R | 376 +-- R/splits_reform.R | 72 R/swim_parse_ISL.R | 806 +++---- R/swim_parse_old.R | 3002 ++++++++++++++--------------- R/swim_place.R | 64 R/tie_rescore.R | 82 R/utils-pipe.R | 22 README.md | 374 +-- build/vignette.rds |binary inst/CITATION | 26 inst/doc/SwimmeR.R | 276 +- inst/doc/SwimmeR.Rmd | 564 ++--- inst/doc/SwimmeR.html | 1130 ++++------ man/King200Breast.Rd | 38 man/Read_Results.Rd | 64 man/Swim_Parse.Rd | 144 - man/SwimmeR.Rd | 26 man/add_row_numbers.Rd | 46 man/collect_relay_swimmers.Rd | 54 man/collect_relay_swimmers_2.Rd | 46 man/correct_split_distance.Rd |only man/correct_split_distance_helper.Rd |only man/course_convert.Rd | 76 man/course_convert_DF.Rd | 92 man/discard_errors.Rd | 61 man/dive_place.Rd | 50 man/draw_bracket.Rd | 124 - man/event_parse.Rd | 46 man/event_parse_ISL.Rd | 46 man/fill_down.Rd | 46 man/fill_left.Rd | 46 man/fold.Rd | 52 man/format_results.Rd | 46 man/get_mode.Rd | 82 man/grapes-notin-grapes.Rd | 60 man/hy3_places.Rd | 56 man/hy3_times.Rd | 50 man/interleave_results.Rd | 54 man/is_link_broken.Rd | 46 man/lines_sort.Rd | 50 man/list_transform.Rd | 46 man/mmss_format.Rd | 60 man/name_reorder.Rd | 19 man/pipe.Rd | 24 man/results_score.Rd | 174 - man/sec_format.Rd | 62 man/sec_format_helper.Rd | 34 man/splits_parse.Rd | 50 man/splits_parse_ISL.Rd | 46 man/splits_reform.Rd | 46 man/swim_parse_ISL.Rd | 78 man/swim_parse_old.Rd | 116 - man/swim_place.Rd | 50 man/tie_rescore.Rd | 54 tests/testthat.R | 8 tests/testthat/test-Course_Convert.R | 6 tests/testthat/test-Course_Convert_DF.R | 22 tests/testthat/test-ISL.R | 144 - tests/testthat/test-Read_Results_works.R | 50 tests/testthat/test-Swim_Parse_Old_works.R | 336 +-- tests/testthat/test-Swim_Parse_works.R | 556 ++--- tests/testthat/test-get_mode.R | 20 tests/testthat/test-hy3_parse_works.R | 20 tests/testthat/test-relay_swimmers_works.R | 100 tests/testthat/test-results_score_works.R | 178 - tests/testthat/test-samms_works.R | 96 tests/testthat/test-splits.R | 270 +- vignettes/SwimmeR.Rmd | 564 ++--- 113 files changed, 10741 insertions(+), 10871 deletions(-)
Title: A Wrapper for the Phonetic Software 'Praat'
Description: It allows running 'Praat' scripts from R and it provides some
wrappers for basic plotting. It also adds support for literate markdown
tangling. The package is designed to bring reproducible phonetic research
into R.
Author: Stefano Coretta [aut, cre]
Maintainer: Stefano Coretta <stefano.coretta@gmail.com>
Diff between speakr versions 3.0.0 dated 2021-01-25 and 3.1.0 dated 2021-04-19
speakr-3.0.0/speakr/R/env.R |only speakr-3.1.0/speakr/DESCRIPTION | 15 +++---- speakr-3.1.0/speakr/MD5 | 40 ++++++++++++------- speakr-3.1.0/speakr/NAMESPACE | 4 - speakr-3.1.0/speakr/NEWS.md |only speakr-3.1.0/speakr/R/paths.R | 47 +++++++++++++---------- speakr-3.1.0/speakr/R/plot.R |only speakr-3.1.0/speakr/R/praat.R | 22 +++++----- speakr-3.1.0/speakr/R/zzz.R | 17 ++++++-- speakr-3.1.0/speakr/build/vignette.rds |binary speakr-3.1.0/speakr/inst/doc/praat-plot.R |only speakr-3.1.0/speakr/inst/doc/praat-plot.Rmd |only speakr-3.1.0/speakr/inst/doc/praat-plot.html |only speakr-3.1.0/speakr/inst/doc/run-praat.html | 13 ++++-- speakr-3.1.0/speakr/inst/extdata/i.wav |only speakr-3.1.0/speakr/inst/extdata/plot.praat |only speakr-3.1.0/speakr/man/figures/vowels.png |only speakr-3.1.0/speakr/man/get_praat_path.Rd | 10 ++-- speakr-3.1.0/speakr/man/praat_open.Rd | 4 - speakr-3.1.0/speakr/man/praat_path.Rd | 6 +- speakr-3.1.0/speakr/man/praat_plot.Rd |only speakr-3.1.0/speakr/man/praat_run.Rd | 6 +- speakr-3.1.0/speakr/man/set_praat_path.Rd | 17 ++------ speakr-3.1.0/speakr/man/speakr-package.Rd | 4 - speakr-3.1.0/speakr/man/start_praat.Rd | 4 - speakr-3.1.0/speakr/man/use_praat_plot_script.Rd |only speakr-3.1.0/speakr/vignettes/praat-plot.Rmd |only 27 files changed, 118 insertions(+), 91 deletions(-)
Title: Simulates Dice Rolls and Coin Flips
Description: Utils for basic statistical experiments, that can be used for teaching
introductory statistics. Each experiment generates a tibble.
Dice rolls and coin flips are simulated using sample().
The properties of the dice can be changed, like the number of sides.
A coin flip is simulated using a two sided dice.
Experiments can be combined with the pipe-operator.
Author: Roland Krasser
Maintainer: Roland Krasser <roland.krasser@gmail.com>
Diff between tidydice versions 0.0.6 dated 2020-01-09 and 0.1.1 dated 2021-04-19
DESCRIPTION | 13 MD5 | 24 - NEWS.md | 4 build/vignette.rds |binary inst/doc/tidydice.R | 86 +++--- inst/doc/tidydice.html | 684 +++++++++++++++++++++++++----------------------- man/flip_coin.Rd | 12 man/force_coin.Rd | 3 man/force_dice.Rd | 3 man/plot_binom.Rd | 13 man/plot_dice.Rd | 12 man/plot_single_dice.Rd | 18 - man/roll_dice.Rd | 12 13 files changed, 483 insertions(+), 401 deletions(-)
Title: Manhattan, Q-Q, and PCA Plots using 'ggplot2'
Description: Generate Manhattan, Q-Q, and PCA plots from GWAS and PCA results using 'ggplot2'.
Author: Lindokuhle Nkambule [aut, cre]
(<https://orcid.org/0000-0002-5682-2834>)
Maintainer: Lindokuhle Nkambule <lindonkambule116@gmail.com>
Diff between gwaRs versions 0.2.0 dated 2021-01-25 and 0.3.0 dated 2021-04-19
DESCRIPTION | 6 MD5 | 17 NAMESPACE | 2 NEWS.md | 4 R/karyotype_plot.R |only README.md | 17 inst/doc/gwaRs.Rmd | 9 inst/doc/gwaRs.html | 740 +++++++++++++++++++++++----------------- man/karyotype_plot.Rd |only vignettes/figures/figure-13.png |only vignettes/gwaRs.Rmd | 9 11 files changed, 485 insertions(+), 319 deletions(-)
Title: Question Generation in the 'MyLearn' XML Format
Description: Randomized multiple-select and single-select
question generation for the 'MyLearn' teaching and learning
platform. Question templates
in the form of the R/exams package (see <http://www.r-exams.org/>)
are transformed into XML format required by 'MyLearn'.
Author: Darjus Hosszejni [aut, cre] (<https://orcid.org/0000-0002-3803-691X>)
Maintainer: Darjus Hosszejni <darjus.hosszejni@wu.ac.at>
Diff between exams.mylearn versions 1.3 dated 2021-02-17 and 1.4 dated 2021-04-19
DESCRIPTION | 7 ++++--- MD5 | 18 +++++++++++------- R/example_paths.R | 5 +++-- R/exams2mylearn.R | 12 ++++++++++++ R/special_characters.R |only data |only inst/doc/workflow.html | 9 ++++++++- inst/extdata/R-code.Rmd | 12 +++++++++++- inst/extdata/everything.Rmd | 11 ++++++++++- inst/extdata/special-characters.Rmd |only man/exams2mylearn.Rd | 3 +++ man/special_characters.Rd |only 12 files changed, 62 insertions(+), 15 deletions(-)
Title: Long Term Water Quality Trend Analysis
Description: Enable users to evaluate long-term trends using a Generalized
Additive Modeling (GAM) approach. The model development includes selecting a
GAM structure to describe nonlinear seasonally-varying changes over time,
incorporation of hydrologic variability via either a river flow or salinity,
the use of an intervention to deal with method or laboratory changes
suspected to impact data values, and representation of left- and
interval-censored data. The approach has been applied to water quality data
in the Chesapeake Bay, a major estuary on the east coast of the United
States to provide insights to a range of management- and research-focused
questions. Methodology described in Murphy (2019)
<doi:10.1016/j.envsoft.2019.03.027>.
Author: Rebecca Murphy, Elgin Perry, Jennifer Keisman, Jon Harcum, Erik W Leppo
Maintainer: Erik W Leppo <Erik.Leppo@tetratech.com>
Diff between baytrends versions 2.0.2 dated 2020-11-24 and 2.0.4 dated 2021-04-19
baytrends-2.0.2/baytrends/inst/doc/test.Rmd |only baytrends-2.0.2/baytrends/inst/doc/test.html |only baytrends-2.0.2/baytrends/vignettes/test.Rmd |only baytrends-2.0.4/baytrends/DESCRIPTION | 16 baytrends-2.0.4/baytrends/MD5 | 57 baytrends-2.0.4/baytrends/NEWS | 1342 +++++----- baytrends-2.0.4/baytrends/NEWS.md | 1342 +++++----- baytrends-2.0.4/baytrends/R/analysisOrganizeData.R | 11 baytrends-2.0.4/baytrends/R/detrended.flow.R | 4 baytrends-2.0.4/baytrends/R/detrended.salinity.R | 6 baytrends-2.0.4/baytrends/R/findFile.R | 4 baytrends-2.0.4/baytrends/R/gamDiff.R | 9 baytrends-2.0.4/baytrends/R/gamPlotDisp.R | 19 baytrends-2.0.4/baytrends/R/gamPlotDispSeason.R | 21 baytrends-2.0.4/baytrends/R/gamTest.r | 24 baytrends-2.0.4/baytrends/R/gamTestSeason.r | 36 baytrends-2.0.4/baytrends/R/imputeCensored.R | 4 baytrends-2.0.4/baytrends/R/layerAggregation.R | 8 baytrends-2.0.4/baytrends/R/loadData.R | 6 baytrends-2.0.4/baytrends/R/makeSurvDF.R | 2 baytrends-2.0.4/baytrends/R/seasAdjflow2.R | 4 baytrends-2.0.4/baytrends/R/selectData.R | 8 baytrends-2.0.4/baytrends/R/smwrBase_baseDay.R | 2 baytrends-2.0.4/baytrends/R/smwrBase_eventProcessing.R | 2 baytrends-2.0.4/baytrends/R/unSurv.R | 2 baytrends-2.0.4/baytrends/R/zzz.R | 4 baytrends-2.0.4/baytrends/README.md | 19 baytrends-2.0.4/baytrends/build/vignette.rds |binary baytrends-2.0.4/baytrends/inst/doc/Detrending_Flow_and_Salinity_Data.html | 393 -- baytrends-2.0.4/baytrends/inst/doc/Processing_Censored_Data.html | 765 +---- baytrends-2.0.4/baytrends/man/analysisOrganizeData.Rd | 4 31 files changed, 1897 insertions(+), 2217 deletions(-)
Title: Paired Lasso Regression
Description: Implements sparse regression with paired covariates (Rauschenberger et al. 2020 <doi:10.1007/s11634-019-00375-6>). For the optional shrinkage, install ashr (<https://github.com/stephens999/ashr>) and CorShrink (<https://github.com/kkdey/CorShrink>) from GitHub (see README).
Author: Armin Rauschenberger [aut, cre]
Maintainer: Armin Rauschenberger <armin.rauschenberger@uni.lu>
Diff between palasso versions 0.0.7 dated 2019-11-19 and 0.0.8 dated 2021-04-19
DESCRIPTION | 13 MD5 | 35 NAMESPACE | 2 R/function.R | 13 R/hidden.R | 4 R/methods.R | 10 build/partial.rdb |only build/vignette.rds |binary inst/doc/article.Rmd | 2 inst/doc/article.html | 39 inst/doc/script.html | 1960 ++++++++++++++++++++++++------------------------- inst/doc/vignette.Rmd | 2 inst/doc/vignette.html | 102 +- man/dot-args.Rd | 44 - man/dot-combine.Rd | 2 man/other.Rd | 2 man/palasso.Rd | 11 vignettes/article.Rmd | 2 vignettes/vignette.Rmd | 2 19 files changed, 1167 insertions(+), 1078 deletions(-)
Title: Easily Install and Load the 'Tidymodels' Packages
Description: The tidy modeling "verse" is a collection of packages for
modeling and statistical analysis that share the underlying design
philosophy, grammar, and data structures of the tidyverse.
Author: Max Kuhn [aut, cre],
Hadley Wickham [aut],
RStudio [cph, fnd]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between tidymodels versions 0.1.2 dated 2020-11-22 and 0.1.3 dated 2021-04-19
DESCRIPTION | 25 - LICENSE | 597 ----------------------------------------------- MD5 | 22 - NAMESPACE | 4 NEWS.md | 10 R/attach.R | 2 R/conflicts.R | 11 R/imports.R | 1 R/tidymodels_prefer.R |only R/update.R | 4 build/vignette.rds |binary inst/doc/Tags.html | 332 ++------------------------ man/tidymodels_prefer.Rd |only 13 files changed, 80 insertions(+), 928 deletions(-)
Title: Omitted Variable Tool
Description: This tool was designed to assess the sensitivity of research findings to omitted variables when estimating causal effects using propensity score (PS) weighting. This tool produces graphics and summary results that will enable a researcher to quantify the impact an omitted variable would have on their results. Burgette et al. (2021) describe the methodology behind the primary function in this package, ov_sim. The method is demonstrated in Griffin et al. (2020) <doi:10.1016/j.jsat.2020.108075>.
Author: Joseph Pane [aut, cre],
Lane Burgette [aut],
Beth Ann Griffin [aut],
Daniel McCaffrey [aut]
Maintainer: Joseph Pane <josephp@rand.org>
Diff between OVtool versions 1.0.0 dated 2021-03-18 and 1.0.1 dated 2021-04-19
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 1 + R/summary.ov.R | 8 ++++---- inst/doc/OVtool.html | 24 ++++++++++++------------ 5 files changed, 26 insertions(+), 25 deletions(-)
Title: Analysis and Visualisation of Benchmark Experiments
Description: Implements methods for post-hoc analysis and
visualisation of benchmark experiments, for 'mlr3' and beyond.
Author: Sonabend Raphael [cre, aut] (<https://orcid.org/0000-0001-9225-4654>),
Florian Pfisterer [aut] (<https://orcid.org/0000-0001-8867-762X>),
Michel Lang [ctb] (<https://orcid.org/0000-0001-9754-0393>),
Bernd Bischl [ctb] (<https://orcid.org/0000-0001-6002-6980>)
Maintainer: Sonabend Raphael <raphaelsonabend@gmail.com>
Diff between mlr3benchmark versions 0.1.1 dated 2020-12-16 and 0.1.2 dated 2021-04-19
DESCRIPTION | 10 ++-- MD5 | 20 ++++----- NEWS.md | 6 ++ R/BenchmarkAggr.R | 20 ++++++--- R/plots_cd.R | 56 +++++++++++++-------------- README.md | 20 ++++----- man/BenchmarkAggr.Rd | 5 +- man/as.BenchmarkAggr.Rd | 5 +- man/mlr3benchmark-package.Rd | 2 tests/testthat/test_BenchmarkAggr.R | 27 ++++++++----- tests/testthat/test_autoplot_BenchmarkAggr.R | 8 +-- 11 files changed, 101 insertions(+), 78 deletions(-)
Title: Generalized Order-Restricted Information Criterion
Description: Generalized Order-Restricted Information Criterion (GORIC) value for a set of hypotheses in multivariate linear models and generalised linear models.
Author: Daniel Gerhard [aut, cre],
Rebecca M. Kuiper [aut]
Maintainer: Daniel Gerhard <00gerhard@gmail.com>
Diff between goric versions 1.1-1 dated 2020-06-04 and 1.1-2 dated 2021-04-19
DESCRIPTION | 10 MD5 | 10 build/vignette.rds |binary inst/doc/goric.Rmd | 4 inst/doc/goric.html | 774 ++++++++++++++++++++++++++++++---------------------- vignettes/goric.Rmd | 4 6 files changed, 470 insertions(+), 332 deletions(-)
Title: Penalized Regression Calibration (PRC)
Description: Computes penalized regression calibration (PRC), a
statistical method that allows to predict survival from
high-dimensional longitudinal predictors. PRC is described in
Signorelli et al. (in review, arXiv preprint: <arXiv:2101.04426>)).
Author: Mirko Signorelli [aut, cre, cph]
(<https://orcid.org/0000-0002-8102-3356>),
Pietro Spitali [ctb],
Roula Tsonaka [ctb]
Maintainer: Mirko Signorelli <msignorelli.rpackages@gmail.com>
Diff between pencal versions 0.3.2 dated 2021-03-25 and 0.4.1 dated 2021-04-19
DESCRIPTION | 6 +++--- MD5 | 34 +++++++++++++++++++--------------- NAMESPACE | 2 ++ R/fit_lmms.R | 18 ++++++++++++------ R/fit_mlpmms.R | 24 ++++++++++++++++++------ R/fit_prclmm.R | 4 ++-- R/fit_prcmlpmm.R | 2 +- R/pencox_baseline.R |only R/performance_pencox_baseline.R |only R/performance_prc.R | 2 +- inst/NEWS.md | 14 ++++++++++++++ inst/doc/pencal-vignette.Rmd | 7 ++++++- inst/doc/pencal-vignette.html | 10 ++++++++-- man/fit_mlpmms.Rd | 8 ++++++-- man/fit_prclmm.Rd | 2 +- man/fit_prcmlpmm.Rd | 2 +- man/pencox_baseline.Rd |only man/performance_pencox_baseline.Rd |only vignettes/PRC_diagram.jpg |binary vignettes/pencal-vignette.Rmd | 7 ++++++- 20 files changed, 100 insertions(+), 42 deletions(-)
Title: Data Sets and Supplemental Functions from 'OpenIntro' Textbooks
and Labs
Description: Supplemental functions and data for 'OpenIntro' resources, which
includes open-source textbooks and resources for introductory statistics
(<https://www.openintro.org/>). The package contains data sets used in our
open-source textbooks along with custom plotting functions for reproducing
book figures. Note that many functions and examples include color
transparency; some plotting elements may not show up properly (or at all)
when run in some versions of Windows operating system.
Author: Mine Çetinkaya-Rundel [aut, cre]
(<https://orcid.org/0000-0001-6452-2420>),
David Diez [aut],
Andrew Bray [aut],
Albert Y. Kim [aut] (<https://orcid.org/0000-0001-7824-306X>),
Ben Baumer [aut],
Chester Ismay [aut],
Nick Paterno [aut],
Christopher Barr [aut]
Maintainer: Mine Çetinkaya-Rundel <cetinkaya.mine@gmail.com>
Diff between openintro versions 2.0.0 dated 2020-07-03 and 2.1.0 dated 2021-04-19
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Title: Mixture Models for Clustering and Classification
Description: An implementation of 14 parsimonious mixture models for model-based clustering or model-based classification. Gaussian, Student's t, generalized hyperbolic, variance-gamma or skew-t mixtures are available. All approaches work with missing data. Celeux and Govaert (1995) <doi:10.1016/0031-3203(94)00125-6>, Browne and McNicholas (2014) <doi:10.1007/s11634-013-0139-1>, Browne and McNicholas (2015) <doi:10.1002/cjs.11246>.
Author: Nik Pocuca [aut],
Ryan P. Browne [aut],
Paul D. McNicholas [aut, cre]
Maintainer: Paul D. McNicholas <mcnicholas@math.mcmaster.ca>
Diff between mixture versions 2.0.3 dated 2021-03-02 and 2.0.4 dated 2021-04-19
ChangeLog | 3 DESCRIPTION | 8 - MD5 | 38 +++---- R/gh_mixture.R | 17 ++- R/mixture.R | 19 ++- R/st_mixture.R | 19 +++ R/t_mixture.R | 18 +++ R/vg_mixture.R | 16 ++- man/mixture.Rd | 4 src/GH_Model/GH_Mixture_Model.h | 152 ++++++++++++++++++++++++++++++- src/ST_Model/ST_Mixture_Model.h | 158 +++++++++++++++++++++++++++++++- src/T_Model/General_Methods.hpp | 123 +++++++++++++++++++++++++ src/T_Model/Missing_Data_Methods.hpp | 11 +- src/T_Model/T_Mixture_Model.hpp | 23 +++- src/VG_Model/VG_Mixture_Model.h | 157 +++++++++++++++++++++++++++++++- src/ghpcm_arma.hpp | 21 +++- src/gpcm_arma.hpp | 169 +++++++++++++++++++++++++++++++++-- src/stpcm_arma.hpp | 22 +++- src/tpcm_arma.hpp | 29 +++++- src/vgpcm_arma.hpp | 23 +++- 20 files changed, 935 insertions(+), 95 deletions(-)
Title: HTML Output Formats and Templates for 'rmarkdown' Documents
Description: HTML formats and templates for 'rmarkdown' documents, with some extra
features such as automatic table of contents, lightboxed figures, dynamic
crosstab helper.
Author: Julien Barnier [aut, cre]
Maintainer: Julien Barnier <julien.barnier@cnrs.fr>
Diff between rmdformats versions 1.0.1 dated 2021-01-13 and 1.0.2 dated 2021-04-19
DESCRIPTION | 8 +- MD5 | 26 +++---- NEWS | 11 +++ README.md | 4 - inst/templates/downcute/downcute.css | 16 +++- inst/templates/downcute/downcute.js | 14 +++ inst/templates/html_clean/clean.css | 40 ++++++++--- inst/templates/html_clean/clean.js | 11 +++ inst/templates/html_docco/docco.css | 32 +++++++-- inst/templates/material/material.html | 102 ++++++++++++++--------------- inst/templates/readthedown/readthedown.css | 27 ++++++- inst/templates/robobook/robobook.css | 27 ++++++- inst/templates/robobook/robobook.js | 16 ++++ inst/templates/template.html | 2 14 files changed, 237 insertions(+), 99 deletions(-)
Title: Ridge-Type Penalized Estimation of a Potpourri of Models
Description: The name of the package is derived from the French, 'pour' ridge, and provides functionality for ridge-type estimation of a potpourri of models. Currently, this estimation concerns that of various Gaussian graphical models from different study designs. Among others it considers the regular Gaussian graphical model and a mixture of such models. The porridge-package implements the estimation of the former either from i) data with replicated observations by penalized loglikelihood maximization using the regular ridge penalty on the parameters (van Wieringen, Chen, 2019) or ii) from non-replicated data by means of either a ridge estimator with multiple shrinkage targets (as presented in van Wieringen et al. 2020, <doi:10.1016/j.jmva.2020.104621>) or the generalized ridge estimator that allows for both the inclusion of quantitative and qualitative prior information on the precision matrix via element-wise penalization and shrinkage (van Wieringen, 2019, <doi:10.1080/10618600.2019.1604374>). Additionally, the porridge-package facilitates the ridge penalized estimation of a mixture of Gaussian graphical models (Aflakparast et al., 2018, <doi:10.1002/bimj.201700102>).
Author: Wessel N. van Wieringen [aut, cre],
Mehran Aflakparast [ctb] (part of the R-code of the mixture
functionality)
Maintainer: Wessel N. van Wieringen <w.vanwieringen@vumc.nl>
Diff between porridge versions 0.2.0 dated 2021-02-09 and 0.2.1 dated 2021-04-19
DESCRIPTION | 8 MD5 | 10 R/ridgeGLMandCo.R | 605 +++++++++++++++++++++++-------------------- inst/NEWS.Rd | 6 man/optPenaltyGLM.kCVauto.Rd | 6 man/ridgeGGMmixture.Rd | 2 6 files changed, 354 insertions(+), 283 deletions(-)
Title: Web-Based Interactive Omics Visualization
Description: Tool-set of modules for creating web-based applications that use plot based strategies to visualize and analyze multi-omics data.
This package utilizes the 'shiny' and 'plotly' frameworks to provide a user friendly dashboard for interactive plotting.
Author: Hendrik Schultheis [aut, cre],
Jens Preussner [aut],
Looso Mario [aut]
Maintainer: Hendrik Schultheis <hendrik.schultheis@mpi-bn.mpg.de>
Diff between wilson versions 2.4.1 dated 2021-03-08 and 2.4.2 dated 2021-04-19
DESCRIPTION | 7 +++---- MD5 | 12 ++++++------ NEWS.md | 2 ++ R/orTextual.R | 1 - R/scatterPlot.R | 10 +++++----- build/vignette.rds |binary inst/doc/intro.html | 7 +++---- 7 files changed, 19 insertions(+), 20 deletions(-)
Title: Model Temporal Trends
Description: Provides a coherent interface to multiple modelling tools for
fitting trends along with a standardised approach for generating confidence
and prediction intervals.
Author: Dirk Schumacher [aut],
Thibaut Jombart [aut],
Tim Taylor [ctb, cre] (<https://orcid.org/0000-0002-8587-7113>)
Maintainer: Tim Taylor <tim.taylor@hiddenelephants.co.uk>
Diff between trending versions 0.0.2 dated 2020-11-18 and 0.0.3 dated 2021-04-19
DESCRIPTION | 13 +-- MD5 | 34 +++---- NEWS.md | 4 R/add_prediction_interval.R | 119 ++++++++++++++++----------- R/model-interface.R | 16 ++- R/predict.R | 22 +++-- R/zzz.r | 11 +- README.md | 15 --- build/vignette.rds |binary inst/doc/Introduction.R | 5 + inst/doc/Introduction.Rmd | 5 + inst/doc/Introduction.html | 150 +++++++++++++++-------------------- inst/doc/prediction_intervals.R | 8 - inst/doc/prediction_intervals.Rmd | 18 +--- inst/doc/prediction_intervals.html | 141 ++++++++++++-------------------- man/trending_model_fit-prediction.Rd | 23 ++++- vignettes/Introduction.Rmd | 5 + vignettes/prediction_intervals.Rmd | 18 +--- 18 files changed, 312 insertions(+), 295 deletions(-)
Title: Model for Semisupervised Text Analysis Based on Word Embeddings
Description: A word embeddings-based semisupervised model for document scaling Watanabe (2020) <doi:10.1080/19312458.2020.1832976>.
LSS allows users to analyze large and complex corpora on arbitrary dimensions with seed words exploiting efficiency of word embeddings (SVD, Glove).
It can generate word vectors on a users-provided corpus or incorporate a pre-trained word vectors.
Author: Kohei Watanabe [aut, cre, cph]
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between LSX versions 0.9.8 dated 2021-03-22 and 0.9.9 dated 2021-04-19
DESCRIPTION | 8 ++++---- MD5 | 17 +++++++++-------- NAMESPACE | 1 + NEWS.md | 5 +++++ R/textstat.R | 39 ++++++++++++++++++++++++++------------- build/partial.rdb |binary man/textstat_context.Rd | 29 ++++++++++++++++++++++++----- tests/data/prediction_v0.99.RDA |only tests/testthat/test-textmodel.R | 24 ++++++++++++------------ tests/testthat/test-textstat.R | 23 +++++++++++++++++++++-- 10 files changed, 102 insertions(+), 44 deletions(-)
Title: Spider Biodiversity Tools
Description: Allows the user to connect with the World Spider Catalogue (WSC; <https://wsc.nmbe.ch/>) and the World Spider Trait (WST; <https://spidertraits.sci.muni.cz/>) databases. Also performs several basic functions such as checking names validity, retrieving coordinate data from the Global Biodiversity Information Facility (GBIF; <https://www.gbif.org/>), and mapping.
Author: Pedro Cardoso [aut, cre]
Maintainer: Pedro Cardoso <pedro.cardoso@helsinki.fi>
Diff between spidR versions 1.0.0 dated 2021-04-05 and 1.0.1 dated 2021-04-19
DESCRIPTION | 11 ++-- MD5 | 16 +++--- NAMESPACE | 1 R/spidR.R | 134 +++++++++++++++++++++++++++++++++--------------------- man/checknames.Rd | 10 ++-- man/map.Rd | 10 ++-- man/records.Rd | 4 - man/taxonomy.Rd | 16 ++++-- man/traits.Rd | 10 ++-- 9 files changed, 127 insertions(+), 85 deletions(-)
Title: Elastic Net with Dichotomised Outcomes
Description: Implements lasso and ridge regression for dichotomised outcomes (Rauschenberger et al. 2021). Such outcomes are not naturally but artificially binary. They indicate whether an underlying measurement is greater than a threshold.
Author: Armin Rauschenberger [aut, cre]
Maintainer: Armin Rauschenberger <armin.rauschenberger@uni.lu>
Diff between cornet versions 0.0.4 dated 2020-03-18 and 0.0.5 dated 2021-04-19
DESCRIPTION | 14 ++++++------ MD5 | 42 ++++++++++++++++++------------------- R/functions.R | 6 ++--- build/vignette.rds |binary inst/doc/application.R | 16 +++++++------- inst/doc/application.Rmd | 4 +-- inst/doc/application.html | 32 ++++++++++++++++++++-------- inst/doc/article.Rmd | 2 - inst/doc/article.html | 23 +++++++++++++------- inst/doc/simulation.R | 20 +++++++++++------ inst/doc/simulation.Rmd | 14 ++++++++---- inst/doc/simulation.html | 52 +++++++++++++++++++++++++++++++--------------- inst/doc/vignette.R | 34 +++++++++++++++--------------- inst/doc/vignette.Rmd | 2 - inst/doc/vignette.html | 32 ++++++++++++++++++++-------- man/cornet.Rd | 17 ++++++++++++--- man/cv.cornet.Rd | 15 ++++++++++--- man/dot-check.Rd | 13 +++++++++-- vignettes/application.Rmd | 4 +-- vignettes/article.Rmd | 2 - vignettes/simulation.Rmd | 14 ++++++++---- vignettes/vignette.Rmd | 2 - 22 files changed, 231 insertions(+), 129 deletions(-)
Title: Functions for Timing R Scripts, as Well as Implementations of
Stack and List Structures
Description: Provides the timing functions 'tic' and 'toc' that
can be nested. One can record all timings while a complex script is
running, and examine the values later. It is also possible to instrument
the timing calls with custom callbacks. In addition, this package provides
class 'Stack', implemented as a vector, and class 'List', implemented as a
list, both of which support operations 'push', 'pop', 'first', 'last' and
'clear'.
Author: Sergei Izrailev
Maintainer: Sergei Izrailev <sizrailev@collective.com>
Diff between tictoc versions 1.0 dated 2014-06-17 and 1.0.1 dated 2021-04-19
DESCRIPTION | 15 +++++++-------- MD5 | 6 +++--- R/tictoc.R | 18 +++++++++--------- R/zzz.R | 6 +++--- 4 files changed, 22 insertions(+), 23 deletions(-)
Title: Read in 'SAS' Data ('.sas7bdat' Files) into 'Apache Spark'
Description: Read in 'SAS' Data ('.sas7bdat' Files) into 'Apache Spark' from R. 'Apache Spark' is an open source cluster computing framework available at <http://spark.apache.org>. This R package uses the 'spark-sas7bdat' 'Spark' package (<https://spark-packages.org/package/saurfang/spark-sas7bdat>) to import and process 'SAS' data in parallel using 'Spark'. Hereby allowing to execute 'dplyr' statements in parallel on top of 'SAS' data.
Author: Jan Wijffels [aut, cre, cph],
BNOSAC [cph],
Geyer Bisschoff [ctb]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between spark.sas7bdat versions 1.2 dated 2016-12-27 and 1.4 dated 2021-04-19
DESCRIPTION | 16 +- MD5 | 22 ++-- R/read_sas.R | 26 +--- README.md | 4 build/vignette.rds |binary inst/NEWS | 9 + inst/doc/spark_sas7bdat_examples.R | 4 inst/doc/spark_sas7bdat_examples.Rmd | 8 - inst/doc/spark_sas7bdat_examples.html | 184 +++++++++++++++++++++++----------- man/spark.sas7bdat-package.Rd | 1 man/spark_read_sas.Rd | 5 vignettes/spark_sas7bdat_examples.Rmd | 8 - 12 files changed, 174 insertions(+), 113 deletions(-)
More information about spark.sas7bdat at CRAN
Permanent link
Title: An Interface to the 'AutoNavi Maps' API Geocoding Services
Description: Getting and parsing data of location geocode/reverse-geocode and administrative regions from 'AutoNavi Maps'<https://lbs.amap.com/api/webservice/summary> API.
Author: Han Chen [aut, cre],
Wanyanhan Jiang [ctb]
Maintainer: Han Chen <chenhan28@gmail.com>
Diff between amapGeocode versions 0.5.0 dated 2020-11-20 and 0.6.0 dated 2021-04-19
amapGeocode-0.5.0/amapGeocode/build/amapGeocode.pdf |only amapGeocode-0.5.0/amapGeocode/man/parallel_cluster_maker.Rd |only amapGeocode-0.6.0/amapGeocode/DESCRIPTION | 18 amapGeocode-0.6.0/amapGeocode/MD5 | 66 amapGeocode-0.6.0/amapGeocode/NEWS.md | 47 amapGeocode-0.6.0/amapGeocode/R/convertCoord.R | 491 ++--- amapGeocode-0.6.0/amapGeocode/R/getAdmin.R | 691 ++++--- amapGeocode-0.6.0/amapGeocode/R/getCoord.R | 637 +++---- amapGeocode-0.6.0/amapGeocode/R/getLocation.R | 745 ++++---- amapGeocode-0.6.0/amapGeocode/R/helpers.R | 81 amapGeocode-0.6.0/amapGeocode/README.md | 882 ++++------ amapGeocode-0.6.0/amapGeocode/build/vignette.rds |binary amapGeocode-0.6.0/amapGeocode/inst/WORDLIST | 89 - amapGeocode-0.6.0/amapGeocode/inst/doc/Introduction_to_amapGeocode.R | 14 amapGeocode-0.6.0/amapGeocode/inst/doc/Introduction_to_amapGeocode.Rmd | 276 +-- amapGeocode-0.6.0/amapGeocode/inst/doc/Introduction_to_amapGeocode.html | 705 ++----- amapGeocode-0.6.0/amapGeocode/man/convertCoord.Rd | 37 amapGeocode-0.6.0/amapGeocode/man/convertCoord.individual.Rd | 33 amapGeocode-0.6.0/amapGeocode/man/extractAdmin.Rd | 20 amapGeocode-0.6.0/amapGeocode/man/extractConvertCoord.Rd | 11 amapGeocode-0.6.0/amapGeocode/man/extractCoord.Rd | 11 amapGeocode-0.6.0/amapGeocode/man/extractLocation.Rd | 11 amapGeocode-0.6.0/amapGeocode/man/getAdmin.Rd | 57 amapGeocode-0.6.0/amapGeocode/man/getAdmin.individual.Rd | 56 amapGeocode-0.6.0/amapGeocode/man/getCoord.Rd | 49 amapGeocode-0.6.0/amapGeocode/man/getCoord.individual.Rd | 40 amapGeocode-0.6.0/amapGeocode/man/getLocation.Rd | 43 amapGeocode-0.6.0/amapGeocode/man/getLocation.individual.Rd | 38 amapGeocode-0.6.0/amapGeocode/tests/spelling.R | 6 amapGeocode-0.6.0/amapGeocode/tests/testthat.R | 8 amapGeocode-0.6.0/amapGeocode/tests/testthat/test_convertCoord.R | 42 amapGeocode-0.6.0/amapGeocode/tests/testthat/test_getAdmin.R | 62 amapGeocode-0.6.0/amapGeocode/tests/testthat/test_getCoord.R | 82 amapGeocode-0.6.0/amapGeocode/tests/testthat/test_getLocation.R | 83 amapGeocode-0.6.0/amapGeocode/vignettes/Introduction_to_amapGeocode.Rmd | 276 +-- 35 files changed, 2753 insertions(+), 2954 deletions(-)
Title: 'SciViews' - Unit, Integration and System Testing
Description: A complete unit test system and functions to implement its GUI part.
Author: Philippe Grosjean [aut, cre] (<https://orcid.org/0000-0002-2694-9471>)
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between svUnit versions 1.0.3 dated 2020-04-20 and 1.0.6 dated 2021-04-19
DESCRIPTION | 11 MD5 | 18 NEWS.md | 16 R/svUnit-package.R | 2 build/vignette.rds |binary inst/CITATION | 4 inst/doc/svUnit.Rmd | 12 inst/doc/svUnit.html | 1412 +++++++++++++++++++++++++------------------------- man/svUnit-package.Rd | 2 vignettes/svUnit.Rmd | 12 10 files changed, 751 insertions(+), 738 deletions(-)
Title: Q-Q and Manhattan Plots for GWAS Data
Description: Create Q-Q and manhattan plots for GWAS data from PLINK results.
Author: Stephen Turner <vustephen@gmail.com>
Maintainer: Stephen Turner <vustephen@gmail.com>
Diff between qqman versions 0.1.4 dated 2017-03-15 and 0.1.8 dated 2021-04-19
DESCRIPTION | 12 +++++---- MD5 | 25 +++++++++--------- NAMESPACE | 1 NEWS.md | 17 ++++++++++++ R/manhattan.R | 69 ++++++++++++++++++++++++++++++++++------------------ R/package.R | 8 +++--- R/zzz.R | 2 - README.md | 14 +++++++--- build/vignette.rds |binary inst/CITATION |only inst/doc/qqman.R | 28 ++++++++++----------- inst/doc/qqman.html | 67 ++++++++++++++++++++++++-------------------------- man/manhattan.Rd | 25 +++++++++++++----- man/qqman.Rd | 3 -- 14 files changed, 165 insertions(+), 106 deletions(-)
Title: Creates Co-Occurrence Matrices of Spatial Data
Description: Builds co-occurrence matrices based on spatial raster data.
It includes creation of weighted co-occurrence matrices (wecoma) and
integrated co-occurrence matrices
(incoma; Vadivel et al. (2007) <doi:10.1016/j.patrec.2007.01.004>).
Author: Jakub Nowosad [aut, cre] (<https://orcid.org/0000-0002-1057-3721>),
Maximillian H.K. Hesselbarth [ctb] (Co-author of underlying C++ code
for get_class_index_map(), get_unique_values(), and rcpp_get_coma()
functions),
Marco Sciaini [ctb] (Co-author of underlying C++ code for
get_class_index_map(), get_unique_values(), and rcpp_get_coma()
functions),
Sebastian Hanss [ctb] (Co-author of underlying C++ code for
get_class_index_map(), get_unique_values(), and rcpp_get_coma()
functions)
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between comat versions 0.9.0 dated 2020-10-10 and 0.9.1 dated 2021-04-19
DESCRIPTION | 6 - MD5 | 16 +- build/vignette.rds |binary inst/CITATION | 18 +-- inst/doc/coma.html | 280 +++++++---------------------------------------- inst/doc/incoma.Rmd | 3 inst/doc/incoma.html | 303 +++++++++------------------------------------------ inst/doc/wecoma.html | 294 ++++++++----------------------------------------- vignettes/incoma.Rmd | 3 9 files changed, 180 insertions(+), 743 deletions(-)
Title: Business Days Calculations and Utilities
Description: Business days calculations based on a list of holidays and
nonworking weekdays. Quite useful for fixed income and derivatives pricing.
Author: Wilson Freitas <wilson.freitas@gmail.com>
Maintainer: Wilson Freitas <wilson.freitas@gmail.com>
Diff between bizdays versions 1.0.6 dated 2018-06-25 and 1.0.8 dated 2021-04-19
bizdays-1.0.6/bizdays/man/ref.Rd |only bizdays-1.0.8/bizdays/DESCRIPTION | 11 bizdays-1.0.8/bizdays/LICENSE | 4 bizdays-1.0.8/bizdays/MD5 | 55 bizdays-1.0.8/bizdays/NAMESPACE | 8 bizdays-1.0.8/bizdays/NEWS | 4 bizdays-1.0.8/bizdays/R/bizdays.R | 306 ++- bizdays-1.0.8/bizdays/R/calendar.R | 768 +++++----- bizdays-1.0.8/bizdays/R/create-calendars.R | 5 bizdays-1.0.8/bizdays/R/getdate.R | 31 bizdays-1.0.8/bizdays/README.md | 68 bizdays-1.0.8/bizdays/build/vignette.rds |binary bizdays-1.0.8/bizdays/inst/doc/Creating_Calendars.R | 76 bizdays-1.0.8/bizdays/inst/doc/Creating_Calendars.Rmd | 186 +- bizdays-1.0.8/bizdays/inst/doc/Creating_Calendars.html | 368 ++-- bizdays-1.0.8/bizdays/inst/doc/Financial_and_non_financial.R | 100 - bizdays-1.0.8/bizdays/inst/doc/Financial_and_non_financial.html | 456 +++-- bizdays-1.0.8/bizdays/inst/doc/Setting_default_calendar_in_Rprofile.R | 20 bizdays-1.0.8/bizdays/inst/doc/Setting_default_calendar_in_Rprofile.html | 299 ++- bizdays-1.0.8/bizdays/man/bizdays.options.Rd | 4 bizdays-1.0.8/bizdays/man/calendar-register.Rd | 14 bizdays-1.0.8/bizdays/man/create.calendar.Rd | 16 bizdays-1.0.8/bizdays/man/getdate.Rd | 18 bizdays-1.0.8/bizdays/man/holidaysANBIMA.Rd | 4 bizdays-1.0.8/bizdays/man/other-calendars.Rd | 3 bizdays-1.0.8/bizdays/tests/testthat/test-bizdays.R | 158 +- bizdays-1.0.8/bizdays/tests/testthat/test-parsedate.R | 44 bizdays-1.0.8/bizdays/tests/testthat/test-register.R | 8 bizdays-1.0.8/bizdays/vignettes/Creating_Calendars.Rmd | 186 +- 29 files changed, 1723 insertions(+), 1497 deletions(-)
Title: An R Port of the 'ImageJ' Plugin 'Auto Threshold'
Description: Algorithms for automatically finding appropriate
thresholds for numerical data, with special functions for thresholding
images. Provides the 'ImageJ' 'Auto Threshold' plugin functionality to
R users. See <https://imagej.net/Auto_Threshold> and Landini et al.
(2017) <DOI:10.1111/jmi.12474>.
Author: Rory Nolan [aut, cre, trl] (<https://orcid.org/0000-0002-5239-4043>),
Luis Alvarez [ctb] (<https://orcid.org/0000-0003-1316-1906>),
Sergi Padilla-Parra [ctb, ths]
(<https://orcid.org/0000-0002-8010-9481>),
Gabriel Landini [ctb, cph] (<https://orcid.org/0000-0002-9689-0989>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between autothresholdr versions 1.3.9 dated 2020-10-18 and 1.3.10 dated 2021-04-19
DESCRIPTION | 9 +-- MD5 | 10 +-- NEWS.md | 6 ++ inst/doc/finding-thresholds.html | 77 ++++----------------------- inst/doc/thresholding-image-stacks.html | 89 ++++++-------------------------- inst/doc/thresholding-images.html | 83 +++++------------------------ 6 files changed, 60 insertions(+), 214 deletions(-)
More information about autothresholdr at CRAN
Permanent link
Title: Chart Generation for 'Microsoft Word' and 'Microsoft PowerPoint'
Documents
Description: Create native charts for 'Microsoft PowerPoint' and 'Microsoft Word' documents.
These can then be edited and annotated. Functions are provided to let users create charts, modify
and format their content. The chart's underlying data is automatically saved within the
'Word' document or 'PowerPoint' presentation. It extends package 'officer' that does
not contain any feature for 'Microsoft' native charts production.
Author: David Gohel [aut, cre],
ArData [cph],
YouGov [fnd],
Rokas Klydzia [ctb] (custom labels),
David Camposeco [ctb] (chart_data_smooth function),
Dan Joplin [ctb] (fix scatter plot data structure)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between mschart versions 0.2.6 dated 2021-04-07 and 0.3.0 dated 2021-04-19
mschart-0.2.6/mschart/R/defunct.R |only mschart-0.2.6/mschart/inst/make |only mschart-0.2.6/mschart/man/mschart-defunct.Rd |only mschart-0.3.0/mschart/DESCRIPTION | 18 + mschart-0.3.0/mschart/MD5 | 97 +++++---- mschart-0.3.0/mschart/NAMESPACE | 7 mschart-0.3.0/mschart/NEWS.md | 14 + mschart-0.3.0/mschart/R/as_series.R |only mschart-0.3.0/mschart/R/axis_setting.R | 150 +++++++++----- mschart-0.3.0/mschart/R/body_add_chart.R | 9 mschart-0.3.0/mschart/R/chart_data_labels.R | 19 + mschart-0.3.0/mschart/R/chart_data_styles.R | 38 +-- mschart-0.3.0/mschart/R/chart_labels.R | 2 mschart-0.3.0/mschart/R/chart_settings.R | 36 +++ mschart-0.3.0/mschart/R/datasets.R | 14 + mschart-0.3.0/mschart/R/excel_series.R |only mschart-0.3.0/mschart/R/ms_chart.R | 118 +++++++++-- mschart-0.3.0/mschart/R/package.R |only mschart-0.3.0/mschart/R/ph_with_chart.R | 11 - mschart-0.3.0/mschart/R/series.R | 78 +++---- mschart-0.3.0/mschart/R/theme.R | 224 +++++++++++---------- mschart-0.3.0/mschart/R/to_pml.R | 108 ++++++---- mschart-0.3.0/mschart/R/utils.R | 18 - mschart-0.3.0/mschart/README.md | 44 +--- mschart-0.3.0/mschart/data/us_indus_prod.rda |only mschart-0.3.0/mschart/inst/tinytest |only mschart-0.3.0/mschart/man/chart_ax_x.Rd | 105 +++------ mschart-0.3.0/mschart/man/chart_ax_y.Rd |only mschart-0.3.0/mschart/man/chart_data_fill.Rd | 10 mschart-0.3.0/mschart/man/chart_data_labels.Rd | 2 mschart-0.3.0/mschart/man/chart_data_line_style.Rd | 10 mschart-0.3.0/mschart/man/chart_data_line_width.Rd | 10 mschart-0.3.0/mschart/man/chart_data_size.Rd | 10 mschart-0.3.0/mschart/man/chart_data_smooth.Rd | 13 + mschart-0.3.0/mschart/man/chart_data_stroke.Rd | 10 mschart-0.3.0/mschart/man/chart_data_symbol.Rd | 10 mschart-0.3.0/mschart/man/chart_labels_text.Rd | 15 + mschart-0.3.0/mschart/man/chart_settings.Rd | 41 +++ mschart-0.3.0/mschart/man/figures |only mschart-0.3.0/mschart/man/ms_areachart.Rd | 34 +-- mschart-0.3.0/mschart/man/ms_barchart.Rd | 196 +++++++++++++++--- mschart-0.3.0/mschart/man/ms_linechart.Rd | 94 ++++++-- mschart-0.3.0/mschart/man/ms_scatterchart.Rd | 27 ++ mschart-0.3.0/mschart/man/mschart.Rd |only mschart-0.3.0/mschart/man/ph_with.ms_chart.Rd | 2 mschart-0.3.0/mschart/man/set_theme.Rd | 43 ++-- mschart-0.3.0/mschart/man/us_indus_prod.Rd |only mschart-0.3.0/mschart/tests |only 48 files changed, 1091 insertions(+), 546 deletions(-)
Title: Embedding 'FusionCharts Javascript' Library in R
Description: FusionCharts provides awesome and minimalist functions to make beautiful interactive charts <https://www.fusioncharts.com/>.
Author: Alex Yahiaoui Martinez [aut, cre]
Maintainer: Alex Yahiaoui Martinez <yahiaoui-martinez.alex@outlook.com>
Diff between fusionchartsR versions 0.0.1 dated 2020-09-23 and 0.0.2 dated 2021-04-19
fusionchartsR-0.0.1/fusionchartsR/man/figures |only fusionchartsR-0.0.2/fusionchartsR/DESCRIPTION | 15 fusionchartsR-0.0.2/fusionchartsR/MD5 | 75 +- fusionchartsR-0.0.2/fusionchartsR/NAMESPACE | 6 fusionchartsR-0.0.2/fusionchartsR/R/available_charts.R |only fusionchartsR-0.0.2/fusionchartsR/R/fusionAnchors.R | 12 fusionchartsR-0.0.2/fusionchartsR/R/fusionAxis.R | 10 fusionchartsR-0.0.2/fusionchartsR/R/fusionBackground.R | 8 fusionchartsR-0.0.2/fusionchartsR/R/fusionCanvas.R | 8 fusionchartsR-0.0.2/fusionchartsR/R/fusionCaption.R | 15 fusionchartsR-0.0.2/fusionchartsR/R/fusionCustomAxis.R | 15 fusionchartsR-0.0.2/fusionchartsR/R/fusionCustomLegend.R | 8 fusionchartsR-0.0.2/fusionchartsR/R/fusionDiv.R | 8 fusionchartsR-0.0.2/fusionchartsR/R/fusionLegend.R | 8 fusionchartsR-0.0.2/fusionchartsR/R/fusionLogo.R | 8 fusionchartsR-0.0.2/fusionchartsR/R/fusionPalette.R | 13 fusionchartsR-0.0.2/fusionchartsR/R/fusionPlot.R | 277 ++++++++-- fusionchartsR-0.0.2/fusionchartsR/R/fusionSubcaption.R | 15 fusionchartsR-0.0.2/fusionchartsR/R/fusionTheme.R | 53 - fusionchartsR-0.0.2/fusionchartsR/R/fusionTooltip.R | 8 fusionchartsR-0.0.2/fusionchartsR/R/fusionTrendline.R | 8 fusionchartsR-0.0.2/fusionchartsR/README.md | 89 --- fusionchartsR-0.0.2/fusionchartsR/inst/htmlwidgets/fusionPlot.js | 86 ++- fusionchartsR-0.0.2/fusionchartsR/man/available_charts.Rd |only fusionchartsR-0.0.2/fusionchartsR/man/fusionAnchors.Rd | 12 fusionchartsR-0.0.2/fusionchartsR/man/fusionAxis.Rd | 10 fusionchartsR-0.0.2/fusionchartsR/man/fusionBackground.Rd | 8 fusionchartsR-0.0.2/fusionchartsR/man/fusionCanvas.Rd | 8 fusionchartsR-0.0.2/fusionchartsR/man/fusionCaption.Rd | 15 fusionchartsR-0.0.2/fusionchartsR/man/fusionCustomAxis.Rd | 13 fusionchartsR-0.0.2/fusionchartsR/man/fusionCustomLegend.Rd | 8 fusionchartsR-0.0.2/fusionchartsR/man/fusionDiv.Rd | 8 fusionchartsR-0.0.2/fusionchartsR/man/fusionLegend.Rd | 8 fusionchartsR-0.0.2/fusionchartsR/man/fusionLogo.Rd | 8 fusionchartsR-0.0.2/fusionchartsR/man/fusionPalette.Rd | 13 fusionchartsR-0.0.2/fusionchartsR/man/fusionPlot.Rd | 46 + fusionchartsR-0.0.2/fusionchartsR/man/fusionSubcaption.Rd | 15 fusionchartsR-0.0.2/fusionchartsR/man/fusionTheme.Rd | 9 fusionchartsR-0.0.2/fusionchartsR/man/fusionTooltip.Rd | 8 fusionchartsR-0.0.2/fusionchartsR/man/fusionTrendline.Rd | 8 40 files changed, 565 insertions(+), 377 deletions(-)
Title: The Free Algebra
Description: The free algebra in R; multivariate polynomials with non-commuting indeterminates.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between freealg versions 1.0-0 dated 2019-09-23 and 1.0-2 dated 2021-04-19
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Title: Methods in Structural Reliability
Description: Various reliability analysis methods for rare event inference:1) computing failure probability (probability that the output of a numerical model exceeds a threshold), 2) computing quantile of low or high-order, 3) Wilks formula to compute quantile(s) from a sample or the size of the required i.i.d. sample.
Author: Clement WALTER, Gilles DEFAUX, Bertrand IOOSS, Vincent MOUTOUSSAMY with contributions from Nicolas BOUSQUET, Claire CANNAMELA and Paul LEMAITRE
Maintainer: Bertrand Iooss <biooss@yahoo.fr>
Diff between mistral versions 2.1.0 dated 2016-04-03 and 2.2.1 dated 2021-04-18
mistral-2.1.0/mistral/R/generateWithlrmM.R |only mistral-2.1.0/mistral/tests |only mistral-2.2.1/mistral/DESCRIPTION | 27 mistral-2.2.1/mistral/MD5 | 116 +- mistral-2.2.1/mistral/NAMESPACE | 126 +- mistral-2.2.1/mistral/R/AKMCS.R | 666 ++++++------ mistral-2.2.1/mistral/R/BMP.R |only mistral-2.2.1/mistral/R/BSS.R |only mistral-2.2.1/mistral/R/FORM.R | 476 ++++---- mistral-2.2.1/mistral/R/FORMv0.R |only mistral-2.2.1/mistral/R/IRW.R | 108 +- mistral-2.2.1/mistral/R/MCMCcovariance.R | 94 - mistral-2.2.1/mistral/R/MP.R | 180 +-- mistral-2.2.1/mistral/R/MetaIS.R | 1178 +++++++++++----------- mistral-2.2.1/mistral/R/MetropolisHastings.R | 195 ++- mistral-2.2.1/mistral/R/MonteCarlo.R | 282 ++--- mistral-2.2.1/mistral/R/RcppExports.R |only mistral-2.2.1/mistral/R/S2MART.R | 372 +++--- mistral-2.2.1/mistral/R/SMART.R | 992 ++++++++++-------- mistral-2.2.1/mistral/R/SubsetSimulation.R | 84 - mistral-2.2.1/mistral/R/UtoX.R | 291 +++-- mistral-2.2.1/mistral/R/alpha2.R |only mistral-2.2.1/mistral/R/clusterize.R | 57 - mistral-2.2.1/mistral/R/computeQuickKrigcov.R |only mistral-2.2.1/mistral/R/estimateSUR.R |only mistral-2.2.1/mistral/R/estimateSURfast.R |only mistral-2.2.1/mistral/R/fSUR.R |only mistral-2.2.1/mistral/R/generateK.R |only mistral-2.2.1/mistral/R/generateWithlrmM_old.R |only mistral-2.2.1/mistral/R/getLHS.R |only mistral-2.2.1/mistral/R/getPPPfast.R |only mistral-2.2.1/mistral/R/getQuantile.R | 40 mistral-2.2.1/mistral/R/getU.R |only mistral-2.2.1/mistral/R/getXi.R |only mistral-2.2.1/mistral/R/ok.R |only mistral-2.2.1/mistral/R/plotXi.R |only mistral-2.2.1/mistral/R/precomputeUpdateData.R |only mistral-2.2.1/mistral/R/predict_nobias_km.R |only mistral-2.2.1/mistral/R/quantileWilks.R | 128 +- mistral-2.2.1/mistral/R/trainModel.R | 21 mistral-2.2.1/mistral/R/updateSd.R |only mistral-2.2.1/mistral/R/updateSd_old.R |only mistral-2.2.1/mistral/build |only mistral-2.2.1/mistral/data/cantilever.rda |only mistral-2.2.1/mistral/data/oscillator_d6.rda |only mistral-2.2.1/mistral/data/oscillator_d8.rda |only mistral-2.2.1/mistral/data/waarts.rda |binary mistral-2.2.1/mistral/inst/doc |only mistral-2.2.1/mistral/inst/testcases |only mistral-2.2.1/mistral/man/AKMCS.Rd | 66 - mistral-2.2.1/mistral/man/BMP.Rd |only mistral-2.2.1/mistral/man/FORM.Rd | 192 +-- mistral-2.2.1/mistral/man/FORMv0.Rd |only mistral-2.2.1/mistral/man/IRW.Rd | 47 mistral-2.2.1/mistral/man/MP.Rd | 41 mistral-2.2.1/mistral/man/MetaIS.Rd | 73 - mistral-2.2.1/mistral/man/MetropolisHastings.Rd |only mistral-2.2.1/mistral/man/Mistral-package.Rd | 158 +- mistral-2.2.1/mistral/man/MonteCarlo.Rd | 36 mistral-2.2.1/mistral/man/S2MART.Rd | 28 mistral-2.2.1/mistral/man/SMART.Rd | 264 ++-- mistral-2.2.1/mistral/man/SubsetSimulation.Rd | 43 mistral-2.2.1/mistral/man/XtoU.Rd |only mistral-2.2.1/mistral/man/cantilever.Rd |only mistral-2.2.1/mistral/man/estimateSUR.Rd |only mistral-2.2.1/mistral/man/generateK.Rd |only mistral-2.2.1/mistral/man/ok.Rd |only mistral-2.2.1/mistral/man/oscillator_d6.Rd |only mistral-2.2.1/mistral/man/precomputeUpdateData.Rd |only mistral-2.2.1/mistral/man/twodof.Rd | 1 mistral-2.2.1/mistral/man/updateSd.Rd |only mistral-2.2.1/mistral/man/updateSd.old.Rd |only mistral-2.2.1/mistral/src |only mistral-2.2.1/mistral/vignettes |only 74 files changed, 3561 insertions(+), 2821 deletions(-)
Title: Aligned Corpus Toolkit
Description: The Aligned Corpus Toolkit (act) is designed for linguists that work with time aligned transcription data. It offers functions to import and export various annotation file formats ('ELAN' .eaf, 'EXMARaLDA .exb and 'Praat' .TextGrid files), create print transcripts in the style of conversation analysis, search transcripts (span searches across multiple annotations, search in normalized annotations, make concordances etc.), export and re-import search results (.csv and 'Excel' .xlsx format), create cuts for the search results (print transcripts, audio/video cuts using 'FFmpeg' and video sub titles in 'Subrib title' .srt format), modify the data in a corpus (search/replace, delete, filter etc.), interact with 'Praat' using 'Praat'-scripts, and exchange data with the 'rPraat' package. The package is itself written in R and may be expanded by other users.
Author: Oliver Ehmer [aut, cre]
Maintainer: Oliver Ehmer <oliver.ehmer@romanistik.uni-freiburg.de>
Diff between act versions 1.0.1 dated 2021-02-22 and 1.0.2 dated 2021-04-18
act-1.0.1/act/R/anotations_all.R |only act-1.0.2/act/DESCRIPTION | 8 act-1.0.2/act/MD5 | 162 ++++++++-------- act-1.0.2/act/R/act_info.R | 38 ++- act-1.0.2/act/R/act_info_summarized.R | 10 act-1.0.2/act/R/annotations_all.R |only act-1.0.2/act/R/annotations_delete.R | 2 act-1.0.2/act/R/annotations_delete_empty.R | 2 act-1.0.2/act/R/annotations_matrix.R | 12 - act-1.0.2/act/R/annotations_replace_copy.R | 14 - act-1.0.2/act/R/class_transcript.R | 2 act-1.0.2/act/R/corpus_import.R | 10 act-1.0.2/act/R/corpus_new.R | 4 act-1.0.2/act/R/export_eaf.R | 8 act-1.0.2/act/R/export_exb.R | 22 +- act-1.0.2/act/R/export_printtranscript.R | 12 - act-1.0.2/act/R/export_rpraat.R | 6 act-1.0.2/act/R/export_srt.R | 18 - act-1.0.2/act/R/export_textgrid.R | 14 - act-1.0.2/act/R/helper_format_time.R | 8 act-1.0.2/act/R/helper_no_export.R | 10 act-1.0.2/act/R/helper_tiers_merge_tables.R | 10 act-1.0.2/act/R/helper_tiers_new_table.R | 8 act-1.0.2/act/R/helper_tiers_sort_table.R | 28 +- act-1.0.2/act/R/helper_transcriptNames_make.R | 4 act-1.0.2/act/R/import.R | 6 act-1.0.2/act/R/import_eaf.R | 40 +-- act-1.0.2/act/R/import_exb.R | 24 +- act-1.0.2/act/R/import_rpraat.R | 8 act-1.0.2/act/R/import_textgrid.R | 18 - act-1.0.2/act/R/media_assign.R | 8 act-1.0.2/act/R/media_delete.R | 2 act-1.0.2/act/R/search_concordance.R | 2 act-1.0.2/act/R/search_cuts_media.R | 59 ++--- act-1.0.2/act/R/search_cuts_printtranscript.R | 16 - act-1.0.2/act/R/search_cuts_srt.R | 12 - act-1.0.2/act/R/search_import_export.R | 6 act-1.0.2/act/R/search_meta.R | 8 act-1.0.2/act/R/search_new.R | 2 act-1.0.2/act/R/search_openresult_inelan.R | 8 act-1.0.2/act/R/search_openresult_inpraat.R | 2 act-1.0.2/act/R/search_openresult_inquicktime.R | 8 act-1.0.2/act/R/search_playresults_inquicktime.R | 2 act-1.0.2/act/R/search_run.R | 6 act-1.0.2/act/R/search_sub.R | 14 - act-1.0.2/act/R/search_transcript_content.R | 2 act-1.0.2/act/R/search_transcript_fulltext.R | 2 act-1.0.2/act/R/tiers_add.R | 32 +-- act-1.0.2/act/R/tiers_all.R | 8 act-1.0.2/act/R/tiers_convert.R | 18 - act-1.0.2/act/R/tiers_delete.R | 6 act-1.0.2/act/R/transcripts_add.R | 8 act-1.0.2/act/R/transcripts_cure.R | 14 - act-1.0.2/act/R/transcripts_cure_single.R | 6 act-1.0.2/act/R/transcripts_filter.R | 2 act-1.0.2/act/R/transcripts_filter_single.R | 10 act-1.0.2/act/R/transcripts_merge.R | 4 act-1.0.2/act/R/transcripts_rename.R | 2 act-1.0.2/act/R/transcripts_update_fulltexts.R | 10 act-1.0.2/act/R/transcripts_update_normalization.R | 6 act-1.0.2/act/inst/examples/helper_tiers_merge_tables.R | 4 act-1.0.2/act/inst/examples/helper_tiers_new_table.R | 2 act-1.0.2/act/inst/examples/helper_tiers_sort_table.R | 10 act-1.0.2/act/inst/examples/import_eaf.R | 3 act-1.0.2/act/inst/examples/import_rpraat.R | 2 act-1.0.2/act/inst/examples/import_textgrid.R | 2 act-1.0.2/act/inst/examples/search_cuts_media.R | 4 act-1.0.2/act/inst/examples/tiers_delete.R | 2 act-1.0.2/act/inst/examples/transcripts_cure.R | 2 act-1.0.2/act/inst/examples/transcripts_cure_single.R | 6 act-1.0.2/act/inst/examples/transcripts_filter_single.R | 2 act-1.0.2/act/man/annotations_all.Rd | 2 act-1.0.2/act/man/helper_tiers_merge_tables.Rd | 4 act-1.0.2/act/man/helper_tiers_new_table.Rd | 2 act-1.0.2/act/man/helper_tiers_sort_table.Rd | 10 act-1.0.2/act/man/import_eaf.Rd | 3 act-1.0.2/act/man/import_rpraat.Rd | 2 act-1.0.2/act/man/import_textgrid.Rd | 2 act-1.0.2/act/man/search_cuts_media.Rd | 4 act-1.0.2/act/man/tiers_delete.Rd | 2 act-1.0.2/act/man/transcripts_cure.Rd | 2 act-1.0.2/act/man/transcripts_cure_single.Rd | 6 act-1.0.2/act/man/transcripts_filter_single.Rd | 2 83 files changed, 445 insertions(+), 428 deletions(-)
Title: Fitting Second-Order Tensor Data
Description: An implementation of fitting generalized linear models on
second-order tensor type data. The functions within this package mainly focus on
parameter estimation, including parameter coefficients and standard deviation.
Author: Mark Chen [aut, cre],
Sheng-Mao Chang [aut],
Wenbin Lu [aut],
Jung-Ying Tzeng [aut]
Maintainer: Mark Chen <l501l501l@gmail.com>
Diff between TensorTest2D versions 1.0.0 dated 2020-11-05 and 1.0.1 dated 2021-04-18
DESCRIPTION | 9 MD5 | 22 +- NAMESPACE | 7 R/TRtest.omics.R | 451 ++++++++++++++++++++++++++------------------------ R/mnist_mp2c2-data.R |only R/omics-data.R |only R/summary.tsglm.R | 5 R/util.tsglm.R |only data |only man/TRtest.omics.Rd | 9 man/drawpixelmarks.Rd |only man/mnist_mp2c2.Rd |only man/omics.Rd |only man/plot.tsglm.Rd |only man/predict.tsglm.Rd |only man/summary.tsglm.Rd | 5 16 files changed, 277 insertions(+), 231 deletions(-)
Title: Sequential Parameter Optimization Toolbox
Description: A set of tools for model-based optimization and tuning of
algorithms. It includes surrogate models, optimizers, and design of experiment
approaches. The main interface is spot, which uses sequentially updated
surrogate models for the purpose of efficient optimization. The main goal is
to ease the burden of objective function evaluations, when a single evaluation
requires a significant amount of resources.
Author: Thomas Bartz-Beielstein [aut, cre]
(<https://orcid.org/0000-0002-5938-5158>),
Joerg Stork [aut] (0000-0002-7471-3498),
Martin Zaefferer [aut] (<https://orcid.org/0000-0003-2372-2092>),
Margarita Rebolledo [ctb],
Christian Lasarczyk [ctb],
Frederik Rehbach [aut] (<https://orcid.org/0000-0003-0922-8629>)
Maintainer: Thomas Bartz-Beielstein <tbb@bartzundbartz.de>
Diff between SPOT versions 2.3.0 dated 2021-03-10 and 2.4.2 dated 2021-04-18
DESCRIPTION | 10 MD5 | 46 NAMESPACE | 7 NEWS.md | 18 R/buildBO.R |only R/buildKrigingForrester.R | 957 +++++++++++--------- R/initialInputCheck.R | 2 R/reportSensitivityAnalysis.R | 24 build/partial.rdb |binary build/vignette.rds |binary inst/doc/SPOTVignetteNutshell.R | 5 inst/doc/SPOTVignetteNutshell.Rmd | 9 inst/doc/SPOTVignetteNutshell.html | 534 +++++------ man/buildBO.Rd |only man/buildKriging.Rd | 16 man/normalizeMatrix.Rd | 2 man/normalizeMatrix2.Rd | 2 man/predict.kriging.Rd | 2 man/predict.spotBOModel.Rd |only man/predictKrigingReinterpolation.Rd | 4 man/print.spotBOModel.Rd |only man/sequentialBifurcation.Rd | 25 man/thetaNugget.Rd |only man/thetaNuggetGradient.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test.initialInputCheck.xLowerUpper.R | 30 vignettes/SPOTVignetteNutshell.Rmd | 9 27 files changed, 929 insertions(+), 773 deletions(-)
Title: Perform Spatial Error Estimation and Variable Importance in
Parallel
Description: Implements spatial error estimation and
permutation-based variable importance measures for predictive models
using spatial cross-validation and spatial block bootstrap.
Author: Alexander Brenning [aut, cre] (<https://orcid.org/0000-0001-6640-679X>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>),
Tobias Herrmann [aut] (<https://orcid.org/0000-0001-9768-0708>)
Maintainer: Alexander Brenning <alexander.brenning@uni-jena.de>
Diff between sperrorest versions 3.0.1 dated 2020-05-26 and 3.0.2 dated 2021-04-18
DESCRIPTION | 10 MD5 | 28 - NEWS.md | 14 R/sperrorest_resampling.R | 41 +- README.md | 126 +++--- build/vignette.rds |binary inst/doc/custom-pred-and-model-functions.html | 242 +----------- inst/doc/spatial-modeling-use-case.R | 2 inst/doc/spatial-modeling-use-case.Rmd | 2 inst/doc/spatial-modeling-use-case.html | 508 +++++++++----------------- man/partition_disc.Rd | 7 man/partition_tiles.Rd | 1 tests/testthat/test-sperrorest-resampling.R | 7 tests/testthat/test-sperrorest.R | 2 vignettes/spatial-modeling-use-case.Rmd | 2 15 files changed, 337 insertions(+), 655 deletions(-)
Title: Core Functionality of the 'spatstat' Family
Description: Functionality for data analysis and modelling of
spatial data, mainly spatial point patterns,
in the 'spatstat' family of packages.
(Excludes analysis of spatial data on a linear network,
which is covered by the separate package 'spatstat.linnet'.)
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods.
A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above.
Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.
Author: Adrian Baddeley [aut, cre],
Rolf Turner [aut],
Ege Rubak [aut],
Kasper Klitgaard Berthelsen [ctb],
Achmad Choiruddin [ctb],
Jean-Francois Coeurjolly [ctb],
Ottmar Cronie [ctb],
Tilman Davies [ctb],
Julian Gilbey [ctb],
Yongtao Guan [ctb],
Ute Hahn [ctb],
Kassel Hingee [ctb],
Abdollah Jalilian [ctb],
Marie-Colette van Lieshout [ctb],
Greg McSwiggan [ctb],
Tuomas Rajala [ctb],
Suman Rakshit [ctb],
Dominic Schuhmacher [ctb],
Rasmus Plenge Waagepetersen [ctb],
Hangsheng Wang [ctb]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.core versions 2.0-0 dated 2021-03-23 and 2.1-2 dated 2021-04-18
DESCRIPTION | 15 - MD5 | 75 +++--- NAMESPACE | 6 NEWS | 103 +++++++++ R/cdftest.R | 16 - R/clusterfunctions.R | 2 R/densityfun.R | 19 + R/evalcovar.R | 11 R/ic.kppm.R |only R/kppm.R | 169 --------------- R/model.depends.R | 39 +-- R/mppm.R | 24 ++ R/pairs.im.R | 135 ++++++------ R/rLGCP.R | 37 ++- R/random.R | 50 +++- R/simulatekppm.R |only R/slrm.R | 469 ++++++++++++++++++++++-------------------- R/summary.mppm.R | 75 +++++- R/sysdata.rda |binary inst/doc/packagesizes.txt | 1 man/densityfun.Rd | 40 +++ man/ic.kppm.Rd |only man/kppm.Rd | 8 man/markcorr.Rd | 19 - man/methods.dppm.Rd | 2 man/pairs.im.Rd | 14 + man/plot.dppm.Rd | 9 man/plot.profilepl.Rd | 2 man/ppm.Rd | 30 +- man/residuals.dppm.Rd | 10 man/rpoint.Rd | 34 ++- man/simulate.dppm.Rd | 11 man/simulate.kppm.Rd | 50 ++++ man/slrm.Rd | 9 man/spatstat.core-internal.Rd | 7 man/vargamma.estK.Rd | 6 tests/testsAtoC.R | 31 +- tests/testsD.R | 9 tests/testsGtoJ.R | 11 tests/testsL.R | 94 ++++---- 40 files changed, 949 insertions(+), 693 deletions(-)
Title: Soil Database Interface
Description: A collection of functions for reading data from USDA-NCSS soil databases.
Author: Dylan Beaudette [aut],
Jay Skovlin [aut],
Stephen Roecker [aut],
Andrew Brown [aut, cre]
Maintainer: Andrew Brown <andrew.g.brown@usda.gov>
Diff between soilDB versions 2.5.9 dated 2021-01-26 and 2.6.1 dated 2021-04-18
soilDB-2.5.9/soilDB/man/SSURGO_spatial_query.Rd |only soilDB-2.5.9/soilDB/man/fetchSDA_component.Rd |only soilDB-2.5.9/soilDB/man/get_extended_data_from_NASIS.Rd |only soilDB-2.5.9/soilDB/man/simplfyFragmentData.Rd |only soilDB-2.6.1/soilDB/DESCRIPTION | 15 soilDB-2.6.1/soilDB/MD5 | 311 + soilDB-2.6.1/soilDB/NAMESPACE | 23 soilDB-2.6.1/soilDB/NEWS.md | 15 soilDB-2.6.1/soilDB/R/ISSR800.R | 8 soilDB-2.6.1/soilDB/R/OSDquery.R | 142 soilDB-2.6.1/soilDB/R/ROSETTA.R | 39 soilDB-2.6.1/soilDB/R/SDA-spatial.R | 91 soilDB-2.6.1/soilDB/R/SDA_hydric.R |only soilDB-2.6.1/soilDB/R/SDA_interpretations.R |only soilDB-2.6.1/soilDB/R/SDA_muaggatt.R |only soilDB-2.6.1/soilDB/R/SDA_pmgroupname.R |only soilDB-2.6.1/soilDB/R/SDA_properties.R |only soilDB-2.6.1/soilDB/R/SDA_query.R | 138 soilDB-2.6.1/soilDB/R/SSURGO_spatial_query.R | 40 soilDB-2.6.1/soilDB/R/STR.R | 58 soilDB-2.6.1/soilDB/R/WCS-utils.R | 7 soilDB-2.6.1/soilDB/R/createStaticNASIS.R |only soilDB-2.6.1/soilDB/R/dbQueryNASIS.R |only soilDB-2.6.1/soilDB/R/estimateColorMixture.R | 2 soilDB-2.6.1/soilDB/R/fetchEDIT_tools.R |only soilDB-2.6.1/soilDB/R/fetchHenry.R | 53 soilDB-2.6.1/soilDB/R/fetchKSSL.R | 143 soilDB-2.6.1/soilDB/R/fetchNASIS.R | 189 - soilDB-2.6.1/soilDB/R/fetchNASISLabData.R | 130 soilDB-2.6.1/soilDB/R/fetchNASISWebReport.R |only soilDB-2.6.1/soilDB/R/fetchNASIS_components.R | 265 - soilDB-2.6.1/soilDB/R/fetchNASIS_pedons.R | 374 +- soilDB-2.6.1/soilDB/R/fetchNASIS_report.R | 173 - soilDB-2.6.1/soilDB/R/fetchNOAA.R | 2 soilDB-2.6.1/soilDB/R/fetchPedonPC.R | 205 - soilDB-2.6.1/soilDB/R/fetchRaCA.R | 85 soilDB-2.6.1/soilDB/R/fetchSCAN.R | 173 - soilDB-2.6.1/soilDB/R/fetchSDA_spatial.R | 8 soilDB-2.6.1/soilDB/R/fetchVegdata.R | 68 soilDB-2.6.1/soilDB/R/getHzErrorsNASIS.R | 73 soilDB-2.6.1/soilDB/R/getHzErrorsPedonPC.R | 47 soilDB-2.6.1/soilDB/R/get_NASIS_table_key_by_name.R |only soilDB-2.6.1/soilDB/R/get_NASIS_table_name_by_purpose.R |only soilDB-2.6.1/soilDB/R/get_OSD_JSON.R |only soilDB-2.6.1/soilDB/R/get_RMF_from_NASIS_db.R | 27 soilDB-2.6.1/soilDB/R/get_colors_from_NASIS_db.R | 42 soilDB-2.6.1/soilDB/R/get_colors_from_pedon_db.R | 178 - soilDB-2.6.1/soilDB/R/get_component_data_from_NASIS_db.R | 430 +- soilDB-2.6.1/soilDB/R/get_component_from_GDB.R | 60 soilDB-2.6.1/soilDB/R/get_component_from_LIMS.R | 320 - soilDB-2.6.1/soilDB/R/get_component_from_SDA.R | 180 + soilDB-2.6.1/soilDB/R/get_concentrations_from_NASIS_db.R | 25 soilDB-2.6.1/soilDB/R/get_cosoilmoist_from_LIMS.R | 2 soilDB-2.6.1/soilDB/R/get_cosoilmoist_from_NASIS.R | 69 soilDB-2.6.1/soilDB/R/get_extended_data_from_NASIS_db.R | 251 - soilDB-2.6.1/soilDB/R/get_extended_data_from_pedon_db.R | 285 - soilDB-2.6.1/soilDB/R/get_hz_data_from_NASIS_db.R | 50 soilDB-2.6.1/soilDB/R/get_hz_data_from_pedon_db.R | 162 soilDB-2.6.1/soilDB/R/get_lablayer_data_from_NASIS_db.R | 38 soilDB-2.6.1/soilDB/R/get_labpedon_data_from_NASIS_db.R | 40 soilDB-2.6.1/soilDB/R/get_phfmp_from_NASIS_db.R | 23 soilDB-2.6.1/soilDB/R/get_phlabresults_data_from_NASIS_db.R | 32 soilDB-2.6.1/soilDB/R/get_projectmapunit_from_NASIS.R | 23 soilDB-2.6.1/soilDB/R/get_site_data_from_NASIS_db.R | 68 soilDB-2.6.1/soilDB/R/get_site_data_from_pedon_db.R | 159 soilDB-2.6.1/soilDB/R/get_soilseries_from_NASIS.R | 50 soilDB-2.6.1/soilDB/R/get_text_notes_from_NASIS_db.R | 101 soilDB-2.6.1/soilDB/R/get_veg_data_from_NASIS_db.R | 116 soilDB-2.6.1/soilDB/R/get_veg_from_AK_Site.R | 72 soilDB-2.6.1/soilDB/R/get_veg_from_MT_veg_db.R | 74 soilDB-2.6.1/soilDB/R/get_veg_from_NPS_PLOTS_db.R | 61 soilDB-2.6.1/soilDB/R/get_veg_other_from_MT_veg_db.R | 75 soilDB-2.6.1/soilDB/R/get_veg_species_from_MT_veg_db.R | 70 soilDB-2.6.1/soilDB/R/get_vegplot_data_from_NASIS_db.R | 314 - soilDB-2.6.1/soilDB/R/mix_and_clean_colors.R | 39 soilDB-2.6.1/soilDB/R/mukey-WCS.R | 14 soilDB-2.6.1/soilDB/R/openNASISchannel.R | 89 soilDB-2.6.1/soilDB/R/parseWebReport.R | 27 soilDB-2.6.1/soilDB/R/seriesExtent.R | 47 soilDB-2.6.1/soilDB/R/siblings.R | 50 soilDB-2.6.1/soilDB/R/simplfyFragmentData.R | 135 soilDB-2.6.1/soilDB/R/simplifyArtifactData.R | 83 soilDB-2.6.1/soilDB/R/simplifyColorData.R | 81 soilDB-2.6.1/soilDB/R/soilDB-package.R |only soilDB-2.6.1/soilDB/R/taxaExtent.R | 19 soilDB-2.6.1/soilDB/R/uncode.R | 267 - soilDB-2.6.1/soilDB/R/utils.R | 1715 +++++----- soilDB-2.6.1/soilDB/R/waterDayYear.R | 25 soilDB-2.6.1/soilDB/build/partial.rdb |binary soilDB-2.6.1/soilDB/data/NASIS_table_column_keys.rda |only soilDB-2.6.1/soilDB/data/SCAN_SNOTEL_metadata.rda |binary soilDB-2.6.1/soilDB/man/ISSR800.wcs.Rd | 27 soilDB-2.6.1/soilDB/man/KSSL_VG_model.Rd | 14 soilDB-2.6.1/soilDB/man/NASIS_table_column_keys.Rd |only soilDB-2.6.1/soilDB/man/OSDquery.Rd | 44 soilDB-2.6.1/soilDB/man/ROSETTA.Rd | 46 soilDB-2.6.1/soilDB/man/SCAN_SNOTEL_metadata.Rd | 47 soilDB-2.6.1/soilDB/man/SDA_query.Rd | 40 soilDB-2.6.1/soilDB/man/SDA_spatialQuery.Rd | 45 soilDB-2.6.1/soilDB/man/STRplot.Rd | 52 soilDB-2.6.1/soilDB/man/SoilWeb_spatial_query.Rd |only soilDB-2.6.1/soilDB/man/createStaticNASIS.Rd |only soilDB-2.6.1/soilDB/man/dbConnectNASIS.Rd |only soilDB-2.6.1/soilDB/man/dbQueryNASIS.Rd |only soilDB-2.6.1/soilDB/man/dot-dump_NASIS_table.Rd |only soilDB-2.6.1/soilDB/man/dot-get_NASIS_table_key_by_name.Rd |only soilDB-2.6.1/soilDB/man/dot-get_NASIS_table_name_by_purpose.Rd |only soilDB-2.6.1/soilDB/man/estimateSTR.Rd | 69 soilDB-2.6.1/soilDB/man/fetchGDB.Rd | 97 soilDB-2.6.1/soilDB/man/fetchHenry.Rd | 127 soilDB-2.6.1/soilDB/man/fetchKSSL.Rd | 116 soilDB-2.6.1/soilDB/man/fetchNASIS.Rd | 129 soilDB-2.6.1/soilDB/man/fetchNASISLabData.Rd | 41 soilDB-2.6.1/soilDB/man/fetchNASISWebReport.Rd | 190 - soilDB-2.6.1/soilDB/man/fetchOSD.Rd | 56 soilDB-2.6.1/soilDB/man/fetchPedonPC.Rd | 45 soilDB-2.6.1/soilDB/man/fetchRaCA.Rd | 19 soilDB-2.6.1/soilDB/man/fetchSCAN.Rd | 59 soilDB-2.6.1/soilDB/man/fetchSDA.Rd |only soilDB-2.6.1/soilDB/man/fetchSDA_spatial.Rd | 4 soilDB-2.6.1/soilDB/man/fetchVegdata.Rd |only soilDB-2.6.1/soilDB/man/format_SQL_in_statement.Rd | 10 soilDB-2.6.1/soilDB/man/getHzErrorsNASIS.Rd |only soilDB-2.6.1/soilDB/man/get_EDIT_ecoclass_by_geoUnit.Rd |only soilDB-2.6.1/soilDB/man/get_NOAA_GHCND.Rd | 2 soilDB-2.6.1/soilDB/man/get_OSD_JSON.Rd |only soilDB-2.6.1/soilDB/man/get_SDA_hydric.Rd |only soilDB-2.6.1/soilDB/man/get_SDA_interpretation.Rd |only soilDB-2.6.1/soilDB/man/get_SDA_muaggatt.Rd |only soilDB-2.6.1/soilDB/man/get_SDA_pmgroupname.Rd |only soilDB-2.6.1/soilDB/man/get_SDA_property.Rd |only soilDB-2.6.1/soilDB/man/get_colors_from_NASIS_db.Rd | 37 soilDB-2.6.1/soilDB/man/get_colors_from_pedon_db.Rd | 32 soilDB-2.6.1/soilDB/man/get_comonth_from_NASIS_db.Rd | 56 soilDB-2.6.1/soilDB/man/get_component_data_from_NASIS_db.Rd | 50 soilDB-2.6.1/soilDB/man/get_cosoilmoist_from_NASIS.Rd | 63 soilDB-2.6.1/soilDB/man/get_extended_data_from_NASIS_db.Rd |only soilDB-2.6.1/soilDB/man/get_extended_data_from_pedon_db.Rd | 53 soilDB-2.6.1/soilDB/man/get_hz_data_from_NASIS_db.Rd | 42 soilDB-2.6.1/soilDB/man/get_hz_data_from_pedon_db.Rd | 37 soilDB-2.6.1/soilDB/man/get_lablayer_data_from_NASIS_db.Rd | 39 soilDB-2.6.1/soilDB/man/get_labpedon_data_from_NASIS_db.Rd | 43 soilDB-2.6.1/soilDB/man/get_site_data_from_NASIS_db.Rd | 48 soilDB-2.6.1/soilDB/man/get_site_data_from_pedon_db.Rd | 34 soilDB-2.6.1/soilDB/man/get_soilseries_from_NASIS.Rd | 40 soilDB-2.6.1/soilDB/man/get_text_notes_from_NASIS_db.Rd | 39 soilDB-2.6.1/soilDB/man/get_veg_data_from_NASIS_db.Rd | 34 soilDB-2.6.1/soilDB/man/get_veg_from_AK_Site.Rd | 32 soilDB-2.6.1/soilDB/man/get_veg_from_MT_veg_db.Rd | 34 soilDB-2.6.1/soilDB/man/get_veg_from_NPS_PLOTS_db.Rd | 35 soilDB-2.6.1/soilDB/man/get_veg_other_from_MT_veg_db.Rd | 34 soilDB-2.6.1/soilDB/man/get_veg_species_from_MT_veg_db.Rd | 34 soilDB-2.6.1/soilDB/man/loafercreek.Rd | 140 soilDB-2.6.1/soilDB/man/local_NASIS_defined.Rd | 11 soilDB-2.6.1/soilDB/man/makeChunks.Rd | 4 soilDB-2.6.1/soilDB/man/make_EDIT_service_URL.Rd |only soilDB-2.6.1/soilDB/man/mix_and_clean_colors.Rd |only soilDB-2.6.1/soilDB/man/mukey.wcs.Rd | 8 soilDB-2.6.1/soilDB/man/parseWebReport.Rd | 44 soilDB-2.6.1/soilDB/man/processSDA_WKT.Rd | 12 soilDB-2.6.1/soilDB/man/seriesExtent.Rd | 4 soilDB-2.6.1/soilDB/man/siblings.Rd | 75 soilDB-2.6.1/soilDB/man/simplifyColorData.Rd | 73 soilDB-2.6.1/soilDB/man/simplifyFragmentData.Rd |only soilDB-2.6.1/soilDB/man/soilDB-package.Rd | 37 soilDB-2.6.1/soilDB/man/taxaExtent.Rd | 8 soilDB-2.6.1/soilDB/man/uncode.Rd | 93 soilDB-2.6.1/soilDB/man/us_ss_timeline.Rd | 41 soilDB-2.6.1/soilDB/man/waterDayYear.Rd | 47 soilDB-2.6.1/soilDB/tests/testthat/test-DBI.R |only soilDB-2.6.1/soilDB/tests/testthat/test-OSDquery.R | 7 soilDB-2.6.1/soilDB/tests/testthat/test-SDA_hydric.R |only soilDB-2.6.1/soilDB/tests/testthat/test-SDA_interpretations.R |only soilDB-2.6.1/soilDB/tests/testthat/test-SDA_muaggatt.R |only soilDB-2.6.1/soilDB/tests/testthat/test-SDA_pmgroupname.R |only soilDB-2.6.1/soilDB/tests/testthat/test-SDA_properties.R |only soilDB-2.6.1/soilDB/tests/testthat/test-dbQueryNASIS.R |only soilDB-2.6.1/soilDB/tests/testthat/test-fetchEDIT_tools.R |only soilDB-2.6.1/soilDB/tests/testthat/test-fetchKSSL.R | 20 soilDB-2.6.1/soilDB/tests/testthat/test-fetchNASIS.R | 65 soilDB-2.6.1/soilDB/tests/testthat/test-get_OSD_JSON.R |only 181 files changed, 6628 insertions(+), 5021 deletions(-)
Title: Exemplar Data Sets for Student Growth Percentiles (SGP) Analyses
Description: Data sets utilized by the 'SGP' package as exemplars for users to conduct their own student growth percentiles (SGP) analyses.
Author: Damian W. Betebenner [aut, cre],
Adam R. Van Iwaarden [aut],
Ben Domingue [aut]
Maintainer: Damian W. Betebenner <dbetebenner@nciea.org>
Diff between SGPdata versions 23.0-0.0 dated 2020-01-15 and 25.0-0.0 dated 2021-04-18
DESCRIPTION | 11 - MD5 | 26 +- R/zzz.R | 2 build/vignette.rds |binary data/datalist | 1 data/sgpData.rda |binary data/sgpData_LONG.rda |binary data/sgpData_LONG_COVID.rda |only inst/CITATION | 8 inst/NEWS | 11 - inst/doc/SGPdata.html | 304 ++++++------------------------ man/SGPdata-package.Rd | 6 man/sgpData.Rd | 4 man/sgpData_LONG_COVID.Rd |only vignettes/releases/SGPdata-24.0-0.0.Rmd |only vignettes/releases/SGPdata-25.0-0.0.0.Rmd |only 16 files changed, 112 insertions(+), 261 deletions(-)
Title: Base Package for 'Outsider'
Description: Base package for 'outsider' <https://github.com/ropensci/outsider>.
The 'outsider' package and its sister packages enable the installation and
running of external, command-line software within R. This base package is a
key dependency of the user-facing 'outsider' package as it provides the
utilities for interfacing between 'Docker' <https://www.docker.com> and R.
It is intended that end-users of 'outsider' do not directly work with this
base package.
Author: Dom Bennett [aut, cre] (<https://orcid.org/0000-0003-2722-1359>),
Hannes Hettling [ctb] (<https://orcid.org/0000-0003-4144-2238>),
Daniele Silvestro [ctb] (<https://orcid.org/0000-0003-0100-0961>),
Rutger Vos [ctb] (<https://orcid.org/0000-0001-9254-7318>),
Alexandre Antonelli [ctb] (<https://orcid.org/0000-0003-1842-9297>),
Anna Krystalli [rev]
Maintainer: Dom Bennett <dominic.john.bennett@gmail.com>
Diff between outsider.base versions 0.1.3 dated 2020-06-14 and 0.1.4 dated 2021-04-18
DESCRIPTION | 16 +++++++--------- MD5 | 8 ++++---- R/install.R | 2 +- man/log_set.Rd | 2 +- man/outsider-class.Rd | 2 +- 5 files changed, 14 insertions(+), 16 deletions(-)
Title: Basic Functions to Investigate Metabolomics Data Matrices
Description: A set of functions to investigate raw data from (metabol)omics experiments intended to be used on a raw data matrix, i.e. following peak picking and signal deconvolution. Functions can be used to normalize data, detect biomarkers and perform sample classification.
Author: Jan Lisec [aut, cre]
Maintainer: Jan Lisec <jan.lisec@bam.de>
Diff between MetabolomicsBasics versions 1.1 dated 2018-11-12 and 1.2 dated 2021-04-18
DESCRIPTION | 11 ++++---- MD5 | 51 ++++++++++++++++++++++------------------ NAMESPACE | 5 +++ R/ReplaceMissingValues.R | 30 +++++++++++++---------- R/RestrictedPCA.R | 1 R/find_boundaries.R |only R/met-data.R | 6 +++- R/msconvert.R |only R/raw-data.R | 6 +++- R/sam-data.R | 6 +++- R/spectra_format_converter.R |only build |only man/AdjustSymbols.Rd | 3 -- man/CheckForOutliers.Rd | 8 ++++-- man/ClassificationCV.Rd | 13 +++++++--- man/ClassificationHistogram.Rd | 5 +-- man/ClassificationWrapper.Rd | 14 ++++++++-- man/MBoxplot.Rd | 17 ++++++++++--- man/MetaboliteANOVA.Rd | 9 +++++-- man/PlotMetabolitePCA.Rd | 12 +++++++-- man/PlotPValueHist.Rd | 10 ++++++- man/RemoveFactorsByANOVA.Rd | 11 ++++++-- man/ReplaceMissingValues.Rd | 1 man/RestrictedPCA.Rd | 20 +++++++++++---- man/find_boundaries.Rd |only man/met.Rd | 12 +++++++-- man/msconvert.Rd |only man/raw.Rd | 12 +++++++-- man/sam.Rd | 12 +++++++-- man/spectra_format_converter.Rd |only 30 files changed, 192 insertions(+), 83 deletions(-)
More information about MetabolomicsBasics at CRAN
Permanent link
Title: API Client for Fantasy Football League Platforms
Description: Helps access various Fantasy Football APIs by handling
authentication and rate-limiting, forming appropriate calls, and
returning tidy dataframes which can be easily connected to other data
sources.
Author: Tan Ho [aut, cre],
Tony ElHabr [ctb],
Joe Sydlowski [ctb]
Maintainer: Tan Ho <tan@tanho.ca>
Diff between ffscrapr versions 1.4.0 dated 2021-04-13 and 1.4.1 dated 2021-04-18
DESCRIPTION | 7 +- MD5 | 97 ++++++++++++++++---------------- NEWS.md | 30 +++++++-- R/0_helpers.R | 29 +++++++++ R/1_import_nflfastr.R | 4 - R/espn_scoringhistory.R | 8 +- R/flea_scoringhistory.R | 16 ++--- R/mfl_scoringhistory.R | 30 +++++++-- R/mfl_starterpositions.R | 16 ++++- R/sleeper_draftpicks.R | 5 - R/sleeper_scoringhistory.R | 12 ++- R/sysdata.rda |binary R/zzz.R | 36 ++++++----- README.md | 6 - data |only inst/doc/espn_basics.R | 6 - inst/doc/espn_basics.Rmd | 6 - inst/doc/espn_getendpoint.R | 6 - inst/doc/espn_getendpoint.Rmd | 6 - inst/doc/ffscrapr_scoringhistory.R | 4 - inst/doc/ffscrapr_scoringhistory.Rmd | 4 - inst/doc/fleaflicker_basics.R | 6 - inst/doc/fleaflicker_basics.Rmd | 6 - inst/doc/fleaflicker_getendpoint.R | 6 - inst/doc/fleaflicker_getendpoint.Rmd | 6 - inst/doc/mfl_basics.R | 6 - inst/doc/mfl_basics.Rmd | 6 - inst/doc/mfl_basics.html | 12 +-- inst/doc/mfl_getendpoint.R | 6 - inst/doc/mfl_getendpoint.Rmd | 6 - inst/doc/sleeper_basics.R | 6 - inst/doc/sleeper_basics.Rmd | 6 - inst/doc/sleeper_basics.html | 20 +++--- inst/doc/sleeper_getendpoint.R | 6 - inst/doc/sleeper_getendpoint.Rmd | 6 - inst/doc/sleeper_getendpoint.html | 6 - man/ff_scoringhistory.Rd | 10 +-- man/ff_starter_positions.Rd | 2 man/nflfastr_stat_mapping.Rd |only man/release_bullets.Rd |only tests/testthat/setup.R | 6 - tests/testthat/test-ff_scoringhistory.R | 4 - vignettes/espn_basics.Rmd | 6 - vignettes/espn_getendpoint.Rmd | 6 - vignettes/ffscrapr_scoringhistory.Rmd | 4 - vignettes/fleaflicker_basics.Rmd | 6 - vignettes/fleaflicker_getendpoint.Rmd | 6 - vignettes/mfl_basics.Rmd | 6 - vignettes/mfl_getendpoint.Rmd | 6 - vignettes/sleeper_basics.Rmd | 6 - vignettes/sleeper_getendpoint.Rmd | 6 - 51 files changed, 300 insertions(+), 212 deletions(-)
Title: Interface to Download Meteorological (and Hydrological) Datasets
Description: Automatize downloading of meteorological and hydrological data from publicly available repositories:
OGIMET (<http://ogimet.com/index.phtml.en>),
University of Wyoming - atmospheric vertical profiling data (<http://weather.uwyo.edu/upperair/>),
Polish Institute of Meterology and Water Management - National Research Institute (<https://danepubliczne.imgw.pl>),
and National Oceanic & Atmospheric Administration (NOAA).
This package also allows for adding geographical coordinates for each observation.
Author: Bartosz Czernecki [aut, cre] (<https://orcid.org/0000-0001-6496-1386>),
Arkadiusz Głogowski [aut] (<https://orcid.org/0000-0002-7587-8892>),
Jakub Nowosad [aut] (<https://orcid.org/0000-0002-1057-3721>),
IMGW-PIB [ctb] (source of the data)
Maintainer: Bartosz Czernecki <nwp@amu.edu.pl>
Diff between climate versions 0.9.9 dated 2021-01-08 and 1.0.0 dated 2021-04-18
climate-0.9.9/climate/tests/testthat/Rplots.pdf |only climate-1.0.0/climate/DESCRIPTION | 10 climate-1.0.0/climate/MD5 | 90 +-- climate-1.0.0/climate/R/check_locale.R |only climate-1.0.0/climate/R/clean_metadata_hydro.R | 8 climate-1.0.0/climate/R/clean_metadata_meteo.R | 6 climate-1.0.0/climate/R/hydro_imgw.R | 4 climate-1.0.0/climate/R/hydro_imgw_annual.R | 6 climate-1.0.0/climate/R/hydro_imgw_daily.R | 6 climate-1.0.0/climate/R/hydro_imgw_monthly.R | 6 climate-1.0.0/climate/R/hydro_metadata_imgw.R | 4 climate-1.0.0/climate/R/hydro_shortening_imgw.R | 2 climate-1.0.0/climate/R/imgw_hydro_abbrev.R | 2 climate-1.0.0/climate/R/imgw_hydro_stations.R | 2 climate-1.0.0/climate/R/imgw_meteo_abbrev.R | 2 climate-1.0.0/climate/R/imgw_meteo_stations.R | 2 climate-1.0.0/climate/R/meteo_imgw.R | 4 climate-1.0.0/climate/R/meteo_imgw_daily.R | 6 climate-1.0.0/climate/R/meteo_imgw_hourly.R | 6 climate-1.0.0/climate/R/meteo_imgw_monthly.R | 7 climate-1.0.0/climate/R/meteo_metadata_imgw.R | 4 climate-1.0.0/climate/R/meteo_shortening_imgw.R | 2 climate-1.0.0/climate/R/nearest_stations_imgw.R | 4 climate-1.0.0/climate/R/test_url.R | 2 climate-1.0.0/climate/build/vignette.rds |binary climate-1.0.0/climate/inst/doc/getstarted.html | 435 ++++++++++--------- climate-1.0.0/climate/man/clean_metadata_meteo.Rd | 2 climate-1.0.0/climate/man/climate-package.Rd | 4 climate-1.0.0/climate/man/hydro_imgw.Rd | 4 climate-1.0.0/climate/man/hydro_imgw_annual.Rd | 2 climate-1.0.0/climate/man/hydro_imgw_daily.Rd | 2 climate-1.0.0/climate/man/hydro_imgw_monthly.Rd | 2 climate-1.0.0/climate/man/hydro_metadata_imgw.Rd | 2 climate-1.0.0/climate/man/hydro_shortening_imgw.Rd | 2 climate-1.0.0/climate/man/imgw_hydro_abbrev.Rd | 2 climate-1.0.0/climate/man/imgw_hydro_stations.Rd | 2 climate-1.0.0/climate/man/imgw_meteo_abbrev.Rd | 2 climate-1.0.0/climate/man/imgw_meteo_stations.Rd | 2 climate-1.0.0/climate/man/meteo_imgw.Rd | 4 climate-1.0.0/climate/man/meteo_imgw_daily.Rd | 2 climate-1.0.0/climate/man/meteo_imgw_hourly.Rd | 2 climate-1.0.0/climate/man/meteo_imgw_monthly.Rd | 2 climate-1.0.0/climate/man/meteo_shortening_imgw.Rd | 2 climate-1.0.0/climate/man/nearest_stations_imgw.Rd | 2 climate-1.0.0/climate/man/nearest_stations_nooa.Rd | 2 climate-1.0.0/climate/man/nearest_stations_ogimet.Rd | 2 climate-1.0.0/climate/man/test_url.Rd | 2 47 files changed, 357 insertions(+), 311 deletions(-)
Title: Spatial Seemingly Unrelated Regression Models
Description: A collection of functions to test and estimate Seemingly
Unrelated Regression (usually called SUR) models, with spatial structure, by maximum
likelihood and three-stage least squares. The package estimates the
most common spatial specifications, that is, SUR with Spatial Lag of
X regressors (called SUR-SLX), SUR with Spatial Lag Model (called SUR-SLM),
SUR with Spatial Error Model (called SUR-SEM), SUR with Spatial Durbin Model (called SUR-SDM),
SUR with Spatial Durbin Error Model (called SUR-SDEM),
SUR with Spatial Autoregressive terms and Spatial Autoregressive
Disturbances (called SUR-SARAR), SUR-SARAR with Spatial Lag of X
regressors (called SUR-GNM) and SUR with Spatially Independent Model (called SUR-SIM).
The methodology of these models can be found in next references
Mur, J., Lopez, F., and Herrera, M. (2010) <doi:10.1080/17421772.2010.516443>
Lopez, F.A., Mur, J., and Angulo, A. (2014) <doi:10.1007/s00168-014-0624-2>.
Author: Ana Angulo [aut],
Fernando A Lopez [aut],
Roman Minguez [aut, cre],
Jesus Mur [aut]
Maintainer: Roman Minguez <roman.minguez@uclm.es>
Diff between spsur versions 1.0.1.7 dated 2021-04-09 and 1.0.1.8 dated 2021-04-18
DESCRIPTION | 8 MD5 | 55 NAMESPACE | 2 R/dgp_spSUR.R | 4 R/impactspsur.R | 166 - R/lmtestspsur.R | 10 R/lr_betas.R | 1 R/spSUR-package.R | 5 R/spsur3sls.R | 18 R/spsurml.R | 55 R/spsurtime.R | 9 R/wald_betas.R | 5 inst/doc/Vignette_User_Guide.Rmd | 4694 +++++++++++++++++++------------------- inst/doc/Vignette_User_Guide.html | 1 inst/doc/spsur-vs-spatialreg.Rmd | 1621 ++++++------- inst/doc/spsur-vs-spatialreg.html | 17 man/dgp_spsur.Rd | 4 man/impactspsur.Rd | 5 man/lmtestspsur.Rd | 10 man/lr_betas.Rd | 1 man/spsur-package.Rd | 3 man/spsur3sls.Rd | 8 man/spsurml.Rd | 16 man/spsurtime.Rd | 9 man/wald_betas.Rd | 5 vignettes/Vignette_User_Guide.Rmd | 4694 +++++++++++++++++++------------------- vignettes/custom.css |only vignettes/rsconnect |only vignettes/spsur-vs-spatialreg.Rmd | 1621 ++++++------- 29 files changed, 6514 insertions(+), 6533 deletions(-)
Title: Rank Aggregation with Partition Mallows Model
Description: Rank aggregation aims to achieve a better ranking list given multiple observations. 'PAMA' implements Partition-Mallows model for rank aggregation where the rankers' quality are different. Both Bayesian inference and Maximum likelihood estimation (MLE) are provided. It can handle partial list as well. When covariates information is available, this package can make inference by incorporating the covariate information. More information can be found in the paper "Integrated Partition-Mallows Model and Its Inference for Rank Aggregation".
Author: Wanchuang Zhu [cre, aut]
Maintainer: Wanchuang Zhu <andy.chou.sub@gmail.com>
Diff between PAMA versions 1.0.0 dated 2021-04-14 and 1.0.1 dated 2021-04-18
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- R/NBANFL.R | 9 ++++++++- R/PAMA.B.R | 2 +- R/PAMA.Cov.R | 7 ++++--- R/PAMA.F.R | 8 ++++---- R/PAMA.PL.R | 2 +- man/NBANFL.Rd | 9 ++++++++- man/PAMA.B.Rd | 2 +- man/PAMA.Cov.Rd | 7 ++++--- man/PAMA.F.Rd | 8 ++++---- man/PAMA.PL.Rd | 2 +- 12 files changed, 51 insertions(+), 35 deletions(-)
More information about latticeDensity at CRAN
Permanent link
Title: Basic Finance; NPV/IRR/Annuities/Bond-Pricing; Black Scholes
Description: Implements the basic financial analysis
functions similar to (but not identical to) what
is available in most spreadsheet software. This
includes finding the IRR and NPV of regularly
spaced cash flows and annuities. Bond pricing and
YTM calculations are included. In addition, Black
Scholes option pricing and Greeks are also
provided.
Author: Jayanth Varma [aut, cre]
Maintainer: Jayanth Varma <jrvarma@iima.ac.in>
Diff between jrvFinance versions 1.4.1 dated 2019-03-15 and 1.4.2 dated 2021-04-18
DESCRIPTION | 15 - MD5 | 30 +-- NEWS.md | 4 R/solve-irr.R | 2 build/vignette.rds |binary inst/doc/jrvFinance-demo.R | 92 +++++----- inst/doc/jrvFinance-demo.html | 385 +++++++++++------------------------------- man/GenBSImplied.Rd | 14 + man/annuity.Rd | 88 ++++++--- man/bonds.Rd | 102 ++++++++--- man/daycount.Rd | 10 - man/duration.Rd | 13 + man/irr.Rd | 14 + man/irr.solve.Rd | 12 - man/newton.raphson.root.Rd | 13 + man/npv.Rd | 12 - 16 files changed, 386 insertions(+), 420 deletions(-)
Title: Manual Tours, Manual Control of Dynamic Projections of Numeric
Multivariate Data
Description: Data visualization tours animates linear projection
of multivariate data as its basis (ie. orientation) changes. The 'spinifex'
packages generates paths for manual tours by manipulating the contribution of
a single variable at a time ['Cook' & 'Buja' (1997) <doi:10.2307/1390747>].
Other types of tours, such as grand (random walk) and guided (optimizing some
objective function) are available in the
'tourr' package ['Wickham' 'et' 'al.' (2011) <doi:10.18637/jss.v040.i02>].
'spinifex' builds on 'tourr' and can render tours with 'gganimate' and
'plotly' graphics, and allows for exporting as an .html widget and as an .gif,
respectively. This work is fully discussed at ['Spyrison' & 'Cook' (2020)
<doi:10.32614/RJ-2020-027>.
Author: Nicholas Spyrison [aut, cre],
Dianne Cook [aut, ths]
Maintainer: Nicholas Spyrison <spyrison@gmail.com>
Diff between spinifex versions 0.2.7 dated 2020-11-18 and 0.2.8 dated 2021-04-18
spinifex-0.2.7/spinifex/man/manip_var_guided.Rd |only spinifex-0.2.7/spinifex/man/manip_var_pca.Rd |only spinifex-0.2.7/spinifex/man/scale_10.Rd |only spinifex-0.2.8/spinifex/DESCRIPTION | 12 spinifex-0.2.8/spinifex/MD5 | 93 +- spinifex-0.2.8/spinifex/NAMESPACE | 10 spinifex-0.2.8/spinifex/NEWS.md | 29 spinifex-0.2.8/spinifex/R/0_util.r | 442 ++++++++---- spinifex-0.2.8/spinifex/R/1_manual_tour.r | 113 +-- spinifex-0.2.8/spinifex/R/2_render.r | 122 +-- spinifex-0.2.8/spinifex/R/3_visualize.r | 195 ++--- spinifex-0.2.8/spinifex/R/8_run_app.r | 6 spinifex-0.2.8/spinifex/R/9_data.r | 4 spinifex-0.2.8/spinifex/R/9_spinifex-depricated.r | 16 spinifex-0.2.8/spinifex/README.md | 2 spinifex-0.2.8/spinifex/data/BreastCancer.rda |binary spinifex-0.2.8/spinifex/inst/doc/spinifex.R | 37 - spinifex-0.2.8/spinifex/inst/doc/spinifex.Rmd | 37 - spinifex-0.2.8/spinifex/inst/doc/spinifex.html | 308 +------- spinifex-0.2.8/spinifex/inst/shiny_apps/intro/app.R | 45 - spinifex-0.2.8/spinifex/inst/shiny_apps/intro/ui.R | 2 spinifex-0.2.8/spinifex/man/BreastCancer.Rd | 136 +-- spinifex-0.2.8/spinifex/man/array2df.Rd | 2 spinifex-0.2.8/spinifex/man/as_history_array.Rd |only spinifex-0.2.8/spinifex/man/basis_guided.Rd | 29 spinifex-0.2.8/spinifex/man/basis_half_circle.Rd |only spinifex-0.2.8/spinifex/man/basis_odp.Rd |only spinifex-0.2.8/spinifex/man/basis_olda.Rd |only spinifex-0.2.8/spinifex/man/basis_onpp.Rd |only spinifex-0.2.8/spinifex/man/basis_pca.Rd | 22 spinifex-0.2.8/spinifex/man/create_manip_space.Rd | 2 spinifex-0.2.8/spinifex/man/figures/spinifex_hex.png |binary spinifex-0.2.8/spinifex/man/is_orthonormal.Rd | 7 spinifex-0.2.8/spinifex/man/manip_var_of.Rd |only spinifex-0.2.8/spinifex/man/manual_tour.Rd | 2 spinifex-0.2.8/spinifex/man/play_manual_tour.Rd | 12 spinifex-0.2.8/spinifex/man/play_tour_path.Rd | 13 spinifex-0.2.8/spinifex/man/render_.Rd | 16 spinifex-0.2.8/spinifex/man/render_gganimate.Rd | 12 spinifex-0.2.8/spinifex/man/render_plotly.Rd | 31 spinifex-0.2.8/spinifex/man/rotate_manip_space.Rd | 2 spinifex-0.2.8/spinifex/man/scale_axes.Rd | 5 spinifex-0.2.8/spinifex/man/scale_sd.Rd | 9 spinifex-0.2.8/spinifex/man/spinifex-deprecated.Rd | 58 - spinifex-0.2.8/spinifex/man/theme_spinifex.Rd | 4 spinifex-0.2.8/spinifex/man/view_frame.Rd | 9 spinifex-0.2.8/spinifex/man/view_manip_space.Rd | 15 spinifex-0.2.8/spinifex/tests/testthat/test-0_util.R | 25 spinifex-0.2.8/spinifex/tests/testthat/test-1_manual_tour.R | 2 spinifex-0.2.8/spinifex/tests/testthat/test-2_render.R | 9 spinifex-0.2.8/spinifex/tests/testthat/test-3_visualize.r | 2 spinifex-0.2.8/spinifex/vignettes/spinifex.Rmd | 37 - 52 files changed, 923 insertions(+), 1011 deletions(-)
Title: Memory-Efficient, Visualize-Enhanced, Parallel-Accelerated GWAS
Tool
Description: A memory-efficient, visualize-enhanced, parallel-accelerated Genome-Wide Association Study (GWAS) tool. It can
(1) effectively process large data,
(2) rapidly evaluate population structure,
(3) efficiently estimate variance components several algorithms,
(4) implement parallel-accelerated association tests of markers three methods,
(5) globally efficient design on GWAS process computing,
(6) enhance visualization of related information.
'rMVP' contains three models GLM (Alkes Price (2006) <DOI:10.1038/ng1847>), MLM (Jianming Yu (2006) <DOI:10.1038/ng1702>)
and FarmCPU (Xiaolei Liu (2016) <doi:10.1371/journal.pgen.1005767>); variance components estimation methods EMMAX
(Hyunmin Kang (2008) <DOI:10.1534/genetics.107.080101>;), FaSTLMM (method: Christoph Lippert (2011) <DOI:10.1038/nmeth.1681>,
R implementation from 'GAPIT2': You Tang and Xiaolei Liu (2016) <DOI:10.1371/journal.pone.0107684> and
'SUPER': Qishan Wang and Feng Tian (2014) <DOI:10.1371/journal.pone.0107684>), and HE regression
(Xiang Zhou (2017) <DOI:10.1214/17-AOAS1052>).
Author: Lilin Yin [aut],
Haohao Zhang [aut],
Zhenshuang Tang [aut],
Jingya Xu [aut],
Dong Yin [aut],
Zhiwu Zhang [aut],
Xiaohui Yuan [aut],
Mengjin Zhu [aut],
Shuhong Zhao [aut],
Xinyun Li [aut],
Qishan Wang [ctb],
Feng Tian [ctb],
Hyunmin Kang [ctb],
Xiang Zhou [ctb],
Xiaolei Liu [cre, aut, cph]
Maintainer: Xiaolei Liu <xiaoleiliu@mail.hzau.edu.cn>
Diff between rMVP versions 1.0.5 dated 2021-03-02 and 1.0.6 dated 2021-04-18
DESCRIPTION | 8 - MD5 | 9 - R/MVP.K.VanRaden.r | 356 +++++++++++++++++++++++++++++------------------------ R/MVP.r | 2 R/RcppExports.R | 142 ++++++++++----------- man/MVP.calk.Rd |only 6 files changed, 277 insertions(+), 240 deletions(-)
Title: R Interface to the 'Deutsche Nationalbibliothek (German National
Library) API'
Description: A wrapper for the 'Deutsche Nationalbibliothek (German National
Library) API', available at <https://www.dnb.de>. The German National Library is
the German central archival library, collecting, archiving, bibliographically
classifying all German and German-language publications, foreign
publications about Germany, translations of German works, and the works of
German-speaking emigrants published abroad between 1933 and 1945.
Author: Christian Graul [aut, cre]
Maintainer: Christian Graul <christian.graul@gmail.com>
Diff between rdnb versions 0.1-3 dated 2019-04-10 and 0.1-4 dated 2021-04-18
rdnb-0.1-3/rdnb/man/save_token.Rd |only rdnb-0.1-4/rdnb/DESCRIPTION | 17 +++----- rdnb-0.1-4/rdnb/MD5 | 29 ++++++-------- rdnb-0.1-4/rdnb/NAMESPACE | 1 rdnb-0.1-4/rdnb/R/gets.R | 4 - rdnb-0.1-4/rdnb/R/rdnb.R | 4 - rdnb-0.1-4/rdnb/R/utils.R | 58 ---------------------------- rdnb-0.1-4/rdnb/build/vignette.rds |binary rdnb-0.1-4/rdnb/inst/CITATION | 6 +- rdnb-0.1-4/rdnb/inst/NEWS | 6 ++ rdnb-0.1-4/rdnb/inst/doc/rdnb_vignette.Rmd | 21 ++-------- rdnb-0.1-4/rdnb/inst/doc/rdnb_vignette.html | 23 +++-------- rdnb-0.1-4/rdnb/man/dnb_advanced.Rd | 3 - rdnb-0.1-4/rdnb/man/dnb_search.Rd | 19 ++++++--- rdnb-0.1-4/rdnb/man/rdnb.Rd | 5 -- rdnb-0.1-4/rdnb/vignettes/rdnb_vignette.Rmd | 21 ++-------- 16 files changed, 68 insertions(+), 149 deletions(-)
Title: An Interactive Detector for Spatial Associations
Description: Method of interactive detector for spatial associations (IDSA)
as described in Yongze Song (2021) <doi:10.1080/13658816.2021.1882680>.
IDSA is used to quantify the power of interactive determinant (PID)
between a spatial response variable and explanatory variables.
IDSA is developed based on methods of spatial heterogeneity.
Author: Yongze Song [aut, cre] (<https://orcid.org/0000-0003-3420-9622>)
Maintainer: Yongze Song <yongze.song@postgrad.curtin.edu.au>
Diff between IDSA versions 1.2 dated 2021-01-28 and 2.1 dated 2021-04-18
DESCRIPTION | 15 +++++++++------ INDEX | 53 ++++++++++++++++++++++------------------------------- MD5 | 16 ++++++++++++++-- R/zzz.R |only build |only inst |only vignettes |only 7 files changed, 45 insertions(+), 39 deletions(-)
Title: Data Sets, Functions and Examples from the Book: "Modern
Industrial Statistics" by Kenett, Zacks and Amberti
Description: Provide all the data sets and statistical analysis applications used in "Modern Industrial Statistics: with applications in R, MINITAB and JMP" by R.S. Kenett and S. Zacks with contributions by D. Amberti, John Wiley and Sons, 2021, which is a third revised and expanded revision of "Modern Industrial Statistics: Design and Control of Quality and Reliability", R. Kenett and S. Zacks, Duxbury/Wadsworth Publishing, 1998.
Author: Daniele Amberti
Maintainer: Daniele Amberti <daniele.amberti@gmail.com>
Diff between mistat versions 1.0-5 dated 2018-01-08 and 2.0.3 dated 2021-04-18
mistat-1.0-5/mistat/inst/scripts/ch02.R |only mistat-1.0-5/mistat/inst/scripts/ch03.R |only mistat-1.0-5/mistat/inst/scripts/ch04.R |only mistat-1.0-5/mistat/inst/scripts/ch05.R |only mistat-1.0-5/mistat/inst/scripts/ch06.R |only mistat-1.0-5/mistat/inst/scripts/ch07.R |only mistat-1.0-5/mistat/inst/scripts/ch08.R |only mistat-1.0-5/mistat/inst/scripts/ch09.R |only mistat-1.0-5/mistat/inst/scripts/ch10.R |only mistat-1.0-5/mistat/inst/scripts/ch11.R |only mistat-1.0-5/mistat/inst/scripts/ch12.R |only mistat-1.0-5/mistat/inst/scripts/ch13.R |only mistat-1.0-5/mistat/inst/scripts/ch14.R |only mistat-1.0-5/mistat/inst/scripts/ch15.R |only mistat-2.0.3/mistat/DESCRIPTION | 15 mistat-2.0.3/mistat/MD5 | 83 ++ mistat-2.0.3/mistat/NAMESPACE | 17 mistat-2.0.3/mistat/R/ARMA.R |only mistat-2.0.3/mistat/R/dlmLg.R |only mistat-2.0.3/mistat/R/dynOAB.R |only mistat-2.0.3/mistat/R/dynOAB2.R |only mistat-2.0.3/mistat/R/masPred1.R |only mistat-2.0.3/mistat/R/nrwm.R |only mistat-2.0.3/mistat/R/pred1.R |only mistat-2.0.3/mistat/R/predARMA.R |only mistat-2.0.3/mistat/R/predPoly.R |only mistat-2.0.3/mistat/R/simOAB.R |only mistat-2.0.3/mistat/R/toeplitz.R |only mistat-2.0.3/mistat/README.md | 2 mistat-2.0.3/mistat/data/ABC.rda |only mistat-2.0.3/mistat/data/DISSOLUTION.rda |only mistat-2.0.3/mistat/data/DOW1941.rda |binary mistat-2.0.3/mistat/data/FOOD.rda |only mistat-2.0.3/mistat/data/SENSORS.rda |only mistat-2.0.3/mistat/data/SYSTEMFAILURE.rda |only mistat-2.0.3/mistat/data/SeasCom.rda |only mistat-2.0.3/mistat/inst/csvFiles/ABC.csv |only mistat-2.0.3/mistat/inst/csvFiles/DISSOLUTION.csv |only mistat-2.0.3/mistat/inst/csvFiles/DOW1941.csv | 606 ++++++++++---------- mistat-2.0.3/mistat/inst/csvFiles/FOOD.csv |only mistat-2.0.3/mistat/inst/csvFiles/SENSORS.csv |only mistat-2.0.3/mistat/inst/csvFiles/SYSTEMFAILURE.csv |only mistat-2.0.3/mistat/inst/csvFiles/SeasCom.csv |only mistat-2.0.3/mistat/inst/scripts/ch002.R |only mistat-2.0.3/mistat/inst/scripts/ch003.R |only mistat-2.0.3/mistat/inst/scripts/ch004.R |only mistat-2.0.3/mistat/inst/scripts/ch005.R |only mistat-2.0.3/mistat/inst/scripts/ch006.R |only mistat-2.0.3/mistat/inst/scripts/ch007.R |only mistat-2.0.3/mistat/inst/scripts/ch008.R |only mistat-2.0.3/mistat/inst/scripts/ch010.R |only mistat-2.0.3/mistat/inst/scripts/ch011.R |only mistat-2.0.3/mistat/inst/scripts/ch012.R |only mistat-2.0.3/mistat/inst/scripts/ch013.R |only mistat-2.0.3/mistat/inst/scripts/ch014.R |only mistat-2.0.3/mistat/inst/scripts/ch015.R |only mistat-2.0.3/mistat/inst/scripts/ch016.R |only mistat-2.0.3/mistat/inst/scripts/ch017.R |only mistat-2.0.3/mistat/inst/scripts/ch018.R |only mistat-2.0.3/mistat/man/ABC.Rd |only mistat-2.0.3/mistat/man/ARMA.Rd |only mistat-2.0.3/mistat/man/DISSOLUTION.Rd |only mistat-2.0.3/mistat/man/DOW1941.Rd | 22 mistat-2.0.3/mistat/man/FOOD.Rd |only mistat-2.0.3/mistat/man/LATHYPPISTON.Rd | 12 mistat-2.0.3/mistat/man/SENSORS.Rd |only mistat-2.0.3/mistat/man/SYSTEMFAILURE.Rd |only mistat-2.0.3/mistat/man/SeasCom.Rd |only mistat-2.0.3/mistat/man/dlmLg.Rd |only mistat-2.0.3/mistat/man/dynOAB.Rd |only mistat-2.0.3/mistat/man/masPred1.Rd |only mistat-2.0.3/mistat/man/nrwm.Rd |only mistat-2.0.3/mistat/man/pred1.Rd |only mistat-2.0.3/mistat/man/predARMA.Rd |only mistat-2.0.3/mistat/man/predPoly.Rd |only mistat-2.0.3/mistat/man/simOAB.Rd |only mistat-2.0.3/mistat/man/toeplitz.Rd |only 77 files changed, 409 insertions(+), 348 deletions(-)
Title: Variable Metric Nonlinear Function Minimization
Description: Variable metric nonlinear function minimization with bounds constraints.
Author: John C. Nash [aut, cre]
Maintainer: John C. Nash <nashjc@uottawa.ca>
Diff between Rvmmin versions 2018-4.17 dated 2018-04-17 and 2018-4.17.1 dated 2021-04-18
Rvmmin-2018-4.17.1/Rvmmin/DESCRIPTION | 8 ++++---- Rvmmin-2018-4.17.1/Rvmmin/MD5 | 9 ++++----- Rvmmin-2018-4.17.1/Rvmmin/build/vignette.rds |binary Rvmmin-2018-4.17.1/Rvmmin/inst/doc/Rvmmin.R | 14 +++++++------- Rvmmin-2018-4.17.1/Rvmmin/inst/doc/Rvmmin.html |only Rvmmin-2018-4.17/Rvmmin/inst/doc/Rvmmin.pdf |only Rvmmin-2018-4.17/Rvmmin/vignettes/Rvmmin.html |only 7 files changed, 15 insertions(+), 16 deletions(-)
Title: Robust Adaptive Metropolis Algorithm
Description: Function for adapting the shape of the random walk Metropolis proposal
as specified by robust adaptive Metropolis algorithm by Vihola (2012) <DOI:10.1007/s11222-011-9269-5>.
The package also includes fast functions for rank-one Cholesky update and downdate.
These functions can be used directly from R or the corresponding C++ header files
can be easily linked to other R packages.
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between ramcmc versions 0.1.0-1.1 dated 2020-10-14 and 0.1.1 dated 2021-04-18
DESCRIPTION | 22 - MD5 | 22 - R/update.R | 266 ++++++------- build/vignette.rds |binary inst/CITATION | 48 +- inst/doc/ramcmc.R | 118 +++--- inst/doc/ramcmc.Rmd | 242 ++++++------ inst/doc/ramcmc.html | 900 +++++++++++++++++----------------------------- tests/test_all.R | 4 tests/testthat/test-all.R | 162 ++++---- vignettes/ramcmc.Rmd | 242 ++++++------ vignettes/ramcmc.bib | 110 ++--- 12 files changed, 972 insertions(+), 1164 deletions(-)
Title: Run Code 'With' Temporarily Modified Global State
Description: A set of functions to run code 'with' safely and
temporarily modified global state. Many of these functions were
originally a part of the 'devtools' package, this provides a simple
package with limited dependencies to provide access to these
functions.
Author: Jim Hester [aut, cre],
Kirill Müller [aut],
Kevin Ushey [aut],
Hadley Wickham [aut],
Winston Chang [aut],
Jennifer Bryan [ctb],
Richard Cotton [ctb],
RStudio [cph]
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between withr versions 2.4.1 dated 2021-01-26 and 2.4.2 dated 2021-04-18
DESCRIPTION | 7 MD5 | 40 +- NEWS.md | 14 R/env.R | 3 R/local_.R | 2 R/namespace.R | 7 R/options.R | 2 R/seed.R | 33 + R/tempfile.R | 22 - R/timezone.R | 29 - R/utils.R | 7 build/vignette.rds |binary inst/doc/changing-and-restoring-state.html | 566 +++++++++-------------------- man/with_seed.Rd | 22 + man/with_tempfile.Rd | 8 man/withr.Rd | 2 tests/testthat/test-devices.R | 2 tests/testthat/test-env.R |only tests/testthat/test-local.R | 35 - tests/testthat/test-options.R |only tests/testthat/test-seed.R | 44 ++ tests/testthat/test-with.R | 31 - 22 files changed, 369 insertions(+), 507 deletions(-)
Title: Dimension Reduction and Estimation Methods
Description: We provide linear and nonlinear dimension reduction techniques.
Intrinsic dimension estimation methods for exploratory analysis are also provided.
For more details on the package, see the paper by You (2020) <arXiv:2005.11107>.
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>),
Changhee Suh [ctb]
Maintainer: Kisung You <kyoustat@gmail.com>
Diff between Rdimtools versions 1.0.4 dated 2020-09-07 and 1.0.6 dated 2021-04-18
Rdimtools-1.0.4/Rdimtools/man/package-Rdimtools.Rd |only Rdimtools-1.0.6/Rdimtools/DESCRIPTION | 11 Rdimtools-1.0.6/Rdimtools/MD5 | 46 Rdimtools-1.0.6/Rdimtools/NAMESPACE | 4 Rdimtools-1.0.6/Rdimtools/NEWS.md | 11 Rdimtools-1.0.6/Rdimtools/R/RcppExports.R | 12 Rdimtools-1.0.6/Rdimtools/R/Rdimtools-package.R | 7 Rdimtools-1.0.6/Rdimtools/R/data_iris.R |only Rdimtools-1.0.6/Rdimtools/R/feature_LSLS.R | 4 Rdimtools-1.0.6/Rdimtools/R/feature_UGFS.R | 3 Rdimtools-1.0.6/Rdimtools/R/nonlinear_SAMMON.R | 17 Rdimtools-1.0.6/Rdimtools/R/ver2_nonlinear_MMDS.R |only Rdimtools-1.0.6/Rdimtools/R/ver2_nonlinear_PHATE.R |only Rdimtools-1.0.6/Rdimtools/R/zzz.R | 4 Rdimtools-1.0.6/Rdimtools/README.md | 8 Rdimtools-1.0.6/Rdimtools/build/partial.rdb |binary Rdimtools-1.0.6/Rdimtools/build/vignette.rds |binary Rdimtools-1.0.6/Rdimtools/data |only Rdimtools-1.0.6/Rdimtools/inst/REFERENCES.bib | 3577 +++++++++---------- Rdimtools-1.0.6/Rdimtools/man/iris.Rd |only Rdimtools-1.0.6/Rdimtools/man/nonlinear_MMDS.Rd |only Rdimtools-1.0.6/Rdimtools/man/nonlinear_PHATE.Rd |only Rdimtools-1.0.6/Rdimtools/man/nonlinear_SAMMON.Rd | 2 Rdimtools-1.0.6/Rdimtools/src/RcppExports.cpp | 49 Rdimtools-1.0.6/Rdimtools/src/methods_nonlinear.cpp | 82 Rdimtools-1.0.6/Rdimtools/src/methods_nonlinear.h | 3 Rdimtools-1.0.6/Rdimtools/src/ver2_nonlinear.cpp | 324 + Rdimtools-1.0.6/Rdimtools/vignettes/quick-start.html | 314 - 28 files changed, 2237 insertions(+), 2241 deletions(-)
Title: Mixed GAM Computation Vehicle with Automatic Smoothness
Estimation
Description: Generalized additive (mixed) models, some of their extensions and
other generalized ridge regression with multiple smoothing
parameter estimation by (Restricted) Marginal Likelihood,
Generalized Cross Validation and similar, or using iterated
nested Laplace approximation for fully Bayesian inference. See
Wood (2017) <doi:10.1201/9781315370279> for an overview.
Includes a gam() function, a wide variety of smoothers, 'JAGS'
support and distributions beyond the exponential family.
Author: Simon Wood <simon.wood@r-project.org>
Maintainer: Simon Wood <simon.wood@r-project.org>
Diff between mgcv versions 1.8-34 dated 2021-02-16 and 1.8-35 dated 2021-04-18
ChangeLog | 21 DESCRIPTION | 6 MD5 | 52 - R/fast-REML.r | 11 R/gam.fit3.r | 3 R/gamlss.r | 16 R/smooth.r | 21 build/partial.rdb |binary inst/po/en@quot/LC_MESSAGES/R-mgcv.mo |binary inst/po/en@quot/LC_MESSAGES/mgcv.mo |binary inst/po/fr/LC_MESSAGES/R-mgcv.mo |binary inst/po/fr/LC_MESSAGES/mgcv.mo |binary inst/po/it |only man/gammals.Rd | 2 man/gevlss.Rd | 2 man/gumbls.Rd | 2 man/mgcv-parallel.Rd | 2 man/s.Rd | 3 man/shash.Rd | 7 man/smooth.construct.bs.smooth.spec.Rd | 1 man/smooth.construct.ps.smooth.spec.Rd | 4 po/R-de.po | 2 po/R-fr.po | 1110 +++++++++++++-------------------- po/R-it.po |only po/R-mgcv.pot | 4 po/fr.po | 39 - po/it.po |only po/mgcv.pot | 4 28 files changed, 588 insertions(+), 724 deletions(-)
Title: Tools for Two-Dimensional Monte-Carlo Simulations
Description: A complete framework to build and study Two-Dimensional Monte-Carlo simulations, aka Second-Order Monte-Carlo simulations. Also includes various distributions (pert, triangular, Bernoulli, empirical discrete and continuous).
Author: Regis Pouillot [aut, cre],
Marie-Laure Delignette-Muller [ctb],
Jean-Baptiste Denis [ctb]
Maintainer: Regis Pouillot <rpouillot@yahoo.fr>
Diff between mc2d versions 0.1-18 dated 2017-03-06 and 0.1-19 dated 2021-04-18
DESCRIPTION | 18 +++++++++--------- MD5 | 26 +++++++++++++------------- R/empiricalC.R | 6 +++--- R/extractvar.R | 2 +- R/mccontrol.R | 22 ++++++++++++---------- R/mcstoc.R | 3 ++- build/vignette.rds |binary data/ec.rda |binary inst/doc/docmcEnglish.R | 1 - inst/doc/docmcEnglish.pdf |binary inst/doc/mc2dLmEnglish.R | 1 - inst/doc/mc2dLmEnglish.pdf |binary man/ec.Rd | 2 +- man/total.Rd | 2 +- 14 files changed, 42 insertions(+), 41 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-01 1.0.0
Title: Simple Data Frames
Description: Provides a 'tbl_df' class (the 'tibble') that
provides stricter checking and better formatting than the traditional
data frame.
Author: Kirill Müller [aut, cre],
Hadley Wickham [aut],
Romain Francois [ctb],
Jennifer Bryan [ctb],
RStudio [cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between tibble versions 3.1.0 dated 2021-02-25 and 3.1.1 dated 2021-04-18
DESCRIPTION | 15 +- MD5 | 49 ++++---- NAMESPACE | 4 NEWS.md | 22 ++- R/new.R | 4 R/pillar.R |only R/print.R | 10 + R/subsetting.R | 2 R/tribble.R | 18 +++ build/vignette.rds |binary inst/doc/formats.html | 31 +++-- inst/doc/invariants.html | 63 ++++++---- inst/doc/tibble.R | 14 ++ inst/doc/tibble.Rmd | 45 ++++++- inst/doc/tibble.html | 207 ++++++++++++++++++++++-------------- inst/doc/types.html | 102 ++++++++++------- man/formatting.Rd | 12 +- man/new_tibble.Rd | 4 man/reexports.Rd | 7 - man/subsetting.Rd | 2 man/tibble-package.Rd | 10 + man/tribble.Rd | 12 ++ tests/testthat/_snaps/subsetting.md | 2 tests/testthat/test-str.R | 2 tests/testthat/test-tribble.R | 11 + vignettes/tibble.Rmd | 45 ++++++- 26 files changed, 454 insertions(+), 239 deletions(-)
Title: Handy File and String Manipulation
Description: This started out as a package for file and string
manipulation. Since then, the 'fs' and 'strex' packages emerged,
offering functionality previously given by this package (but it's done
better in these new ones). Those packages have hence almost pushed
'filesstrings' into extinction. However, it still has a small number
of unique, handy file manipulation functions which can be seen in the
vignette. One example is a function to remove spaces from all file
names in a directory.
Author: Rory Nolan [aut, cre, cph] (<https://orcid.org/0000-0002-5239-4043>),
Sergi Padilla-Parra [ths] (<https://orcid.org/0000-0002-8010-9481>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between filesstrings versions 3.2.1 dated 2020-10-18 and 3.2.2 dated 2021-04-18
DESCRIPTION | 11 +++---- MD5 | 10 +++--- NEWS.md | 7 ++++ README.md | 2 - build/partial.rdb |binary inst/doc/files.html | 75 +++++++--------------------------------------------- 6 files changed, 28 insertions(+), 77 deletions(-)
Title: Cross-Validated Covariance Matrix Estimation
Description: An efficient cross-validated approach for covariance matrix
estimation, particularly useful in high-dimensional settings. This
method relies upon the theory of loss-based estimator selection to
identify the optimal estimator of the covariance matrix from among a
prespecified set of candidates.
Author: Philippe Boileau [aut, cre, cph]
(<https://orcid.org/0000-0002-4850-2507>),
Nima Hejazi [aut] (<https://orcid.org/0000-0002-7127-2789>),
Brian Collica [aut],
Jamarcus Liu [ctb],
Mark van der Laan [ctb, ths] (<https://orcid.org/0000-0003-1432-5511>),
Sandrine Dudoit [ctb, ths] (<https://orcid.org/0000-0002-6069-8629>)
Maintainer: Philippe Boileau <philippe_boileau@berkeley.edu>
Diff between cvCovEst versions 0.3.4 dated 2021-03-06 and 0.3.5 dated 2021-04-18
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 3 +++ build/partial.rdb |binary inst/doc/using_cvCovEst.html | 15 +++++++++++---- 5 files changed, 22 insertions(+), 12 deletions(-)
Title: Automatic Generation of Interactive Visualizations for
Statistical Results
Description: Functionalities to automatically generate interactive visualizations for
statistical results supported by 'ggfortify', such as time series, PCA,
clustering and survival analysis, with 'plotly.js' <https://plotly.com/> and
'ggplot2' style. The generated visualizations can also be easily extended
using 'ggplot2' and 'plotly' syntax while staying interactive.
Author: Yuan Tang [aut, cre] (<https://orcid.org/0000-0001-5243-233X>)
Maintainer: Yuan Tang <terrytangyuan@gmail.com>
Diff between autoplotly versions 0.1.3 dated 2021-04-16 and 0.1.4 dated 2021-04-18
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NEWS.md | 5 +++++ 3 files changed, 11 insertions(+), 6 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-10 0.1.5
2021-01-18 0.1.2
Title: Wavelet-Based Enhanced FDR for Detecting Signals from Complete
or Incomplete Spatially Aggregated Data
Description: Enhanced False Discovery Rate (EFDR) is a tool to detect anomalies
in an image. The image is first transformed into the wavelet domain in
order to decorrelate any noise components, following which the coefficients
at each resolution are standardised. Statistical tests (in a multiple
hypothesis testing setting) are then carried out to find the anomalies. The
power of EFDR exceeds that of standard FDR, which would carry out tests on
every wavelet coefficient: EFDR choose which wavelets to test based on a
criterion described in Shen et al. (2002). The package also provides
elementary tools to interpolate spatially irregular data onto a grid of the
required size. The work is based on Shen, X., Huang, H.-C., and Cressie, N.
'Nonparametric hypothesis testing for a spatial signal.' Journal of the
American Statistical Association 97.460 (2002): 1122-1140.
Author: Andrew Zammit-Mangion [aut, cre],
Hsin-Cheng Huang [aut]
Maintainer: Andrew Zammit-Mangion <andrewzm@gmail.com>
Diff between EFDR versions 1.0 dated 2019-05-20 and 1.2 dated 2021-04-18
DESCRIPTION | 18 ++-- MD5 | 30 +++--- R/EFDR_functions.R | 4 build/vignette.rds |binary inst/CITATION | 2 inst/doc/EFDR_SST.Rmd | 16 +-- inst/doc/EFDR_SST.html | 14 +-- inst/doc/EFDR_documents.html | 186 +++++++++++++++++++++++++++++++++++-------- man/EFDR.Rd | 1 man/df.to.mat.Rd | 2 man/diagnostic.table.Rd | 4 man/nei.efdr.Rd | 2 man/regrid.Rd | 15 ++- man/test.efdr.condsim.Rd | 18 +++- man/test_image.Rd | 3 man/wavelet-test.Rd | 12 ++ 16 files changed, 231 insertions(+), 96 deletions(-)
Title: Analyze Cricket Performances Based on Data from Cricsheet
Description: Analyzing performances of cricketers and cricket teams
based on 'yaml' match data from Cricsheet <https://cricsheet.org/>.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between yorkr versions 0.0.20 dated 2021-04-09 and 0.0.21 dated 2021-04-18
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/convertAllYaml2RDataframesT20.R | 5 ----- R/convertYaml2RDataframeT20.R | 5 ----- R/getIPLBattingDetails.R | 2 +- R/getIPLBowlingDetails.R | 2 +- R/saveAllMatchesAllOppositionIPLT20.R | 2 +- R/saveAllMatchesBetween2IPLTeams.R | 2 +- R/teamBattingPerfDetails.R | 1 + R/teamBowlingPerfDetails.R | 1 + 10 files changed, 19 insertions(+), 27 deletions(-)
Title: PKPD, PBPK, and Systems Pharmacology Modeling Tools
Description: Complete work flow for the analysis of pharmacokinetic pharmacodynamic (PKPD), physiologically-based pharmacokinetic (PBPK) and systems pharmacology models including: creation of ordinary differential equation-based models, pooled parameter estimation, individual/population based simulations, rule-based simulations for clinical trial design and modeling assays, deployment with a customizable 'Shiny' app, and non-compartmental analysis. System-specific analysis templates can be generated and each element includes integrated reporting with 'PowerPoint' and 'Word'.
Author: John Harrold [aut, cre] (<https://orcid.org/0000-0003-2052-4373>)
Maintainer: John Harrold <john.m.harrold@gmail.com>
Diff between ubiquity versions 1.0.3 dated 2020-09-13 and 1.0.4 dated 2021-04-18
ubiquity-1.0.3/ubiquity/man/system_report_fetch.Rd |only ubiquity-1.0.3/ubiquity/man/tic.Rd |only ubiquity-1.0.3/ubiquity/man/toc.Rd |only ubiquity-1.0.4/ubiquity/DESCRIPTION | 22 ubiquity-1.0.4/ubiquity/MD5 | 121 ubiquity-1.0.4/ubiquity/NAMESPACE | 73 ubiquity-1.0.4/ubiquity/R/ubiquity.r | 3091 +++++++--- ubiquity-1.0.4/ubiquity/README.md | 15 ubiquity-1.0.4/ubiquity/build/partial.rdb |only ubiquity-1.0.4/ubiquity/build/vignette.rds |binary ubiquity-1.0.4/ubiquity/inst/doc/Deployment.html | 23 ubiquity-1.0.4/ubiquity/inst/doc/Estimation.html | 23 ubiquity-1.0.4/ubiquity/inst/doc/Language.html | 14 ubiquity-1.0.4/ubiquity/inst/doc/NCA.R | 81 ubiquity-1.0.4/ubiquity/inst/doc/NCA.Rmd | 156 ubiquity-1.0.4/ubiquity/inst/doc/NCA.html | 317 - ubiquity-1.0.4/ubiquity/inst/doc/Reporting.R | 132 ubiquity-1.0.4/ubiquity/inst/doc/Reporting.Rmd | 255 ubiquity-1.0.4/ubiquity/inst/doc/Reporting.html | 597 + ubiquity-1.0.4/ubiquity/inst/doc/Simulation.html | 37 ubiquity-1.0.4/ubiquity/inst/doc/Titration.Rmd | 2 ubiquity-1.0.4/ubiquity/inst/doc/Titration.html | 43 ubiquity-1.0.4/ubiquity/inst/ubinc/perl/build_system.pl | 8 ubiquity-1.0.4/ubiquity/inst/ubinc/scripts/analysis_nca_md.R | 125 ubiquity-1.0.4/ubiquity/inst/ubinc/scripts/analysis_nca_sd.R | 37 ubiquity-1.0.4/ubiquity/inst/ubinc/scripts/analysis_nca_sparse.R | 7 ubiquity-1.0.4/ubiquity/inst/ubinc/scripts/make_report_PowerPoint.R | 50 ubiquity-1.0.4/ubiquity/inst/ubinc/scripts/make_report_Word.R | 194 ubiquity-1.0.4/ubiquity/inst/ubinc/scripts/ubiquity_fcns.R | 3091 +++++++--- ubiquity-1.0.4/ubiquity/inst/ubinc/templates/org_functions.R | 233 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/r_analysis_estimation.R | 8 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/r_components.R | 202 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/r_gui_save.R | 10 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/r_nca.R | 9 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/r_simulation_driver.R | 9 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/r_system_report.Rmd | 5 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/report.docx |binary ubiquity-1.0.4/ubiquity/inst/ubinc/templates/report.pptx |binary ubiquity-1.0.4/ubiquity/inst/ubinc/templates/ubiquity_server.R | 1 ubiquity-1.0.4/ubiquity/inst/ubinc/templates/ubiquity_server_custom.R | 7 ubiquity-1.0.4/ubiquity/man/md_to_officer.Rd | 41 ubiquity-1.0.4/ubiquity/man/md_to_oo.Rd |only ubiquity-1.0.4/ubiquity/man/system_define_cohort.Rd | 8 ubiquity-1.0.4/ubiquity/man/system_fetch_nca.Rd |only ubiquity-1.0.4/ubiquity/man/system_fetch_nca_columns.Rd |only ubiquity-1.0.4/ubiquity/man/system_fetch_report.Rd |only ubiquity-1.0.4/ubiquity/man/system_fetch_report_format.Rd |only ubiquity-1.0.4/ubiquity/man/system_fetch_template.Rd | 2 ubiquity-1.0.4/ubiquity/man/system_load_data.Rd | 2 ubiquity-1.0.4/ubiquity/man/system_log_init.Rd | 2 ubiquity-1.0.4/ubiquity/man/system_nca_parameters_meta.Rd |only ubiquity-1.0.4/ubiquity/man/system_nca_run.Rd | 11 ubiquity-1.0.4/ubiquity/man/system_nca_summary.Rd |only ubiquity-1.0.4/ubiquity/man/system_new.Rd | 6 ubiquity-1.0.4/ubiquity/man/system_new_list.Rd | 2 ubiquity-1.0.4/ubiquity/man/system_report_doc_add_content.Rd | 19 ubiquity-1.0.4/ubiquity/man/system_report_doc_set_ph.Rd | 6 ubiquity-1.0.4/ubiquity/man/system_report_nca.Rd | 2 ubiquity-1.0.4/ubiquity/man/system_report_ph_content.Rd | 5 ubiquity-1.0.4/ubiquity/man/system_report_set.Rd | 2 ubiquity-1.0.4/ubiquity/man/system_set_option.Rd | 198 ubiquity-1.0.4/ubiquity/man/system_view.Rd | 7 ubiquity-1.0.4/ubiquity/vignettes/NCA.Rmd | 156 ubiquity-1.0.4/ubiquity/vignettes/NCA_presim.RData |binary ubiquity-1.0.4/ubiquity/vignettes/Reporting.Rmd | 255 ubiquity-1.0.4/ubiquity/vignettes/Titration.Rmd | 2 ubiquity-1.0.4/ubiquity/vignettes/Titration_presim.RData |binary 67 files changed, 7223 insertions(+), 2501 deletions(-)
Title: Extra String Manipulation Functions
Description: There are some things that I wish were easier with
the 'stringr' or 'stringi' packages. The foremost of these is the
extraction of numbers from strings. 'stringr' and 'stringi' make you
figure out the regular expression for yourself; 'strex' takes care of
this for you. There are many other handy functionalities in 'strex'.
Contributions to this package are encouraged: it is intended as a
miscellany of string manipulation functions that cannot be found in
'stringi' or 'stringr'.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between strex versions 1.4.1 dated 2020-10-17 and 1.4.2 dated 2021-04-18
strex-1.4.1/strex/cleanup |only strex-1.4.1/strex/cleanup.win |only strex-1.4.2/strex/DESCRIPTION | 7 - strex-1.4.2/strex/MD5 | 30 +++---- strex-1.4.2/strex/NEWS.md | 9 +- strex-1.4.2/strex/R/arg-match.R | 11 +- strex-1.4.2/strex/R/trim.R | 27 ++---- strex-1.4.2/strex/R/utils.R | 15 +++ strex-1.4.2/strex/build/partial.rdb |binary strex-1.4.2/strex/inst/WORDLIST | 18 ++++ strex-1.4.2/strex/inst/doc/alphordering-numbers.html | 75 ++----------------- strex-1.4.2/strex/inst/doc/argument-matching.html | 75 ++----------------- strex-1.4.2/strex/inst/doc/before-and-after.html | 75 ++----------------- strex-1.4.2/strex/inst/doc/important-miscellany.html | 75 ++----------------- strex-1.4.2/strex/inst/doc/numbers-in-strings.html | 75 ++----------------- strex-1.4.2/strex/man/str_trim_anything.Rd | 1 strex-1.4.2/strex/tests/testthat/test-trim.R | 32 +++++--- 17 files changed, 148 insertions(+), 377 deletions(-)
Title: Sparse VAR/VECM Models Estimation
Description: A wrapper for sparse VAR/VECM time series models estimation
using penalties like ENET (Elastic Net), SCAD (Smoothly Clipped
Absolute Deviation) and MCP (Minimax Concave Penalty).
Based on the work of Sumanta Basu and George Michailidis
<doi:10.1214/15-AOS1315>.
Author: Simone Vazzoler [aut, cre]
Maintainer: Simone Vazzoler <svazzole@gmail.com>
Diff between sparsevar versions 0.0.11 dated 2019-08-19 and 0.1.0 dated 2021-04-18
sparsevar-0.0.11/sparsevar/inst/doc/using.html |only sparsevar-0.0.11/sparsevar/vignettes/using_cache/latex/unnamed-chunk-4_3897a5d4efc534c41ac499bc2c9439b6.RData |only sparsevar-0.0.11/sparsevar/vignettes/using_cache/latex/unnamed-chunk-4_3897a5d4efc534c41ac499bc2c9439b6.rdb |only sparsevar-0.0.11/sparsevar/vignettes/using_cache/latex/unnamed-chunk-4_3897a5d4efc534c41ac499bc2c9439b6.rdx |only sparsevar-0.0.11/sparsevar/vignettes/using_cache/latex/unnamed-chunk-5_18789e32a330a381ec44593f5f2f6b41.RData |only sparsevar-0.0.11/sparsevar/vignettes/using_cache/latex/unnamed-chunk-5_18789e32a330a381ec44593f5f2f6b41.rdb |only sparsevar-0.0.11/sparsevar/vignettes/using_cache/latex/unnamed-chunk-5_18789e32a330a381ec44593f5f2f6b41.rdx |only sparsevar-0.1.0/sparsevar/DESCRIPTION | 18 sparsevar-0.1.0/sparsevar/MD5 | 90 +- sparsevar-0.1.0/sparsevar/NEWS.md | 10 sparsevar-0.1.0/sparsevar/R/createSparseMatrix.R | 72 - sparsevar-0.1.0/sparsevar/R/fitVAR.R | 250 ++--- sparsevar-0.1.0/sparsevar/R/fitVARX.R | 50 - sparsevar-0.1.0/sparsevar/R/fitVECM.R | 106 +- sparsevar-0.1.0/sparsevar/R/impulseResponse.R | 439 ++++------ sparsevar-0.1.0/sparsevar/R/mcSimulations.R | 82 - sparsevar-0.1.0/sparsevar/R/plotIRF.R | 137 +-- sparsevar-0.1.0/sparsevar/R/plotMatrix.R | 126 +- sparsevar-0.1.0/sparsevar/R/simulateVAR.R | 76 - sparsevar-0.1.0/sparsevar/R/simulateVARX.R | 144 +-- sparsevar-0.1.0/sparsevar/R/sparsevar.R | 16 sparsevar-0.1.0/sparsevar/R/timeSlice.R | 123 +- sparsevar-0.1.0/sparsevar/R/twoStepOLS.R | 63 - sparsevar-0.1.0/sparsevar/R/utils.R | 62 - sparsevar-0.1.0/sparsevar/R/utilsVAR.R | 153 +-- sparsevar-0.1.0/sparsevar/README.md | 9 sparsevar-0.1.0/sparsevar/build/vignette.rds |binary sparsevar-0.1.0/sparsevar/inst/doc/using.R | 22 sparsevar-0.1.0/sparsevar/inst/doc/using.Rmd | 2 sparsevar-0.1.0/sparsevar/inst/doc/using.pdf |only sparsevar-0.1.0/sparsevar/man/checkImpulseZero.Rd | 2 sparsevar-0.1.0/sparsevar/man/computeForecasts.Rd | 4 sparsevar-0.1.0/sparsevar/man/createSparseMatrix.Rd | 30 sparsevar-0.1.0/sparsevar/man/errorBandsIRF.Rd | 2 sparsevar-0.1.0/sparsevar/man/fitVAR.Rd | 24 sparsevar-0.1.0/sparsevar/man/fitVARX.Rd | 2 sparsevar-0.1.0/sparsevar/man/fitVECM.Rd | 4 sparsevar-0.1.0/sparsevar/man/informCrit.Rd | 2 sparsevar-0.1.0/sparsevar/man/mcSimulations.Rd | 19 sparsevar-0.1.0/sparsevar/man/multiplot.Rd | 2 sparsevar-0.1.0/sparsevar/man/plotIRFGrid.Rd | 4 sparsevar-0.1.0/sparsevar/man/plotMatrix.Rd | 2 sparsevar-0.1.0/sparsevar/man/plotVAR.Rd | 2 sparsevar-0.1.0/sparsevar/man/plotVECM.Rd | 2 sparsevar-0.1.0/sparsevar/man/simulateVARX.Rd | 8 sparsevar-0.1.0/sparsevar/man/sparsevar.Rd | 5 sparsevar-0.1.0/sparsevar/vignettes/using.Rmd | 2 sparsevar-0.1.0/sparsevar/vignettes/using_cache/latex/unnamed-chunk-4_caa9654a9801b046bd4ae6f630181167.RData |only sparsevar-0.1.0/sparsevar/vignettes/using_cache/latex/unnamed-chunk-4_caa9654a9801b046bd4ae6f630181167.rdb |only sparsevar-0.1.0/sparsevar/vignettes/using_cache/latex/unnamed-chunk-4_caa9654a9801b046bd4ae6f630181167.rdx |only sparsevar-0.1.0/sparsevar/vignettes/using_cache/latex/unnamed-chunk-5_2975735d5dba207b1ee5041b0b610e12.RData |only sparsevar-0.1.0/sparsevar/vignettes/using_cache/latex/unnamed-chunk-5_2975735d5dba207b1ee5041b0b610e12.rdb |only sparsevar-0.1.0/sparsevar/vignettes/using_cache/latex/unnamed-chunk-5_2975735d5dba207b1ee5041b0b610e12.rdx |only 53 files changed, 1014 insertions(+), 1152 deletions(-)
Title: Random Subspace Ensemble Classification and Variable Screening
Description: We propose a general ensemble classification framework, RaSE algorithm, for the sparse classification problem. In RaSE algorithm, for each weak learner, some random subspaces are generated and the optimal one is chosen to train the model on the basis of some criterion. To be adapted to the problem, a novel criterion, ratio information criterion (RIC) is put up with based on Kullback-Leibler divergence. Besides minimizing RIC, multiple criteria can be applied, for instance, minimizing extended Bayesian information criterion (eBIC), minimizing training error, minimizing the validation error, minimizing the cross-validation error, minimizing leave-one-out error. There are various choices of base classifier, for instance, linear discriminant analysis, quadratic discriminant analysis, k-nearest neighbour, logistic regression, decision trees, random forest, support vector machines. RaSE algorithm can also be applied to do feature ranking, providing us the importance of each feature based on the selected percentage in multiple subspaces. RaSE framework can be extended to the general prediction framework, including both classification and regression. We can use the selected percentages of variables for variable screening. The latest version added the variable screening function for both regression and classification problems.
Author: Ye Tian [aut, cre] and Yang Feng [aut]
Maintainer: Ye Tian <ye.t@columbia.edu>
Diff between RaSEn versions 2.0.0 dated 2021-01-15 and 2.1.0 dated 2021-04-18
DESCRIPTION | 12 ++++---- MD5 | 46 ++++++++++++++++++-------------- NAMESPACE | 2 + R/RaModel.R | 59 +++++++++++++++++++++++++++++++++++------- R/RaPlot.R | 3 ++ R/RaRank.R | 6 ++-- R/RaScreen.R | 66 ++++++++++++++++++++++++++++++++++------------- R/RaSubsetsc_c.R | 21 ++++++++++++++ R/RaSubsetsc_rg.R | 21 ++++++++++++++ R/Rase.R | 15 +++++++--- R/colon.R |only R/predict.RaSE.R | 7 +++- R/rat.R |only data |only inst/doc/RaSEn-demo.Rmd | 2 - inst/doc/RaSEn-demo.pdf |binary man/RaModel.Rd | 12 ++++---- man/RaPlot.Rd | 3 ++ man/RaRank.Rd | 5 +-- man/RaScreen.Rd | 13 ++++----- man/Rase.Rd | 12 ++++---- man/colon.Rd |only man/predict.RaSE.Rd | 7 +++- man/rat.Rd |only vignettes/RaSEn-demo.Rmd | 2 - vignettes/reference.bib | 17 +++++++----- 26 files changed, 238 insertions(+), 93 deletions(-)
Title: Modeling and Analysis of Stochastic Systems
Description: Compute important quantities when we consider stochastic systems that are observed continuously. Such as, Cost model, Limiting distribution, Transition matrix, Transition distribution and Occupancy matrix. The methods are described, for example, Ross S. (2014), Introduction to Probability Models. Eleven Edition. Academic Press.
Author: Carlos Alberto Cardozo Delgado
Maintainer: Carlos Alberto Cardozo Delgado <cardozorpackages@gmail.com>
Diff between modesto versions 0.1.2 dated 2019-01-04 and 0.1.3 dated 2021-04-18
modesto-0.1.2/modesto/R/Pt.R |only modesto-0.1.2/modesto/man/Pt.Rd |only modesto-0.1.3/modesto/DESCRIPTION | 15 +++++----- modesto-0.1.3/modesto/MD5 | 36 +++++++++++++------------ modesto-0.1.3/modesto/NAMESPACE | 28 ++++++++++--------- modesto-0.1.3/modesto/R/ETCt.R | 8 ++++- modesto-0.1.3/modesto/R/LRC.R | 4 ++ modesto-0.1.3/modesto/R/LimDist.R | 6 +--- modesto-0.1.3/modesto/R/Mt.R | 6 +++- modesto-0.1.3/modesto/R/PXt.R | 10 +++++- modesto-0.1.3/modesto/R/Pt2.R |only modesto-0.1.3/modesto/R/RcppExports.R |only modesto-0.1.3/modesto/R/modesto-package.R |only modesto-0.1.3/modesto/R/summary.R | 5 ++- modesto-0.1.3/modesto/man/ETCt.Rd | 2 - modesto-0.1.3/modesto/man/LimDist.Rd | 2 - modesto-0.1.3/modesto/man/Mt.Rd | 2 - modesto-0.1.3/modesto/man/PXt.Rd | 2 - modesto-0.1.3/modesto/man/Pt2.Rd |only modesto-0.1.3/modesto/man/summary.modesto.Rd | 5 +++ modesto-0.1.3/modesto/src |only modesto-0.1.3/modesto/tests/testthat/test_Pt.R | 2 - 22 files changed, 82 insertions(+), 51 deletions(-)
Title: Probabilistic Supervised Learning for 'mlr3'
Description: Provides extensions for probabilistic supervised
learning for 'mlr3'. This includes extending the regression task to
probabilistic and interval regression, adding a survival task, and
other specialized models, predictions, and measures. mlr3extralearners is available
from <https://github.com/mlr-org/mlr3extralearners>.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>),
Franz Kiraly [aut],
Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>),
Nurul Ain Toha [ctb],
Andreas Bender [ctb] (<https://orcid.org/0000-0001-5628-8611>)
Maintainer: Raphael Sonabend <raphaelsonabend@gmail.com>
Diff between mlr3proba versions 0.3.2 dated 2021-03-15 and 0.4.0 dated 2021-04-18
mlr3proba-0.3.2/mlr3proba/R/MeasureSurvBeggC.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvGonenHellersC.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvGrafSE.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvHarrellC.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvIntLoglossSE.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvLoglossSE.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvMAESE.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvMSESE.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvRMSESE.R |only mlr3proba-0.3.2/mlr3proba/R/MeasureSurvUnoC.R |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.beggC.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.gonenC.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.grafSE.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.harrellC.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.intloglossSE.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.logloss_se.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.maeSE.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.mseSE.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.rmseSE.Rd |only mlr3proba-0.3.2/mlr3proba/man/mlr_measures_surv.unoC.Rd |only mlr3proba-0.4.0/mlr3proba/DESCRIPTION | 36 +-- mlr3proba-0.4.0/mlr3proba/MD5 | 120 ++++------ mlr3proba-0.4.0/mlr3proba/NAMESPACE | 11 mlr3proba-0.4.0/mlr3proba/NEWS.md | 9 mlr3proba-0.4.0/mlr3proba/R/MeasureSurv.R | 2 mlr3proba-0.4.0/mlr3proba/R/MeasureSurvCindex.R | 7 mlr3proba-0.4.0/mlr3proba/R/MeasureSurvDCalibration.R |only mlr3proba-0.4.0/mlr3proba/R/MeasureSurvGraf.R | 54 +++- mlr3proba-0.4.0/mlr3proba/R/MeasureSurvIntLogloss.R | 72 +++--- mlr3proba-0.4.0/mlr3proba/R/MeasureSurvIntegrated.R | 42 +++ mlr3proba-0.4.0/mlr3proba/R/MeasureSurvLogloss.R | 49 +++- mlr3proba-0.4.0/mlr3proba/R/MeasureSurvSchmid.R | 51 +++- mlr3proba-0.4.0/mlr3proba/R/RcppExports.R | 4 mlr3proba-0.4.0/mlr3proba/R/bibentries.R | 11 mlr3proba-0.4.0/mlr3proba/R/integrated_scores.R | 19 + mlr3proba-0.4.0/mlr3proba/R/pecs.R | 68 ++++- mlr3proba-0.4.0/mlr3proba/R/surv_measures.R | 19 + mlr3proba-0.4.0/mlr3proba/R/zzz.R | 37 --- mlr3proba-0.4.0/mlr3proba/build/partial.rdb |binary mlr3proba-0.4.0/mlr3proba/man/MeasureSurv.Rd | 2 mlr3proba-0.4.0/mlr3proba/man/MeasureSurvIntegrated.Rd | 23 + mlr3proba-0.4.0/mlr3proba/man/mlr3proba-package.Rd | 2 mlr3proba-0.4.0/mlr3proba/man/mlr_measures_dens.logloss.Rd | 2 mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.calib_alpha.Rd | 18 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.calib_beta.Rd | 16 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.chambless_auc.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.cindex.Rd | 18 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.dcalib.Rd |only mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.graf.Rd | 53 +++- mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.hung_auc.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.intlogloss.Rd | 50 ++-- mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.logloss.Rd | 47 ++- mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.mae.Rd | 14 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.mse.Rd | 14 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.nagelk_r2.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.oquigley_r2.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.rmse.Rd | 16 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.schmid.Rd | 55 +++- mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.song_auc.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.song_tnr.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.song_tpr.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.uno_auc.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.uno_tnr.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.uno_tpr.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/mlr_measures_surv.xu_r2.Rd | 13 - mlr3proba-0.4.0/mlr3proba/man/pecs.Rd | 36 ++- mlr3proba-0.4.0/mlr3proba/src/RcppExports.cpp | 10 mlr3proba-0.4.0/mlr3proba/src/survival_scores.cpp | 37 ++- mlr3proba-0.4.0/mlr3proba/tests/testthat/test_mlr_measures.R | 32 +- mlr3proba-0.4.0/mlr3proba/tests/testthat/test_mlr_measures_MeasureSurvIntegrated.R | 28 ++ mlr3proba-0.4.0/mlr3proba/tests/testthat/test_mlr_measures_MeasureSurvLogloss.R | 6 mlr3proba-0.4.0/mlr3proba/tests/testthat/test_pecs.R | 2 72 files changed, 668 insertions(+), 567 deletions(-)
Title: Graceful 'ggplot'-Based Graphics and Other Functions for GAMs
Fitted Using 'mgcv'
Description: Graceful 'ggplot'-based graphics and utility functions for working with generalized additive models (GAMs) fitted using the 'mgcv' package. Provides a reimplementation of the plot() method for GAMs that 'mgcv' provides, as well as 'tidyverse' compatible representations of estimated smooths.
Author: Gavin L. Simpson [aut, cre] (<https://orcid.org/0000-0002-9084-8413>),
Henrik Singmann [ctb] (<https://orcid.org/0000-0002-4842-3657>)
Maintainer: Gavin L. Simpson <ucfagls@gmail.com>
Diff between gratia versions 0.5.1 dated 2021-01-23 and 0.6.0 dated 2021-04-18
DESCRIPTION | 12 MD5 | 269 NAMESPACE | 29 NEWS.md | 81 R/add-methods.R | 86 R/compare-smooths.R |only R/derivatives.R | 39 R/diagnose.R | 364 R/draw-methods.R | 80 R/edf.R |only R/evaluate_smooth.R | 4 R/evaluate_smooth2.R | 9 R/family-utils.R | 222 R/penalty.R | 36 R/posterior-samples.R | 42 R/utililties.R | 2 R/variance-components.R |only build/partial.rdb |binary man/add_confint.Rd |only man/add_constant.Rd | 18 man/appraise.Rd | 24 man/compare_smooths.Rd |only man/derivatives.Rd | 13 man/draw.compare_smooths.Rd |only man/draw.derivatives.Rd | 26 man/draw.difference_smooth.Rd | 3 man/draw.gam.Rd | 24 man/draw.mgcv_smooth.Rd | 2 man/draw.penalty_df.Rd | 2 man/draw.smooth_samples.Rd | 22 man/edf.Rd |only man/figures/README-appraise-figure-1.png |binary man/figures/README-draw-gam-figure-1.png |binary man/figures/README-draw-gam-figure-2d-1.png |binary man/fitted_samples.Rd |only man/link.Rd | 49 man/penalty.Rd | 6 man/predicted_samples.Rd | 71 man/qq_plot.Rd | 26 man/smooth_estimates.Rd | 3 man/variance_comp.Rd |only man/worm_plot.Rd |only tests/Examples/gratia-Ex.Rout.save | 320 tests/figs/diagnostic-plots/appraise-diagnostic-plots.svg | 2782 - 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tests/figs/draw-methods/issue-22-draw-with-mixed-random-effects.svg | 106 tests/figs/draw-methods/issue-73-draw-uses-fixed-scales-if-asked-for-them.svg | 2769 - tests/figs/qq-plot-methods/qq-plot-data-simulation-pearson-residuals.svg | 440 tests/figs/qq-plot-methods/qq-plot-data-simulation-response-residuals.svg | 444 tests/figs/qq-plot-methods/qq-plot-data-simulation.svg | 440 tests/figs/qq-plot-methods/qq-plot-normality-assumption-pearson-residuals.svg | 425 tests/figs/qq-plot-methods/qq-plot-normality-assumption-response-residuals.svg | 417 tests/figs/qq-plot-methods/qq-plot-normality-assumption.svg | 421 tests/figs/qq-plot-methods/qq-plot-uniform-randomisation-pearson-residuals.svg |only tests/figs/qq-plot-methods/qq-plot-uniform-randomisation-response-residuals.svg |only tests/figs/qq-plot-methods/qq-plot-uniform-randomisation.svg |only tests/figs/qq-plot-methods/worm-plot-data-simulation-pearson-residuals.svg |only tests/figs/qq-plot-methods/worm-plot-data-simulation-response-residuals.svg |only tests/figs/qq-plot-methods/worm-plot-data-simulation.svg |only tests/figs/qq-plot-methods/worm-plot-direct-randomisation-pearson-residuals.svg |only tests/figs/qq-plot-methods/worm-plot-direct-randomisation-response-residuals.svg |only tests/figs/qq-plot-methods/worm-plot-direct-randomisation.svg |only tests/figs/qq-plot-methods/worm-plot-normality-assumption-pearson-residuals.svg |only tests/figs/qq-plot-methods/worm-plot-normality-assumption-response-residuals.svg |only tests/figs/qq-plot-methods/worm-plot-normality-assumption.svg |only tests/figs/test-by-variables/continuous-by-variable-smmoth.svg | 902 tests/figs/test-by-variables/draw-gam-user-select-and-parametric-true.svg | 986 tests/figs/test-derivatives-methods |only tests/figs/test-hgam-paper-models/hgam-paper-bird-move-model-1.svg | 172 tests/figs/test-hgam-paper-models/hgam-paper-bird-move-model-2.svg | 184 tests/figs/test-hgam-paper-models/hgam-paper-bird-move-model-3.svg | 1478 tests/figs/test-hgam-paper-models/hgam-paper-bird-move-model-5.svg | 1346 tests/figs/test-hgam-paper-models/hgam-paper-co2-model-1.svg | 384 tests/figs/test-hgam-paper-models/hgam-paper-co2-model-2.svg | 548 tests/figs/test-hgam-paper-models/hgam-paper-co2-model-3.svg | 4160 - tests/figs/test-hgam-paper-models/hgam-paper-co2-model-4.svg | 294 tests/figs/test-hgam-paper-models/hgam-paper-co2-model-5.svg | 3770 - tests/figs/test-hgam-paper-models/hgam-paper-zoop-model-4.svg | 2502 - tests/figs/test-hgam-paper-models/hgam-paper-zoop-model-5.svg |17280 +++---- tests/figs/worm-plot-methods |only tests/testthat/test-derivatives.R | 61 tests/testthat/test-draw-methods.R | 22 tests/testthat/test-evaluate-smooth-methods.R | 8 tests/testthat/test-family-utils.R | 123 tests/testthat/test-qq-plot.R | 26 tests/testthat/test-simulate-methods.R | 1 tests/testthat/test-worm-plot.R |only 143 files changed, 123221 insertions(+), 106460 deletions(-)
Title: Custom 'xaringan' CSS Themes
Description: Create beautifully color-coordinated and customized
themes for your 'xaringan' slides, without writing any CSS. Complete
your slide theme with 'ggplot2' themes that match the font and colors
used in your slides. Customized styles can be created directly in
your slides' 'R Markdown' source file or in a separate external
script.
Author: Garrick Aden-Buie [aut, cre] (<https://orcid.org/0000-0002-7111-0077>)
Maintainer: Garrick Aden-Buie <garrick@adenbuie.com>
Diff between xaringanthemer versions 0.3.3 dated 2021-03-04 and 0.3.4 dated 2021-04-17
DESCRIPTION | 7 +++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ tests/testthat/helper-session.R | 13 ++++++++++++- tests/testthat/test-themes.R | 3 +-- 5 files changed, 24 insertions(+), 11 deletions(-)
More information about xaringanthemer at CRAN
Permanent link
Title: Sparse Multi-Type Regularized Feature Modeling
Description: Implementation of the SMuRF algorithm of Devriendt et al. (2021) <doi:10.1016/j.insmatheco.2020.11.010> to fit generalized linear models (GLMs) with multiple types of predictors via regularized maximum likelihood.
Author: Tom Reynkens [aut, cre] (<https://orcid.org/0000-0002-5516-5107>),
Sander Devriendt [aut],
Katrien Antonio [aut]
Maintainer: Tom Reynkens <tomreynkens@hotmail.com>
Diff between smurf versions 1.1.1 dated 2021-03-27 and 1.1.2 dated 2021-04-17
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- build/vignette.rds |binary inst/NEWS.Rd | 7 +++++++ inst/doc/smurf.html | 4 ++-- 5 files changed, 18 insertions(+), 11 deletions(-)
Title: Identification and Classification of the Most Influential Nodes
Description: Contains functions for the classification and ranking of top candidate features, reconstruction of networks from
adjacency matrices and data frames, analysis of the topology of the network
and calculation of centrality measures, and identification of the most
influential nodes. Also, a function is provided for running SIRIR model, which
is the combination of leave-one-out cross validation technique and the conventional SIR model, on a network to unsupervisedly rank the true influence of vertices. Additionally, some functions have been provided for the assessment
of dependence and correlation of two network centrality measures as well as
the conditional probability of deviation from their corresponding means in opposite direction.
Fred Viole and David Nawrocki (2013, ISBN:1490523995).
Csardi G, Nepusz T (2006). "The igraph software package for complex network research." InterJournal, Complex Systems, 1695.
Adopted algorithms and sources are referenced in function document.
Author: Adrian (Abbas) Salavaty [aut, cre], Mirana Ramialison [ths], Peter D. Currie [ths]
Maintainer: Adrian Salavaty <abbas.salavaty@gmail.com>
Diff between influential versions 2.0.1 dated 2020-11-20 and 2.2.0 dated 2021-04-17
DESCRIPTION | 12 MD5 | 43 +- NAMESPACE | 2 NEWS.md | 38 ++ R/functions.R | 430 ++++++++++++++++++++++++++--- README.md | 13 inst/ShinyApps |only inst/doc/Vignettes.R | 45 ++- inst/doc/Vignettes.Rmd | 200 ++++++++++--- inst/doc/Vignettes.html | 647 +++++++++++++++++++++++++++++++++++---------- man/cent_network.vis.Rd | 3 man/comp_manipulate.Rd |only man/diff_data.assembly.Rd | 3 man/exir.Rd | 7 man/exir.vis.Rd | 6 man/hubness.score.Rd | 1 man/influential-package.Rd | 7 man/ivi.Rd | 4 man/ivi.from.indices.Rd | 4 man/runShinyApp.Rd |only man/spreading.score.Rd | 1 vignettes/Vignettes.Rmd | 200 ++++++++++--- 22 files changed, 1347 insertions(+), 319 deletions(-)
Title: Interface to 'fastai'
Description: The 'fastai' <https://docs.fast.ai/index.html> library
simplifies training fast and accurate neural networks
using modern best practices. It is based on research
in to deep learning best practices undertaken
at 'fast.ai', including 'out of the box' support
for vision, text, tabular, audio, time series, and
collaborative filtering models.
Author: Turgut Abdullayev [ctb, cre, cph, aut]
Maintainer: Turgut Abdullayev <turqut.a.314@gmail.com>
Diff between fastai versions 2.0.6 dated 2021-03-27 and 2.0.7 dated 2021-04-17
fastai-2.0.6/fastai/tests/testthat/test-experimental.R |only fastai-2.0.7/fastai/DESCRIPTION | 6 - fastai-2.0.7/fastai/MD5 | 16 +-- fastai-2.0.7/fastai/NEWS.md | 5 + fastai-2.0.7/fastai/R/test.R | 14 +-- fastai-2.0.7/fastai/inst/python/fastaibuilt/bs_finder.py | 70 ++++++--------- fastai-2.0.7/fastai/man/plot_confusion_matrix.Rd | 4 fastai-2.0.7/fastai/man/plot_top_losses.Rd | 9 - fastai-2.0.7/fastai/man/show_batch.Rd | 4 fastai-2.0.7/fastai/tests/testthat/test-collab.R |only 10 files changed, 62 insertions(+), 66 deletions(-)
Title: Bayesian Age-Depth Modelling of Cores Dated by Pb-210
Description: An approach to age-depth modelling that uses Bayesian statistics to reconstruct accumulation histories for 210Pb-dated deposits using prior information. It can combine 210Pb, radiocarbon, and other dates in the chronologies. See Aquino et al. (2018) <doi:10.1007/s13253-018-0328-7>. Note that parts of the code underlying 'rplum' are derived from the 'rbacon' package by the same authors. Subsequent versions of 'rplum' and 'rbacon' are planned to reduce duplication, with 'rplum' importing 'rbacon' instead.
Author: Maarten Blaauw [aut, cre],
J. Andres Christen [aut, ctb, cph],
Marco A. Aquino-Lopez [aut],
Judith Esquivel-Vazquez [ctb],
Oscar M. Gonzalez V. [ctb],
Ted Belding [cph],
James Theiler [cph],
Brian Gough [cph],
Charles Karney [cph]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rplum versions 0.1.5.1 dated 2020-08-11 and 0.2.0 dated 2021-04-17
rplum-0.1.5.1/rplum/R/Bacon.R |only rplum-0.1.5.1/rplum/R/RcppExports.R |only rplum-0.1.5.1/rplum/R/accrate.R |only rplum-0.1.5.1/rplum/R/calc.R |only rplum-0.1.5.1/rplum/R/internal_plots.R |only rplum-0.1.5.1/rplum/R/plots.R |only rplum-0.1.5.1/rplum/R/read_write.R |only rplum-0.1.5.1/rplum/inst/extdata/Cores/HP1C/HP1C_30.bacon |only rplum-0.1.5.1/rplum/inst/extdata/Cores/HP1C/HP1C_30.out |only rplum-0.1.5.1/rplum/inst/extdata/Cores/HP1C/HP1C_30.plum |only rplum-0.1.5.1/rplum/inst/extdata/Cores/HP1C/HP1C_30_ages.txt |only rplum-0.1.5.1/rplum/inst/extdata/Cores/HP1C/HP1C_30_plum.out |only rplum-0.1.5.1/rplum/inst/extdata/Curves |only rplum-0.1.5.1/rplum/man/AgesOfEvents.Rd |only rplum-0.1.5.1/rplum/man/Bacon.Age.d.Rd |only rplum-0.1.5.1/rplum/man/Bacon.Rd |only rplum-0.1.5.1/rplum/man/Bacon.cleanup.Rd |only rplum-0.1.5.1/rplum/man/Bacon.hist.Rd |only rplum-0.1.5.1/rplum/man/Baconvergence.Rd |only rplum-0.1.5.1/rplum/man/accrate.age.Rd |only rplum-0.1.5.1/rplum/man/accrate.age.ghost.Rd |only rplum-0.1.5.1/rplum/man/accrate.depth.Rd |only rplum-0.1.5.1/rplum/man/accrate.depth.ghost.Rd |only rplum-0.1.5.1/rplum/man/age.pMC.Rd |only rplum-0.1.5.1/rplum/man/agemodel.it.Rd |only rplum-0.1.5.1/rplum/man/bacon2clam.Rd |only rplum-0.1.5.1/rplum/man/clam2bacon.Rd |only rplum-0.1.5.1/rplum/man/copyCalibrationCurve.Rd |only rplum-0.1.5.1/rplum/man/flux.age.ghost.Rd |only rplum-0.1.5.1/rplum/man/mix.curves.Rd |only rplum-0.1.5.1/rplum/man/pMC.age.Rd |only rplum-0.1.5.1/rplum/man/proxy.ghost.Rd |only rplum-0.1.5.1/rplum/man/scissors.Rd |only rplum-0.1.5.1/rplum/man/scissors.plum.Rd |only rplum-0.1.5.1/rplum/man/thinner.Rd |only rplum-0.1.5.1/rplum/src |only rplum-0.2.0/rplum/DESCRIPTION | 12 rplum-0.2.0/rplum/MD5 | 105 - rplum-0.2.0/rplum/NAMESPACE | 28 rplum-0.2.0/rplum/NEWS.md | 6 rplum-0.2.0/rplum/R/MCMC.R | 207 +-- rplum-0.2.0/rplum/R/Plum.R | 174 +- rplum-0.2.0/rplum/R/agedepth.R | 223 +-- rplum-0.2.0/rplum/R/calibrate.R | 458 ++---- rplum-0.2.0/rplum/R/calibrate_plum.R | 363 ----- rplum-0.2.0/rplum/R/import.R |only rplum-0.2.0/rplum/R/read_write_plum.R | 745 ++++++----- rplum-0.2.0/rplum/inst/extdata/Cores/HP1C/HP1C_51.bacon |only rplum-0.2.0/rplum/inst/extdata/Cores/HP1C/HP1C_51.out |only rplum-0.2.0/rplum/inst/extdata/Cores/HP1C/HP1C_51.plum |only rplum-0.2.0/rplum/inst/extdata/Cores/HP1C/HP1C_51_ages.txt |only rplum-0.2.0/rplum/inst/extdata/Cores/HP1C/HP1C_51_plum.out |only rplum-0.2.0/rplum/inst/extdata/Cores/HP1C/HP1C_settings.txt |only rplum-0.2.0/rplum/man/A.modelled.Rd | 17 rplum-0.2.0/rplum/man/Plum.Rd | 45 rplum-0.2.0/rplum/man/Plum.cleanup.Rd | 3 rplum-0.2.0/rplum/man/Plum_runs.Rd | 5 rplum-0.2.0/rplum/man/add.dates.Rd | 50 rplum-0.2.0/rplum/man/agedepth.Rd | 81 - rplum-0.2.0/rplum/man/background.Rd |only rplum-0.2.0/rplum/man/calib.plot.Rd | 21 rplum-0.2.0/rplum/man/calib.plumbacon.plot.Rd | 62 rplum-0.2.0/rplum/man/draw.pbmeasured.Rd | 11 rplum-0.2.0/rplum/man/draw.pbmodelled.Rd | 41 rplum-0.2.0/rplum/man/plum.scissors.Rd |only rplum-0.2.0/rplum/man/plum.thinner.Rd |only 66 files changed, 1127 insertions(+), 1530 deletions(-)
Title: MCMC, Particle Filtering, and Programmable Hierarchical Modeling
Description: A system for writing hierarchical statistical models largely
compatible with 'BUGS' and 'JAGS', writing nimbleFunctions to operate models
and do basic R-style math, and compiling both models and nimbleFunctions via
custom-generated C++. 'NIMBLE' includes default methods for MCMC, Monte Carlo
Expectation Maximization, and some other tools. The nimbleFunction system makes
it easy to do things like implement new MCMC samplers from R, customize the
assignment of samplers to different parts of a model from R, and compile the
new samplers automatically via C++ alongside the samplers 'NIMBLE' provides.
'NIMBLE' extends the 'BUGS'/'JAGS' language by making it extensible: New
distributions and functions can be added, including as calls to external
compiled code. Although most people think of MCMC as the main goal of the
'BUGS'/'JAGS' language for writing models, one can use 'NIMBLE' for writing
arbitrary other kinds of model-generic algorithms as well. A full User Manual is
available at <https://r-nimble.org>.
Author: Perry de Valpine [aut],
Christopher Paciorek [aut, cre],
Daniel Turek [aut],
Nick Michaud [aut],
Cliff Anderson-Bergman [aut],
Fritz Obermeyer [aut],
Claudia Wehrhahn Cortes [aut] (Bayesian nonparametrics system),
Abel Rodrìguez [aut] (Bayesian nonparametrics system),
Duncan Temple Lang [aut] (packaging configuration),
Sally Paganin [aut] (reversible jump MCMC),
Jagadish Babu [ctb] (code for the compilation system for an early
version of NIMBLE),
Lauren Ponisio [ctb] (contributions to the cross-validation code),
Peter Sujan [ctb] (multivariate t distribution code)
Maintainer: Christopher Paciorek <paciorek@stat.berkeley.edu>
Diff between nimble versions 0.10.1 dated 2020-11-23 and 0.11.0 dated 2021-04-17
nimble-0.10.1/nimble/inst/tests |only nimble-0.10.1/nimble/man/ModifiedRmmParseKeywords2.Rd |only nimble-0.11.0/nimble/DESCRIPTION | 8 nimble-0.11.0/nimble/INSTALL | 6 nimble-0.11.0/nimble/LICENSE | 2 nimble-0.11.0/nimble/MD5 | 525 +++--- nimble-0.11.0/nimble/NAMESPACE | 3 nimble-0.11.0/nimble/R/BNP_samplers.R | 70 nimble-0.11.0/nimble/R/BUGS_BUGSdecl.R | 8 nimble-0.11.0/nimble/R/BUGS_getDependencies.R | 22 nimble-0.11.0/nimble/R/BUGS_graphNodeMaps.R | 7 nimble-0.11.0/nimble/R/BUGS_model.R | 477 ++++- nimble-0.11.0/nimble/R/BUGS_modelDef.R | 169 -- nimble-0.11.0/nimble/R/BUGS_nimbleGraph.R | 26 nimble-0.11.0/nimble/R/BUGS_readBUGS.R | 19 nimble-0.11.0/nimble/R/BUGS_testBUGS.R | 232 +- nimble-0.11.0/nimble/R/BUGS_utils.R | 4 nimble-0.11.0/nimble/R/CAR.R | 3 nimble-0.11.0/nimble/R/MCEM_build.R | 53 nimble-0.11.0/nimble/R/MCMC_configuration.R | 62 nimble-0.11.0/nimble/R/MCMC_conjugacy.R | 497 +++-- nimble-0.11.0/nimble/R/MCMC_samplers.R | 165 + nimble-0.11.0/nimble/R/MCMC_utils.R | 78 nimble-0.11.0/nimble/R/NF_utils.R | 20 nimble-0.11.0/nimble/R/RCfunction_compile.R | 3 nimble-0.11.0/nimble/R/RCfunction_core.R | 63 nimble-0.11.0/nimble/R/all_utils.R | 6 nimble-0.11.0/nimble/R/config.R | 2 nimble-0.11.0/nimble/R/cppDefs_core.R | 4 nimble-0.11.0/nimble/R/cppDefs_cppProject.R | 8 nimble-0.11.0/nimble/R/cppDefs_nimbleFunction.R | 1 nimble-0.11.0/nimble/R/cppDefs_outputCppFromRparseTree.R | 1 nimble-0.11.0/nimble/R/cppInterfaces_modelValues.R | 4 nimble-0.11.0/nimble/R/cppInterfaces_nimbleFunctions.R | 51 nimble-0.11.0/nimble/R/crossValidation.R | 2 nimble-0.11.0/nimble/R/distributions_processInputList.R | 8 nimble-0.11.0/nimble/R/genCpp_exprClass.R | 3 nimble-0.11.0/nimble/R/genCpp_sizeProcessing.R | 65 nimble-0.11.0/nimble/R/initializeModel.R | 56 nimble-0.11.0/nimble/R/makevars.R | 1 nimble-0.11.0/nimble/R/miscFunctions.R | 27 nimble-0.11.0/nimble/R/nimbleFunction_Rexecution.R | 30 nimble-0.11.0/nimble/R/nimbleFunction_keywordProcessing.R | 17 nimble-0.11.0/nimble/R/nimbleProject.R | 30 nimble-0.11.0/nimble/R/options.R | 43 nimble-0.11.0/nimble/R/types_modelValues.R | 2 nimble-0.11.0/nimble/R/types_nodeFxnVector.R | 3 nimble-0.11.0/nimble/R/types_symbolTable.R | 34 nimble-0.11.0/nimble/R/types_util.R | 71 nimble-0.11.0/nimble/inst/COPYRIGHTS | 4 nimble-0.11.0/nimble/inst/CppCode/dllFinalizer.cpp | 5 nimble-0.11.0/nimble/inst/CppCode/nimDists.cpp | 23 nimble-0.11.0/nimble/inst/CppCode/nimbleGraph.cpp | 359 ++++ nimble-0.11.0/nimble/inst/NEWS | 240 ++ nimble-0.11.0/nimble/inst/include/Eigen/Cholesky | 5 nimble-0.11.0/nimble/inst/include/Eigen/Core | 62 nimble-0.11.0/nimble/inst/include/Eigen/Eigenvalues | 4 nimble-0.11.0/nimble/inst/include/Eigen/Geometry | 1 nimble-0.11.0/nimble/inst/include/Eigen/KLUSupport |only nimble-0.11.0/nimble/inst/include/Eigen/LU | 4 nimble-0.11.0/nimble/inst/include/Eigen/PaStiXSupport | 1 nimble-0.11.0/nimble/inst/include/Eigen/QR | 4 nimble-0.11.0/nimble/inst/include/Eigen/QtAlignedMalloc | 2 nimble-0.11.0/nimble/inst/include/Eigen/SVD | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Cholesky/LDLT.h | 5 nimble-0.11.0/nimble/inst/include/Eigen/src/Cholesky/LLT.h | 27 nimble-0.11.0/nimble/inst/include/Eigen/src/CholmodSupport/CholmodSupport.h | 71 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/ArithmeticSequence.h |only nimble-0.11.0/nimble/inst/include/Eigen/src/Core/ArrayBase.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Assign.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/AssignEvaluator.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/BooleanRedux.h | 44 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/CommaInitializer.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/CoreEvaluators.h | 203 +- nimble-0.11.0/nimble/inst/include/Eigen/src/Core/CoreIterators.h | 5 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/CwiseBinaryOp.h | 5 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/CwiseNullaryOp.h | 40 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/DenseBase.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Diagonal.h | 10 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/DiagonalMatrix.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/DiagonalProduct.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Dot.h | 16 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Fuzzy.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/GeneralProduct.h | 34 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/GenericPacketMath.h | 9 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/GlobalFunctions.h | 50 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/IndexedView.h |only nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Map.h | 15 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/MathFunctions.h | 342 +++- nimble-0.11.0/nimble/inst/include/Eigen/src/Core/MathFunctionsImpl.h | 7 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/MatrixBase.h | 17 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/NestByValue.h | 10 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/NoAlias.h | 3 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/NumTraits.h | 36 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/PlainObjectBase.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/ProductEvaluators.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Random.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Redux.h | 14 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Ref.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Replicate.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/ReturnByValue.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Reverse.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/SelfAdjointView.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/SolveTriangular.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/StableNorm.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/Transpose.h | 10 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/TriangularMatrix.h | 15 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/VectorwiseOp.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/AVX/Complex.h | 36 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/AVX/PacketMath.h | 24 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/AVX512/PacketMath.h | 204 +- nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/AltiVec/Complex.h | 35 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/AltiVec/MathFunctions.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/AltiVec/PacketMath.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/CUDA/Complex.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/CUDA/Half.h | 147 + nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/CUDA/MathFunctions.h | 14 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/CUDA/PacketMath.h | 14 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/CUDA/PacketMathHalf.h | 46 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/CUDA/TypeCasting.h | 8 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/Default/ConjHelper.h |only nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/NEON/Complex.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/NEON/MathFunctions.h | 92 + nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/NEON/PacketMath.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/SSE/Complex.h | 36 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/SSE/PacketMath.h | 66 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/ZVector/Complex.h | 407 +++- nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/ZVector/MathFunctions.h | 105 + nimble-0.11.0/nimble/inst/include/Eigen/src/Core/arch/ZVector/PacketMath.h | 844 ++++++---- nimble-0.11.0/nimble/inst/include/Eigen/src/Core/functors/AssignmentFunctors.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/functors/UnaryFunctors.h | 44 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/GeneralMatrixMatrix.h | 12 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/GeneralMatrixMatrixTriangular_BLAS.h | 8 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/GeneralMatrixMatrix_BLAS.h | 19 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/GeneralMatrixVector.h | 716 ++------ nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/GeneralMatrixVector_BLAS.h | 19 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/SelfadjointMatrixMatrix_BLAS.h | 48 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/SelfadjointMatrixVector_BLAS.h | 9 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/SelfadjointProduct.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/SelfadjointRank2Update.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/TriangularMatrixMatrix.h | 11 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/TriangularMatrixMatrix_BLAS.h | 39 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/TriangularMatrixVector_BLAS.h | 46 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/products/TriangularSolverMatrix_BLAS.h | 40 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/BlasUtil.h | 5 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/Constants.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/DisableStupidWarnings.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/ForwardDeclarations.h | 1 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/IndexedViewHelper.h |only nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/IntegralConstant.h |only nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/MKL_support.h | 19 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/Macros.h | 69 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/Memory.h | 38 nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/Meta.h | 112 - nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/StaticAssert.h | 116 - nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/SymbolicIndex.h |only nimble-0.11.0/nimble/inst/include/Eigen/src/Core/util/XprHelper.h | 16 nimble-0.11.0/nimble/inst/include/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/Geometry/AlignedBox.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Geometry/AngleAxis.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Geometry/ParametrizedLine.h | 39 nimble-0.11.0/nimble/inst/include/Eigen/src/Geometry/Quaternion.h | 29 nimble-0.11.0/nimble/inst/include/Eigen/src/Geometry/Transform.h | 14 nimble-0.11.0/nimble/inst/include/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/Jacobi/Jacobi.h | 261 +-- nimble-0.11.0/nimble/inst/include/Eigen/src/KLUSupport |only nimble-0.11.0/nimble/inst/include/Eigen/src/LU/FullPivLU.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/PaStiXSupport/PaStiXSupport.h | 8 nimble-0.11.0/nimble/inst/include/Eigen/src/PardisoSupport/PardisoSupport.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/QR/ColPivHouseholderQR.h | 1 nimble-0.11.0/nimble/inst/include/Eigen/src/QR/CompleteOrthogonalDecomposition.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/QR/FullPivHouseholderQR.h | 9 nimble-0.11.0/nimble/inst/include/Eigen/src/QR/HouseholderQR.h | 9 nimble-0.11.0/nimble/inst/include/Eigen/src/SVD/BDCSVD.h | 166 + nimble-0.11.0/nimble/inst/include/Eigen/src/SVD/SVDBase.h | 1 nimble-0.11.0/nimble/inst/include/Eigen/src/SparseCore/AmbiVector.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h | 67 nimble-0.11.0/nimble/inst/include/Eigen/src/SparseCore/SparseAssign.h | 4 nimble-0.11.0/nimble/inst/include/Eigen/src/SparseCore/SparseCompressedBase.h | 16 nimble-0.11.0/nimble/inst/include/Eigen/src/SparseCore/SparseCwiseBinaryOp.h | 12 nimble-0.11.0/nimble/inst/include/Eigen/src/SparseCore/SparseSparseProductWithPruning.h | 22 nimble-0.11.0/nimble/inst/include/Eigen/src/SparseQR/SparseQR.h | 2 nimble-0.11.0/nimble/inst/include/Eigen/src/UmfPackSupport/UmfPackSupport.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/misc/blas.h | 6 nimble-0.11.0/nimble/inst/include/Eigen/src/misc/lapacke.h | 9 nimble-0.11.0/nimble/inst/include/Eigen/src/plugins/ArrayCwiseUnaryOps.h | 17 nimble-0.11.0/nimble/inst/include/Eigen/src/plugins/BlockMethods.h | 576 +++++- nimble-0.11.0/nimble/inst/include/Eigen/src/plugins/IndexedViewMethods.h |only nimble-0.11.0/nimble/inst/include/nimble/RcppUtils.h | 2 nimble-0.11.0/nimble/inst/include/nimble/nimbleEigenNimArr.h | 9 nimble-0.11.0/nimble/inst/include/nimble/nimbleGraph.h | 27 nimble-0.11.0/nimble/man/extractControlElement.Rd | 6 nimble-0.11.0/nimble/man/getBound.Rd | 4 nimble-0.11.0/nimble/man/getConditionallyIndependentSets.Rd |only nimble-0.11.0/nimble/man/getParam.Rd | 6 nimble-0.11.0/nimble/man/getSamplesDPmeasure.Rd | 5 nimble-0.11.0/nimble/man/modelBaseClass-class.Rd | 99 - nimble-0.11.0/nimble/man/modelInitialization.Rd | 8 nimble-0.11.0/nimble/man/nimCopy.Rd | 10 nimble-0.11.0/nimble/man/nimble-internal.Rd | 49 nimble-0.11.0/nimble/man/nodeFunctions.Rd | 2 nimble-0.11.0/nimble/man/samplers.Rd | 26 nimble-0.11.0/nimble/man/simNodes.Rd | 4 nimble-0.11.0/nimble/man/testBUGSmodel.Rd | 8 nimble-0.11.0/nimble/src/nimble.cpp | 2 nimble-0.11.0/nimble/tests |only 207 files changed, 6115 insertions(+), 3722 deletions(-)
Title: Text Mining GUI Interface
Description: Graphic interface for text analysis, implement a few methods such as biplots, correspondence analysis, co-occurrence, clustering, topic models, correlations and sentiments.
Author: Conrado Reyes [aut, cre],
Purificacion Galindo [tch]
Maintainer: Conrado Reyes <coreyes@gmail.com>
Diff between TextMiningGUI versions 0.2 dated 2020-12-07 and 0.3 dated 2021-04-17
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/TextMiningGUI.R | 17 ++++++++++------- R/console.R | 23 ++++++++++++----------- 4 files changed, 29 insertions(+), 25 deletions(-)
Title: Measuring Disparity
Description: A modular package for measuring disparity (multidimensional space occupancy). Disparity can be calculated from any matrix defining a multidimensional space. The package provides a set of implemented metrics to measure properties of the space and allows users to provide and test their own metrics (Guillerme (2018) <doi:10.1111/2041-210X.13022>). The package also provides functions for looking at disparity in a serial way (e.g. disparity through time - Guillerme and Cooper (2018) <doi:10.1111/pala.12364>) or per groups as well as visualising the results. Finally, this package provides several statistical tests for disparity analysis.
Author: Thomas Guillerme [aut, cre, cph],
Mark N Puttick [aut, cph]
Maintainer: Thomas Guillerme <guillert@tcd.ie>
Diff between dispRity versions 1.5.0 dated 2020-09-25 and 1.6.0 dated 2021-04-17
dispRity-1.5.0/dispRity/man/get.ancestors.Rd |only dispRity-1.5.0/dispRity/man/nodes.coordinates.Rd |only dispRity-1.6.0/dispRity/DESCRIPTION | 10 dispRity-1.6.0/dispRity/MD5 | 134 +- dispRity-1.6.0/dispRity/NAMESPACE | 16 dispRity-1.6.0/dispRity/NEWS.md | 46 dispRity-1.6.0/dispRity/R/Claddis.ordination.R | 2 dispRity-1.6.0/dispRity/R/boot.matrix.R | 23 dispRity-1.6.0/dispRity/R/char.diff.R | 2 dispRity-1.6.0/dispRity/R/chrono.subsets.R | 26 dispRity-1.6.0/dispRity/R/chrono.subsets_fun.R | 8 dispRity-1.6.0/dispRity/R/clean.data.R | 49 dispRity-1.6.0/dispRity/R/clean.data_fun.R | 19 dispRity-1.6.0/dispRity/R/custom.subsets.R | 26 dispRity-1.6.0/dispRity/R/dispRity-package.R | 70 - dispRity-1.6.0/dispRity/R/dispRity.R | 73 - dispRity-1.6.0/dispRity/R/dispRity.metric.R | 564 ++++++---- dispRity-1.6.0/dispRity/R/dispRity.utilities.R | 145 ++ dispRity-1.6.0/dispRity/R/dispRity_fun.R | 179 ++- dispRity-1.6.0/dispRity/R/dtt.dispRity.R | 10 dispRity-1.6.0/dispRity/R/make.demo.data.R | 4 dispRity-1.6.0/dispRity/R/make.metric.R | 67 - dispRity-1.6.0/dispRity/R/model.test_fun.R | 2 dispRity-1.6.0/dispRity/R/multi.ace.R | 47 dispRity-1.6.0/dispRity/R/multi.ace_fun.R | 41 dispRity-1.6.0/dispRity/R/null.test.R | 8 dispRity-1.6.0/dispRity/R/null.test_fun.R | 16 dispRity-1.6.0/dispRity/R/plot.dispRity.R | 19 dispRity-1.6.0/dispRity/R/plot.dispRity_fun.R | 247 +++- dispRity-1.6.0/dispRity/R/print.dispRity.R | 21 dispRity-1.6.0/dispRity/R/randtest.dispRity.R |only dispRity-1.6.0/dispRity/R/randtest.dispRity_fun.R |only dispRity-1.6.0/dispRity/R/reduce.space.R | 16 dispRity-1.6.0/dispRity/R/reduce.space_fun.R | 10 dispRity-1.6.0/dispRity/R/sanitizing.R | 64 - dispRity-1.6.0/dispRity/R/summary.dispRity.R | 15 dispRity-1.6.0/dispRity/R/summary.dispRity_fun.R | 10 dispRity-1.6.0/dispRity/R/test.dispRity.R | 7 dispRity-1.6.0/dispRity/R/test.metric.R | 49 dispRity-1.6.0/dispRity/R/test.metric_fun.R | 2 dispRity-1.6.0/dispRity/R/tree.age_fun.R | 6 dispRity-1.6.0/dispRity/R/zzz.R | 2 dispRity-1.6.0/dispRity/data/BeckLee_ages.rda |binary dispRity-1.6.0/dispRity/data/BeckLee_disparity.rda |binary dispRity-1.6.0/dispRity/data/BeckLee_mat50.rda |binary dispRity-1.6.0/dispRity/data/BeckLee_mat99.rda |binary dispRity-1.6.0/dispRity/data/BeckLee_tree.rda |binary dispRity-1.6.0/dispRity/data/datalist |only dispRity-1.6.0/dispRity/data/demo_data.rda |only dispRity-1.6.0/dispRity/data/disparity.rda |binary dispRity-1.6.0/dispRity/inst/References.bib | 20 dispRity-1.6.0/dispRity/inst/vignettes/dispRity_workhop_code.Rmd | 87 + dispRity-1.6.0/dispRity/man/BeckLee.Rd | 2 dispRity-1.6.0/dispRity/man/add.tree.Rd |only dispRity-1.6.0/dispRity/man/boot.matrix.Rd | 2 dispRity-1.6.0/dispRity/man/chrono.subsets.Rd | 22 dispRity-1.6.0/dispRity/man/clean.data.Rd | 7 dispRity-1.6.0/dispRity/man/custom.subsets.Rd | 12 dispRity-1.6.0/dispRity/man/demo_data.Rd |only dispRity-1.6.0/dispRity/man/dispRity.Rd | 7 dispRity-1.6.0/dispRity/man/dispRity.metric.Rd | 97 + dispRity-1.6.0/dispRity/man/dtt.dispRity.Rd | 2 dispRity-1.6.0/dispRity/man/fill.dispRity.Rd | 8 dispRity-1.6.0/dispRity/man/make.dispRity.Rd | 4 dispRity-1.6.0/dispRity/man/make.metric.Rd | 11 dispRity-1.6.0/dispRity/man/multi.ace.Rd | 17 dispRity-1.6.0/dispRity/man/n.subsets.Rd |only dispRity-1.6.0/dispRity/man/null.test.Rd | 2 dispRity-1.6.0/dispRity/man/plot.dispRity.Rd | 17 dispRity-1.6.0/dispRity/man/randtest.dispRity.Rd |only dispRity-1.6.0/dispRity/man/reduce.space.Rd | 4 dispRity-1.6.0/dispRity/man/test.dispRity.Rd | 2 dispRity-1.6.0/dispRity/man/test.metric.Rd | 30 73 files changed, 1750 insertions(+), 658 deletions(-)
Title: The R Code Optimizer
Description: Automatically apply different strategies to optimize R code.
'rco' functions take R code as input, and returns R code as output.
Author: Juan Cruz Rodriguez [aut, cre],
Yihui Xie [ctb] (<https://orcid.org/0000-0003-0645-5666>),
Nicolás Wolovick [ctb]
Maintainer: Juan Cruz Rodriguez <jcrodriguez@unc.edu.ar>
Diff between rco versions 1.0.1 dated 2020-02-08 and 1.0.2 dated 2021-04-17
DESCRIPTION | 14 +++++------ MD5 | 30 +++++++++++------------ NEWS.md | 4 +++ R/rco-gui.R | 4 +-- README.md | 42 ++++++++++++++------------------- build/vignette.rds |binary inst/doc/opt-common-subexpr.html | 4 +-- inst/doc/opt-constant-folding.html | 4 +-- inst/doc/opt-constant-propagation.html | 6 ++-- inst/doc/opt-dead-code.html | 6 ++-- inst/doc/opt-dead-expr.html | 6 ++-- inst/doc/opt-dead-store.html | 6 ++-- inst/doc/opt-loop-invariant.html | 6 ++-- man/all_optimizers.Rd | 4 ++- man/max_optimizers.Rd | 4 ++- man/rco_gui.Rd | 4 +-- 16 files changed, 73 insertions(+), 71 deletions(-)
Title: Cleaning Geometries from Spatial Objects
Description: Provides a set of utility tools to inspect spatial objects, facilitate
handling and reporting of topology errors and geometry validity issues.
Finally, it provides a geometry cleaner that will fix all geometry problems,
and eliminate (at least reduce) the likelihood of having issues when doing
spatial data processing.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between cleangeo versions 0.2-3 dated 2019-12-04 and 0.2-4 dated 2021-04-17
DESCRIPTION | 12 ++++++------ MD5 | 18 +++++++++--------- R/cleangeo.R | 4 ++-- README.md | 2 +- inst/doc/quickstart.R | 14 +++++++------- inst/doc/quickstart.Rmd | 2 +- inst/doc/quickstart.html | 15 ++++++++++++--- man/cleangeo.Rd | 5 ++--- man/clgeo_Clean.Rd | 3 +-- vignettes/quickstart.Rmd | 2 +- 10 files changed, 42 insertions(+), 35 deletions(-)
Title: Nonlinear Mixed Effects Models in Population PK/PD
Description: Fit and compare nonlinear mixed-effects models in differential
equations with flexible dosing information commonly seen in pharmacokinetics
and pharmacodynamics (Almquist, Leander, and Jirstrand 2015
<doi:10.1007/s10928-015-9409-1>). Differential equation solving is
by compiled C code provided in the 'RxODE' package
(Wang, Hallow, and James 2015 <doi:10.1002/psp4.12052>).
Author: Matthew Fidler [aut] (<https://orcid.org/0000-0001-8538-6691>),
Yuan Xiong [aut],
Rik Schoemaker [aut] (<https://orcid.org/0000-0002-7538-3005>),
Justin Wilkins [aut] (<https://orcid.org/0000-0002-7099-9396>),
Wenping Wang [aut, cre],
Robert Leary [ctb],
Mason McComb [aut] (<https://orcid.org/0000-0001-9871-8616>),
Mirjam Trame [ctb],
Teun Post [ctb],
Richard Hooijmaijers [aut],
Hadley Wickham [ctb],
Dirk Eddelbuettel [cph],
Johannes Pfeifer [ctb],
Robert B. Schnabel [ctb],
Elizabeth Eskow [ctb],
Emmanuelle Comets [ctb],
Audrey Lavenu [ctb],
Marc Lavielle [ctb],
David Ardia [cph],
Daniel C. Dillon [ctb],
Katharine Mullen [cph],
Ben Goodrich [ctb]
Maintainer: Wenping Wang <wwang8198@gmail.com>
Diff between nlmixr versions 2.0.3 dated 2021-04-09 and 2.0.4 dated 2021-04-17
nlmixr-2.0.3/nlmixr/tests/testthat/test-saem-theo_sd.rds |only nlmixr-2.0.4/nlmixr/DESCRIPTION | 11 +-- nlmixr-2.0.4/nlmixr/MD5 | 25 ++++--- nlmixr-2.0.4/nlmixr/NEWS.md | 21 +++++- nlmixr-2.0.4/nlmixr/R/foceiFit.R | 13 +++- nlmixr-2.0.4/nlmixr/R/nlmixr.R | 32 +++++++++- nlmixr-2.0.4/nlmixr/R/ui.R | 48 ++++++++++----- nlmixr-2.0.4/nlmixr/inst/tools/workaround.R | 13 ++++ nlmixr-2.0.4/nlmixr/src/neldermead.cpp | 10 +-- nlmixr-2.0.4/nlmixr/src/saem.cpp | 33 +++++----- nlmixr-2.0.4/nlmixr/tests/testthat/test-307.R | 3 nlmixr-2.0.4/nlmixr/tests/testthat/test-issue-501.R |only nlmixr-2.0.4/nlmixr/tests/testthat/test-issue-502.R |only nlmixr-2.0.4/nlmixr/tests/testthat/test-issue-503.R |only nlmixr-2.0.4/nlmixr/tests/testthat/test-saem-theo_sd.R | 5 + nlmixr-2.0.4/nlmixr/tests/testthat/test-saem-theo_sd.qs |only 16 files changed, 155 insertions(+), 59 deletions(-)
Title: Partially Separable Quasi-Newton
Description: Provides quasi-Newton methods to minimize partially separable
functions. The methods are largely described by
Nocedal and Wright (2006) <doi:10.1007/978-0-387-40065-5>.
Author: Benjamin Christoffersen [cre, aut]
(<https://orcid.org/0000-0002-7182-1346>)
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>
Diff between psqn versions 0.1.4 dated 2020-11-26 and 0.2.0 dated 2021-04-17
DESCRIPTION | 17 MD5 | 52 NAMESPACE | 1 NEWS |only R/RcppExports.R | 151 + R/psqn-package.R | 8 inst/doc/psqn.html | 2692 ++++++++++++++++----------- inst/doc/quick-intro.html | 380 ++- inst/generic_example.cpp |only inst/include/lp.h | 117 - inst/include/psqn-Rcpp-wrapper.h |only inst/include/psqn-bfgs.h | 26 inst/include/psqn-misc.h | 37 inst/include/psqn-reporter.h | 19 inst/include/psqn.h | 1952 ++++++++++++++----- inst/mlogit-ex.cpp | 49 inst/poly-ex.cpp | 21 man/psqn-package.Rd | 11 man/psqn.Rd | 31 man/psqn_generic.Rd |only src/RcppExports.cpp | 31 src/r-api.cpp | 367 +++ src/test-lp.cpp | 29 tests/testthat/GLM-generic-data.RDS |only tests/testthat/mlogit-ex-hess-res.RDS |only tests/testthat/psqn_generic-glm-hess-res.RDS |only tests/testthat/psqn_generic-glm-res.RDS |only tests/testthat/psqn_generic-glmm-res.RDS |only tests/testthat/test-R-api.R | 8 tests/testthat/test-cpp-api.R | 17 tests/testthat/test-poly-ex.R | 148 - tests/testthat/test-psqn-generic.R |only 32 files changed, 4292 insertions(+), 1872 deletions(-)
Title: Fast Extraction from Raster Datasets using Polygons
Description: Provides a replacement for the 'extract' function from the 'raster' package
that is suitable for extracting raster values using 'sf' polygons.
Author: Daniel Baston [aut, cre],
ISciences, LLC [cph]
Maintainer: Daniel Baston <dbaston@isciences.com>
Diff between exactextractr versions 0.5.1 dated 2020-11-20 and 0.6.0 dated 2021-04-17
DESCRIPTION | 12 MD5 | 75 + NEWS.md | 11 R/RcppExports.R | 12 R/coverage_fraction.R | 1 R/exact_extract.R | 727 +++++++++------ R/exact_extract_helpers.R |only R/package.R | 1 README.md | 236 +++-- build |only configure | 20 configure.ac | 2 inst |only man/dot-resultColNames.Rd |only man/dot-valueWeightIndexes.Rd |only man/exact_extract.Rd | 371 +++++--- man/exactextractr.Rd | 1 src/Makevars.in | 3 src/Makevars.win | 3 src/RcppExports.cpp | 45 src/coverage_fraction.cpp |only src/exact_extract.cpp | 544 ++++------- src/exactextract/CMakeLists.txt | 3 src/exactextract/README.md | 4 src/exactextract/src/raster.h | 51 + src/exactextract/src/raster_area.h |only src/exactextract/src/raster_cell_intersection.cpp | 6 src/exactextract/test/test_raster_area.cpp |only src/exactextract/test/test_raster_cell_intersection.cpp | 31 src/exactextract/test/test_raster_iterator.cpp |only src/geos_r.h |only src/numeric_vector_raster.h |only src/raster_utils.cpp |only src/raster_utils.h |only src/resample.cpp |only src/s4_raster_source.h |only tests/testthat/test_exact_extract.R | 736 +++++++++------- tests/testthat/test_exact_extract_errors.R |only tests/testthat/test_exact_extract_include_args.R |only tests/testthat/test_exact_resample.R | 16 vignettes |only 41 files changed, 1770 insertions(+), 1141 deletions(-)
Title: Dyadic Mixed Model for Pedigree Data
Description: Dyadic mixed model analysis with multi-trait responses and
pedigree-based partitioning of individual variation into a range of
environmental and genetic variance components for individual and
maternal effects. Method documented in dmmOverview.pdf; it is an
implementation of dispersion mean model described by
Searle et al. (1992) "Variance Components", Wiley, NY.
Author: Neville Jackson
Maintainer: Neville Jackson <nanddjackson@bigpond.com>
Diff between dmm versions 2.1-6 dated 2020-06-03 and 2.1-7 dated 2021-04-17
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- inst/doc/dmmOverview.pdf |binary inst/doc/mods.txt | 3 +++ man/quercus.df.Rd | 2 +- 5 files changed, 12 insertions(+), 9 deletions(-)
Title: The Complete R6 Probability Distributions Interface
Description: An R6 object oriented distributions package. Unified interface for 42 probability distributions and 11 kernels including functionality for multiple scientific types. Additionally functionality for composite distributions and numerical imputation. Design patterns including wrappers and decorators are described in Gamma et al. (1994, ISBN:0-201-63361-2). For quick reference of probability distributions including d/p/q/r functions and results we refer to McLaughlin, M. P. (2001). Additionally Devroye (1986, ISBN:0-387-96305-7) for sampling the Dirichlet distribution, Gentle (2009) <doi:10.1007/978-0-387-98144-4> for sampling the Multivariate Normal distribution and Michael et al. (1976) <doi:10.2307/2683801> for sampling the Wald distribution.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>),
Franz Kiraly [aut],
Peter Ruckdeschel [ctb] (Author of distr),
Matthias Kohl [ctb] (Author of distr),
Nurul Ain Toha [ctb],
Shen Chen [ctb],
Jordan Deenichin [ctb],
Chengyang Gao [ctb],
Chloe Zhaoyuan Gu [ctb],
Yunjie He [ctb],
Xiaowen Huang [ctb],
Shuhan Liu [ctb],
Runlong Yu [ctb],
Chijing Zeng [ctb],
Qian Zhou [ctb]
Maintainer: Raphael Sonabend <raphaelsonabend@gmail.com>
Diff between distr6 versions 1.5.0 dated 2021-02-16 and 1.5.2 dated 2021-04-17
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS.md | 8 ++++++++ R/Wrapper_VectorDistribution.R | 8 ++++++-- README.md | 2 +- man/VectorDistribution.Rd | 2 ++ tests/testthat/test_wrapper_vector.R | 6 +++--- 7 files changed, 32 insertions(+), 18 deletions(-)
Title: Google Analytics API into R
Description: Interact with the Google Analytics
APIs <https://developers.google.com/analytics/>, including
the Core Reporting API (v3 and v4), Management API, User Activity API
GA4's Data API and Admin API and Multi-Channel Funnel API.
Author: Mark Edmondson [aut, cre] (<https://orcid.org/0000-0002-8434-3881>),
Artem Klevtsov [ctb],
Johann deBoer [ctb],
David Watkins [ctb],
Olivia Brode-Roger [ctb],
Jas Sohi [ctb],
Zoran Selinger [ctb],
Octavian Corlade [ctb]
Maintainer: Mark Edmondson <m@sunholo.com>
Diff between googleAnalyticsR versions 0.8.0 dated 2020-06-24 and 1.0.0 dated 2021-04-17
googleAnalyticsR-0.8.0/googleAnalyticsR/R/fetch_functions.R |only googleAnalyticsR-0.8.0/googleAnalyticsR/inst/jupyter |only googleAnalyticsR-0.8.0/googleAnalyticsR/inst/models/decomp_ga.gamr |only googleAnalyticsR-0.8.0/googleAnalyticsR/inst/models/decomp_ga_advanced.gamr |only googleAnalyticsR-0.8.0/googleAnalyticsR/inst/models/ga-effect.gamr |only googleAnalyticsR-0.8.0/googleAnalyticsR/inst/models/shiny |only googleAnalyticsR-0.8.0/googleAnalyticsR/inst/shiny/ga4-example/ga4_demo/rsconnect |only googleAnalyticsR-0.8.0/googleAnalyticsR/inst/shiny/models-ga-effect/ga-web-client.json |only googleAnalyticsR-0.8.0/googleAnalyticsR/man/cohort.Rd |only googleAnalyticsR-0.8.0/googleAnalyticsR/man/cohortGroup.Rd |only googleAnalyticsR-0.8.0/googleAnalyticsR/man/cohort_dimension_check.Rd |only googleAnalyticsR-0.8.0/googleAnalyticsR/man/cohort_metric_check.Rd |only googleAnalyticsR-0.8.0/googleAnalyticsR/man/date_ga4.Rd |only googleAnalyticsR-0.8.0/googleAnalyticsR/man/dimension_ga4.Rd |only 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googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/setup.R | 16 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_adwords.R |only googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_antisample.R |only googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_batch.R | 59 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_big_ga4.R |only googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_data_filters.R |only googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_filters.R | 100 - googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_filters_management.R | 2 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_ga4.R | 624 +++----- googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_ganalytics.R | 106 - googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_goal_management.R | 2 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_google_analytics_bq.R | 2 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_meta.R | 32 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_models.R | 153 ++ googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_shiny_unit.R |only googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_unsampled_report_downloads.R | 2 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_user_activity.R | 2 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_user_management.R | 2 googleAnalyticsR-1.0.0/googleAnalyticsR/tests/testthat/test_webapp.R |only 206 files changed, 2266 insertions(+), 1615 deletions(-)
More information about googleAnalyticsR at CRAN
Permanent link
Title: "Finding Groups in Data": Cluster Analysis Extended Rousseeuw et
al.
Description: Methods for Cluster analysis. Much extended the original from
Peter Rousseeuw, Anja Struyf and Mia Hubert,
based on Kaufman and Rousseeuw (1990) "Finding Groups in Data".
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>),
Peter Rousseeuw [aut] (Fortran original,
<https://orcid.org/0000-0002-3807-5353>),
Anja Struyf [aut] (S original),
Mia Hubert [aut] (S original, <https://orcid.org/0000-0001-6398-4850>),
Kurt Hornik [trl, ctb] (port to R; maintenance(1999-2000),
<https://orcid.org/0000-0003-4198-9911>),
Matthias Studer [ctb],
Pierre Roudier [ctb],
Juan Gonzalez [ctb],
Kamil Kozlowski [ctb],
Erich Schubert [ctb] (fastpam options for pam(),
<https://orcid.org/0000-0001-9143-4880>),
Keefe Murphy [ctb] (volume.ellipsoid({d >= 3}))
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between cluster versions 2.1.1 dated 2021-02-14 and 2.1.2 dated 2021-04-17
DESCRIPTION | 8 ++--- MD5 | 34 ++++++++++++--------- build/partial.rdb |binary inst/NEWS.Rd | 11 ++++++- inst/po/de/LC_MESSAGES/R-cluster.mo |binary inst/po/fr/LC_MESSAGES/R-cluster.mo |binary inst/po/fr/LC_MESSAGES/cluster.mo |binary inst/po/it/LC_MESSAGES/R-cluster.mo |binary inst/po/lt |only po/R-de.po | 2 - po/R-fr.po | 56 ++++++++++++++++++------------------ po/R-it.po | 17 +++++----- po/R-lt.po |only po/fr.po | 4 +- po/lt.po |only po/update-me.sh | 4 +- src/init.c | 18 +++++------ tests/agnes-ex.R | 2 + tests/agnes-ex.Rout.save | 2 + 19 files changed, 88 insertions(+), 70 deletions(-)
Title: Models for Survival Analysis
Description: Implementations of classical and machine learning models for survival analysis, including deep neural networks via 'keras' and 'tensorflow'. Each model includes a separated fit and predict interface with consistent prediction types for predicting risk, survival probabilities, or survival distributions with 'distr6' <https://CRAN.R-project.org/package=distr6>. Models are either implemented from 'Python' via 'reticulate' <https://CRAN.R-project.org/package=reticulate>, from code in GitHub packages, or novel implementations using 'Rcpp' <https://CRAN.R-project.org/package=Rcpp>. Novel machine learning survival models wil be included in the package in near-future updates. Neural networks are implemented from the 'Python' package 'pycox' <https://github.com/havakv/pycox> and are detailed by Kvamme et al. (2019) <https://jmlr.org/papers/v20/18-424.html>. The 'Akritas' estimator is defined in Akritas (1994) <doi:10.1214/aos/1176325630>. 'DNNSurv' is defined in Zhao and Feng (2020) <arXiv:1908.02337>.
Author: Raphael Sonabend [aut, cre] (<https://orcid.org/0000-0001-9225-4654>)
Maintainer: Raphael Sonabend <raphaelsonabend@gmail.com>
Diff between survivalmodels versions 0.1.7 dated 2021-03-09 and 0.1.8 dated 2021-04-17
DESCRIPTION | 10 +++++----- MD5 | 24 ++++++++++++------------ NEWS.md | 5 +++++ R/dnnsurv.R | 18 ++++++++++++++++++ R/helpers_keras.R | 4 ++-- R/helpers_pycox.R | 8 ++++---- README.md | 4 ++-- build/partial.rdb |binary man/dnnsurv.Rd | 18 ++++++++++++++++++ man/install_keras.Rd | 4 ++-- man/install_pycox.Rd | 4 ++-- man/install_torch.Rd | 4 ++-- man/survivalmodels-package.Rd | 2 +- 13 files changed, 73 insertions(+), 32 deletions(-)
More information about survivalmodels at CRAN
Permanent link
Title: Diverse Cluster Ensemble in R
Description: Performs cluster analysis using an ensemble
clustering framework, Chiu & Talhouk (2018)
<doi:10.1186/s12859-017-1996-y>. Results from a diverse set of
algorithms are pooled together using methods such as majority voting,
K-Modes, LinkCluE, and CSPA. There are options to compare cluster
assignments across algorithms using internal and external indices,
visualizations such as heatmaps, and significance testing for the
existence of clusters.
Author: Derek Chiu [aut, cre],
Aline Talhouk [aut],
Johnson Liu [ctb, com]
Maintainer: Derek Chiu <dchiu@bccrc.ca>
Diff between diceR versions 1.0.2 dated 2021-03-18 and 1.0.3 dated 2021-04-17
DESCRIPTION | 12 ++++++------ MD5 | 23 ++++++++++++----------- NEWS.md | 6 ++++++ R/algorithms.R | 17 +---------------- R/consensus_cluster.R | 4 +--- README.md | 28 ++++++++++++++-------------- inst/doc/overview.Rmd | 2 -- inst/doc/overview.html | 2 -- man/consensus_cluster.Rd | 3 +-- man/dice.Rd | 2 +- man/diceR-package.Rd | 2 ++ man/figures/logo.png |only vignettes/overview.Rmd | 2 -- 13 files changed, 44 insertions(+), 59 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-26 0.2.1
2017-09-25 0.2
2016-02-12 0.1-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-01 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-16 0.3.1
Title: Administrative Boundaries of Spain
Description: Administrative Boundaries of Spain at several levels (CCAA,
Provinces, Municipalities) based on the GISCO Eurostat database
<https://ec.europa.eu/eurostat/web/gisco> and 'CartoBase SIANE'
from 'Instituto Geografico Nacional' <https://www.ign.es/>.
It also provides a 'leaflet' plugin and the ability of
downloading and processing static tiles.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>),
EuroGeographics [cph] (for the administrative boundaries.),
Instituto Geográfico Nacional [cph] (for the administrative
boundaries.)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between mapSpain versions 0.2.1 dated 2021-03-19 and 0.2.2 dated 2021-04-17
DESCRIPTION | 9 - MD5 | 124 ++++++++++-------- NEWS.md | 18 +- R/addProviderEspTiles.R | 6 R/data.R | 52 +------ R/esp_dict.R | 2 R/esp_getTiles.R | 31 +++- R/esp_get_can_box.R | 58 +++++--- R/esp_get_capimun.R | 29 ++-- R/esp_get_ccaa.R | 58 ++++++-- R/esp_get_country.R | 6 R/esp_get_gridmap.R | 68 ---------- R/esp_get_hydrobasin.R | 41 +----- R/esp_get_hypsobath.R | 71 ++++------ R/esp_get_munic.R | 22 +-- R/esp_get_nuts.R | 13 + R/esp_get_prov.R | 18 ++ R/esp_get_railway.R | 33 +---- R/esp_get_roads.R | 19 +- R/mapSpain-package.R | 13 + README.md | 203 ++++++++++++++++++------------- build |only inst/doc |only inst/examples |only inst/schemaorg.json | 2 inst/tinytest/test_addProviderEspTiles.R | 38 ++--- inst/tinytest/test_esp_dict.R | 11 + inst/tinytest/test_esp_getTiles.R | 20 +-- inst/tinytest/test_esp_get_can_box.R | 3 inst/tinytest/test_esp_get_capimun.R | 2 inst/tinytest/test_esp_get_ccaa.R | 2 inst/tinytest/test_esp_get_country.R | 2 inst/tinytest/test_esp_get_gridmap.R | 2 inst/tinytest/test_esp_get_hydrobasin.R | 9 - inst/tinytest/test_esp_get_hypsobath.R | 15 +- inst/tinytest/test_esp_get_munic.R | 1 inst/tinytest/test_esp_get_nuts.R | 8 - inst/tinytest/test_esp_get_prov.R | 2 inst/tinytest/test_esp_get_railway.R | 2 inst/tinytest/test_esp_get_rivers.R | 12 - inst/tinytest/test_esp_get_roads.R | 2 man/addProviderEspTiles.Rd | 4 man/esp_codelist.Rd | 9 - man/esp_getTiles.Rd | 39 ++++- man/esp_get_can_box.Rd | 58 +++++--- man/esp_get_capimun.Rd | 35 +++-- man/esp_get_ccaa.Rd | 72 ++++++++-- man/esp_get_country.Rd | 48 ++++++- man/esp_get_gridmap.Rd | 102 ++++++--------- man/esp_get_hydrobasin.Rd | 47 ++----- man/esp_get_hypsobath.Rd | 77 +++++------ man/esp_get_munic.Rd | 28 ++-- man/esp_get_nuts.Rd | 14 +- man/esp_get_prov.Rd | 32 ++++ man/esp_get_railway.Rd | 39 ++--- man/esp_get_rivers.Rd | 6 man/esp_get_roads.Rd | 25 ++- man/esp_munic.sf.Rd | 21 +-- man/esp_nuts.sf.Rd | 32 +++- man/leaflet.providersESP.df.Rd | 3 man/mapSpain-package.Rd | 12 + vignettes |only 62 files changed, 927 insertions(+), 803 deletions(-)
Title: Generate Music Easily and Show Them Anywhere
Description: Provides a simple and intuitive high-level language, with which
you can create music easily. Takes care of all the dirty technical
details in converting your music to musical scores and audio files.
Works in 'R Markdown' documents <https://rmarkdown.rstudio.com/>,
R 'Jupyter Notebooks' <https://jupyter.org/>, and 'RStudio'
<https://www.rstudio.com/>, so you can embed generated music
anywhere. Internally, uses 'MusicXML' <https://www.musicxml.com/> to
represent musical scores, and 'MuseScore' <https://musescore.org/> to
convert 'MusicXML'.
Author: Renfei Mao
Maintainer: Renfei Mao <renfeimao@gmail.com>
Diff between gm versions 1.0.0 dated 2021-03-23 and 1.0.2 dated 2021-04-17
DESCRIPTION | 21 - MD5 | 45 +- NAMESPACE | 2 NEWS.md |only R/condition.R | 9 R/duration.R | 3 R/gm.R | 14 R/line.R | 2 R/pitch.R | 210 +++++++----- R/show.R | 45 +- README.md | 13 build/vignette.rds |binary inst/doc/cn.R |only inst/doc/cn.Rmd |only inst/doc/cn.html |only inst/doc/gm.R | 23 - inst/doc/gm.Rmd | 217 ++++++++++--- inst/doc/gm.html | 706 +++++++++++++++++++++++-------------------- man/Line.Rd | 2 man/figures/cn |only man/figures/readme_audio.png |only man/gm-internal.Rd | 2 man/gm.Rd | 12 vignettes/cn.Rmd |only vignettes/gm.Rmd | 217 ++++++++++--- 25 files changed, 961 insertions(+), 582 deletions(-)
Title: Calibration Functions for Analytical Chemistry
Description: Simple functions for plotting linear
calibration functions and estimating standard errors for measurements
according to the Handbook of Chemometrics and Qualimetrics: Part A
by Massart et al. (1997) There are also functions estimating the limit
of detection (LOD) and limit of quantification (LOQ).
The functions work on model objects from - optionally weighted - linear
regression (lm) or robust linear regression ('rlm' from the 'MASS' package).
Author: Johannes Ranke [aut, cre, cph]
(<https://orcid.org/0000-0003-4371-6538>)
Maintainer: Johannes Ranke <jranke@uni-bremen.de>
Diff between chemCal versions 0.2.1 dated 2018-07-17 and 0.2.2 dated 2021-04-17
chemCal-0.2.1/chemCal/man/chemCal-package.Rd |only chemCal-0.2.2/chemCal/DESCRIPTION | 18 chemCal-0.2.2/chemCal/MD5 | 27 chemCal-0.2.2/chemCal/NEWS.md | 17 chemCal-0.2.2/chemCal/R/calplot.R | 14 chemCal-0.2.2/chemCal/README.md | 6 chemCal-0.2.2/chemCal/build/vignette.rds |binary chemCal-0.2.2/chemCal/data/din32645.rda |binary chemCal-0.2.2/chemCal/data/rl95_cadmium.rda |only chemCal-0.2.2/chemCal/inst/doc/chemCal.R | 8 chemCal-0.2.2/chemCal/inst/doc/chemCal.html | 1616 +++++++++++++++++++++++-- chemCal-0.2.2/chemCal/man/calplot.lm.Rd | 7 chemCal-0.2.2/chemCal/man/rl95_cadmium.Rd |only chemCal-0.2.2/chemCal/man/rl95_toluene.Rd | 8 chemCal-0.2.2/chemCal/man/utstats14.Rd | 5 chemCal-0.2.2/chemCal/vignettes/references.bib | 10 16 files changed, 1583 insertions(+), 153 deletions(-)
Title: SciViews - Standard Dialog Boxes for Windows, MacOS and Linuxes
Description: Quickly construct standard dialog boxes for your GUI, including
message boxes, input boxes, list, file or directory selection, ... In case R
cannot display GUI dialog boxes, a simpler command line version of these
interactive elements is also provided as fallback solution.
Author: Philippe Grosjean [aut, cre] (<https://orcid.org/0000-0002-2694-9471>),
Paul Hibbins [ctb]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between svDialogs versions 1.0.0 dated 2018-04-26 and 1.0.3 dated 2021-04-17
svDialogs-1.0.0/svDialogs/TODO |only svDialogs-1.0.3/svDialogs/DESCRIPTION | 33 - svDialogs-1.0.3/svDialogs/MD5 | 60 +- svDialogs-1.0.3/svDialogs/NEWS.md |only svDialogs-1.0.3/svDialogs/R/dlg_dir.R | 7 svDialogs-1.0.3/svDialogs/R/dlg_input.R | 10 svDialogs-1.0.3/svDialogs/R/dlg_list.R | 26 - svDialogs-1.0.3/svDialogs/R/dlg_message.R | 9 svDialogs-1.0.3/svDialogs/R/dlg_open.R | 64 +-- svDialogs-1.0.3/svDialogs/R/dlg_save.R | 8 svDialogs-1.0.3/svDialogs/R/get_system.R |only svDialogs-1.0.3/svDialogs/R/menu.R | 7 svDialogs-1.0.3/svDialogs/R/svDialogs-internal.R | 4 svDialogs-1.0.3/svDialogs/R/svDialogs-package.R | 19 svDialogs-1.0.3/svDialogs/build/vignette.rds |binary svDialogs-1.0.3/svDialogs/inst/CITATION | 6 svDialogs-1.0.3/svDialogs/inst/WORDLIST |only svDialogs-1.0.3/svDialogs/inst/doc/Standard_dialog_boxes_for_everybody.R | 2 svDialogs-1.0.3/svDialogs/inst/doc/Standard_dialog_boxes_for_everybody.Rmd | 17 svDialogs-1.0.3/svDialogs/inst/doc/Standard_dialog_boxes_for_everybody.html | 210 +++++++++- svDialogs-1.0.3/svDialogs/inst/gui/RCtxMenuLinux.txt | 6 svDialogs-1.0.3/svDialogs/inst/gui/RMenuLinux.txt | 66 +-- svDialogs-1.0.3/svDialogs/man/dlg_dir.Rd | 17 svDialogs-1.0.3/svDialogs/man/dlg_form.Rd | 93 +++- svDialogs-1.0.3/svDialogs/man/dlg_input.Rd | 32 - svDialogs-1.0.3/svDialogs/man/dlg_list.Rd | 83 ++- svDialogs-1.0.3/svDialogs/man/dlg_message.Rd | 64 ++- svDialogs-1.0.3/svDialogs/man/dlg_open.Rd | 84 ++-- svDialogs-1.0.3/svDialogs/man/dlg_save.Rd | 29 - svDialogs-1.0.3/svDialogs/man/get_system.Rd |only svDialogs-1.0.3/svDialogs/man/menu.Rd | 10 svDialogs-1.0.3/svDialogs/man/svDialogs-package.Rd | 34 + svDialogs-1.0.3/svDialogs/tests/spelling.R |only svDialogs-1.0.3/svDialogs/vignettes/Standard_dialog_boxes_for_everybody.Rmd | 17 34 files changed, 711 insertions(+), 306 deletions(-)
Title: Forecasting Using State Space Models
Description: Functions implementing Single Source of Error state space models for purposes of time series analysis and forecasting.
The package includes ADAM (Svetunkov, 2021, <https://openforecast.org/adam/>),
Exponential Smoothing (Hyndman et al., 2008, <doi: 10.1007/978-3-540-71918-2>),
SARIMA (Svetunkov & Boylan, 2019 <doi: 10.1080/00207543.2019.1600764>),
Complex Exponential Smoothing (Svetunkov & Kourentzes, 2018, <doi: 10.13140/RG.2.2.24986.29123>),
Simple Moving Average (Svetunkov & Petropoulos, 2018 <doi: 10.1080/00207543.2017.1380326>)
and several simulation functions. It also allows dealing with intermittent demand based on the
iETS framework (Svetunkov & Boylan, 2019, <doi: 10.13140/RG.2.2.35897.06242>).
Author: Ivan Svetunkov [aut, cre] (Lecturer at Centre for Marketing Analytics
and Forecasting, Lancaster University, UK)
Maintainer: Ivan Svetunkov <ivan@svetunkov.ru>
Diff between smooth versions 3.1.0 dated 2021-02-20 and 3.1.1 dated 2021-04-17
smooth-3.1.0/smooth/tests/testthat/test_ges.R |only smooth-3.1.1/smooth/DESCRIPTION | 22 smooth-3.1.1/smooth/MD5 | 62 - smooth-3.1.1/smooth/NAMESPACE | 1 smooth-3.1.1/smooth/NEWS | 32 smooth-3.1.1/smooth/R/adam.R | 225 ++-- smooth-3.1.1/smooth/R/adamGeneral.R | 1252 +++++++++++++------------- smooth-3.1.1/smooth/R/autoadam.R | 69 - smooth-3.1.1/smooth/R/methods.R | 4 smooth-3.1.1/smooth/R/oes.R | 1 smooth-3.1.1/smooth/R/oesg.R | 1 smooth-3.1.1/smooth/R/zzz.R | 16 smooth-3.1.1/smooth/build/partial.rdb |binary smooth-3.1.1/smooth/build/vignette.rds |binary smooth-3.1.1/smooth/inst/doc/adam.R | 77 + smooth-3.1.1/smooth/inst/doc/adam.Rmd | 102 +- smooth-3.1.1/smooth/inst/doc/adam.html | 537 ++++++----- smooth-3.1.1/smooth/inst/doc/ces.html | 33 smooth-3.1.1/smooth/inst/doc/es.R | 8 smooth-3.1.1/smooth/inst/doc/es.Rmd | 12 smooth-3.1.1/smooth/inst/doc/es.html | 123 -- smooth-3.1.1/smooth/inst/doc/gum.html | 12 smooth-3.1.1/smooth/inst/doc/oes.Rmd | 6 smooth-3.1.1/smooth/inst/doc/oes.html | 126 +- smooth-3.1.1/smooth/inst/doc/simulate.html | 80 - smooth-3.1.1/smooth/inst/doc/sma.html | 6 smooth-3.1.1/smooth/inst/doc/smooth.html | 4 smooth-3.1.1/smooth/inst/doc/ssarima.html | 29 smooth-3.1.1/smooth/man/plot.smooth.Rd | 4 smooth-3.1.1/smooth/tests/testthat/test_gum.R |only smooth-3.1.1/smooth/vignettes/adam.Rmd | 102 +- smooth-3.1.1/smooth/vignettes/es.Rmd | 12 smooth-3.1.1/smooth/vignettes/oes.Rmd | 6 33 files changed, 1617 insertions(+), 1347 deletions(-)
Title: Simply Caching R Objects
Description: Provides intuitive functions for caching R objects, encouraging
reproducible, restartable, and distributed R analysis. The user selects a
location to store caches, and then provides nothing more than a cache name
and instructions (R code) for how to produce the R object. Also
provides some advanced options like environment assignments, recreating or
reloading caches, and cluster compute bindings (using the 'batchtools'
package) making it flexible enough for use in large-scale data analysis
projects.
Author: VP Nagraj [aut],
Nathan Sheffield [aut, cre]
Maintainer: Nathan Sheffield <nathan@code.databio.org>
Diff between simpleCache versions 0.4.1 dated 2019-02-26 and 0.4.2 dated 2021-04-17
DESCRIPTION | 16 - MD5 | 26 +-- NEWS.md | 4 R/utility.R | 10 - build/vignette.rds |binary inst/doc/clusterCaches.R | 10 - inst/doc/clusterCaches.html | 184 ++++++++++++++-------- inst/doc/sharingCaches.R | 4 inst/doc/sharingCaches.html | 154 ++++++++++++------ inst/doc/simpleCacheIntroduction.R | 26 +-- inst/doc/simpleCacheIntroduction.html | 278 ++++++++++++++++++++-------------- man/simpleCache-package.Rd | 4 man/simpleCache.Rd | 27 ++- man/storeCache.Rd | 8 14 files changed, 465 insertions(+), 286 deletions(-)
Title: R Interface to Global Biotic Interactions
Description: A programmatic interface to the web service methods
provided by Global Biotic Interactions (GloBI)
(<https://www.globalbioticinteractions.org/>). GloBI provides
access to spatial-temporal species interaction records from
sources all over the world. rglobi provides methods to search
species interactions by location, interaction type, and
taxonomic name. In addition, it supports Cypher, a graph query
language, to allow for executing custom queries on the GloBI
aggregate species interaction data set.
Author: Jorrit Poelen [aut, cre],
Stephen Gosnell [aut],
Sergey Slyusarev [aut]
Maintainer: Jorrit Poelen <jhpoelen@xs4all.nl>
Diff between rglobi versions 0.2.21 dated 2019-12-06 and 0.2.22 dated 2021-04-17
DESCRIPTION | 16 +++++++++------- MD5 | 14 +++++++------- NEWS | 11 +++++++++++ README.md | 2 +- build/vignette.rds |binary inst/doc/rglobi_vignette.Rmd | 29 ++++++++++++----------------- inst/doc/rglobi_vignette.html | 21 +++++---------------- vignettes/rglobi_vignette.Rmd | 29 ++++++++++++----------------- 8 files changed, 57 insertions(+), 65 deletions(-)
Title: 3D Visualization Using OpenGL
Description: Provides medium to high level functions for 3D interactive graphics, including
functions modelled on base graphics (plot3d(), etc.) as well as functions for
constructing representations of geometric objects (cube3d(), etc.). Output
may be on screen using OpenGL, or to various standard 3D file formats including
WebGL, PLY, OBJ, STL as well as 2D image formats, including PNG, Postscript, SVG, PGF.
Author: Duncan Murdoch [aut, cre],
Daniel Adler [aut],
Oleg Nenadic [ctb],
Simon Urbanek [ctb],
Ming Chen [ctb],
Albrecht Gebhardt [ctb],
Ben Bolker [ctb],
Gabor Csardi [ctb],
Adam Strzelecki [ctb],
Alexander Senger [ctb],
The R Core Team [ctb, cph],
Dirk Eddelbuettel [ctb],
The authors of Shiny [cph],
The authors of knitr [cph],
Jeroen Ooms [ctb],
Yohann Demont [ctb],
Joshua Ulrich [ctb],
Xavier Fernandez i Marin [ctb],
George Helffrich [ctb],
Ivan Krylov [ctb]
Maintainer: Duncan Murdoch <murdoch.duncan@gmail.com>
Diff between rgl versions 0.105.22 dated 2021-03-04 and 0.106.6 dated 2021-04-17
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rgl-0.106.6/rgl/inst/htmlwidgets/lib/rglClass/shaders.src.js | 8 rgl-0.106.6/rgl/inst/htmlwidgets/lib/rglClass/utils.src.js | 35 rgl-0.106.6/rgl/inst/pkgdown |only rgl-0.106.6/rgl/man/3dobjects.Rd | 9 rgl-0.106.6/rgl/man/abclines.Rd | 4 rgl-0.106.6/rgl/man/addNormals.Rd | 2 rgl-0.106.6/rgl/man/ageControl.Rd | 6 rgl-0.106.6/rgl/man/ageSetter.Rd | 4 rgl-0.106.6/rgl/man/all.equal.mesh3d.Rd |only rgl-0.106.6/rgl/man/arc3d.Rd | 2 rgl-0.106.6/rgl/man/arrow3d.Rd | 2 rgl-0.106.6/rgl/man/as.mesh3d.ashape3d.Rd | 4 rgl-0.106.6/rgl/man/as.mesh3d.default.Rd | 22 rgl-0.106.6/rgl/man/as.mesh3d.rglId.Rd | 4 rgl-0.106.6/rgl/man/as.triangles3d.Rd | 4 rgl-0.106.6/rgl/man/asRow.Rd | 6 rgl-0.106.6/rgl/man/axes3d.Rd | 2 rgl-0.106.6/rgl/man/bbox.Rd | 2 rgl-0.106.6/rgl/man/bg.Rd | 2 rgl-0.106.6/rgl/man/callbacks.Rd | 7 rgl-0.106.6/rgl/man/check3d.Rd | 4 rgl-0.106.6/rgl/man/clipMesh3d.Rd | 8 rgl-0.106.6/rgl/man/clipplaneControl.Rd | 6 rgl-0.106.6/rgl/man/contourLines3d.Rd | 2 rgl-0.106.6/rgl/man/cube3d.Rd |only rgl-0.106.6/rgl/man/cylinder3d.Rd | 2 rgl-0.106.6/rgl/man/decorate3d.Rd |only rgl-0.106.6/rgl/man/drape3d.Rd |only rgl-0.106.6/rgl/man/elementId2Prefix.Rd | 4 rgl-0.106.6/rgl/man/ellipse3d.Rd | 2 rgl-0.106.6/rgl/man/facing3d.Rd |only rgl-0.106.6/rgl/man/figWidth.Rd | 2 rgl-0.106.6/rgl/man/identify3d.Rd | 2 rgl-0.106.6/rgl/man/in_pkgdown_example.Rd |only rgl-0.106.6/rgl/man/light.Rd | 2 rgl-0.106.6/rgl/man/makeDependency.Rd | 4 rgl-0.106.6/rgl/man/material.Rd | 18 rgl-0.106.6/rgl/man/matrices.Rd | 24 rgl-0.106.6/rgl/man/merge.mesh3d.Rd | 3 rgl-0.106.6/rgl/man/mergeVertices.Rd | 9 rgl-0.106.6/rgl/man/mesh3d.Rd | 178 -- rgl-0.106.6/rgl/man/mfrow3d.Rd | 8 rgl-0.106.6/rgl/man/observer3d.Rd | 6 rgl-0.106.6/rgl/man/open3d.Rd | 14 rgl-0.106.6/rgl/man/par3d.Rd | 16 rgl-0.106.6/rgl/man/par3dinterp.Rd | 4 rgl-0.106.6/rgl/man/par3dinterpControl.Rd | 4 rgl-0.106.6/rgl/man/pch3d.Rd | 4 rgl-0.106.6/rgl/man/persp3d.deldir.Rd | 2 rgl-0.106.6/rgl/man/persp3d.tri.Rd | 2 rgl-0.106.6/rgl/man/planes.Rd | 20 rgl-0.106.6/rgl/man/play3d.Rd | 10 rgl-0.106.6/rgl/man/playwidget.Rd | 6 rgl-0.106.6/rgl/man/plot3d.Rd | 27 rgl-0.106.6/rgl/man/plot3d.formula.Rd | 2 rgl-0.106.6/rgl/man/plot3d.lm.Rd | 2 rgl-0.106.6/rgl/man/plotmath3d.Rd | 2 rgl-0.106.6/rgl/man/polygon3d.Rd | 3 rgl-0.106.6/rgl/man/postscript.Rd | 2 rgl-0.106.6/rgl/man/primitive.Rd | 18 rgl-0.106.6/rgl/man/propertyControl.Rd | 2 rgl-0.106.6/rgl/man/propertySetter.Rd | 2 rgl-0.106.6/rgl/man/rgl-internal.Rd | 4 rgl-0.106.6/rgl/man/rgl-package.Rd | 14 rgl-0.106.6/rgl/man/rgl.Sweave.Rd | 17 rgl-0.106.6/rgl/man/rgl.attrib.info.Rd | 4 rgl-0.106.6/rgl/man/rgl.fns.Rd |only rgl-0.106.6/rgl/man/rgl.init.Rd | 17 rgl-0.106.6/rgl/man/rgl.open.Rd | 11 rgl-0.106.6/rgl/man/rgl.select.Rd | 4 rgl-0.106.6/rgl/man/rgl.texts.Rd |only rgl-0.106.6/rgl/man/rgl.useNULL.Rd | 6 rgl-0.106.6/rgl/man/rgl.user2window.Rd | 8 rgl-0.106.6/rgl/man/rglExtrafonts.Rd |only rgl-0.106.6/rgl/man/rglIds.Rd | 12 rgl-0.106.6/rgl/man/rglMouse.Rd | 6 rgl-0.106.6/rgl/man/rglShared.Rd | 10 rgl-0.106.6/rgl/man/rglToLattice.Rd | 12 rgl-0.106.6/rgl/man/rglwidget.Rd | 47 rgl-0.106.6/rgl/man/scene.Rd | 13 rgl-0.106.6/rgl/man/scene3d.Rd | 2 rgl-0.106.6/rgl/man/select3d.Rd | 2 rgl-0.106.6/rgl/man/setGraphicsDelay.Rd | 4 rgl-0.106.6/rgl/man/setUserShaders.Rd | 6 rgl-0.106.6/rgl/man/setupKnitr.Rd | 18 rgl-0.106.6/rgl/man/shade3d.Rd |only rgl-0.106.6/rgl/man/shadow3d.Rd |only rgl-0.106.6/rgl/man/shiny.Rd | 6 rgl-0.106.6/rgl/man/shinyGetPar3d.Rd | 4 rgl-0.106.6/rgl/man/show2d.Rd | 2 rgl-0.106.6/rgl/man/snapshot.Rd | 10 rgl-0.106.6/rgl/man/spheres.Rd | 19 rgl-0.106.6/rgl/man/spin3d.Rd | 6 rgl-0.106.6/rgl/man/sprites.Rd | 24 rgl-0.106.6/rgl/man/subdivision3d.Rd | 4 rgl-0.106.6/rgl/man/subscene3d.Rd | 6 rgl-0.106.6/rgl/man/subsceneInfo.Rd | 2 rgl-0.106.6/rgl/man/surface.Rd | 2 rgl-0.106.6/rgl/man/surface3d.Rd | 5 rgl-0.106.6/rgl/man/texts.Rd | 100 - rgl-0.106.6/rgl/man/thigmophobe3d.Rd | 4 rgl-0.106.6/rgl/man/tkpar3dsave.Rd | 6 rgl-0.106.6/rgl/man/tkrgl.Rd | 9 rgl-0.106.6/rgl/man/tkspin3d.Rd | 8 rgl-0.106.6/rgl/man/tkspinControl.Rd | 4 rgl-0.106.6/rgl/man/toggleWidget.Rd | 10 rgl-0.106.6/rgl/man/triangulate.Rd | 2 rgl-0.106.6/rgl/man/turn3d.Rd | 2 rgl-0.106.6/rgl/man/vertexControl.Rd | 8 rgl-0.106.6/rgl/man/webGLcontrols.Rd | 2 rgl-0.106.6/rgl/man/writeASY.Rd | 14 rgl-0.106.6/rgl/man/writeWebGL.Rd | 5 rgl-0.106.6/rgl/src/Makevars.in | 16 rgl-0.106.6/rgl/src/Makevars.ucrt |only rgl-0.106.6/rgl/src/opengl.h | 4 rgl-0.106.6/rgl/src/x11gui.cpp | 22 rgl-0.106.6/rgl/src/x11gui.h | 1 rgl-0.106.6/rgl/vignettes/pkgdown.Rmd |only rgl-0.106.6/rgl/vignettes/rgl.Rmd | 45 rgl-0.106.6/rgl/vignettes/setup.R | 16 rgl-0.106.6/rgl/vignettes/transparency.Rmd | 3 169 files changed, 2180 insertions(+), 1817 deletions(-)
Title: Color Palettes, Colormaps, and Tools to Evaluate Them
Description: A comprehensive collection of color palettes, colormaps, and tools to evaluate them.
Author: Kevin Wright [aut, cre] (<https://orcid.org/0000-0002-0617-8673>)
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between pals versions 1.6 dated 2019-12-04 and 1.7 dated 2021-04-17
pals-1.6/pals/inst/doc/illusion.R |only pals-1.6/pals/inst/doc/illusion.Rmd |only pals-1.6/pals/inst/doc/illusion.html |only pals-1.6/pals/vignettes/illusion.Rmd |only pals-1.7/pals/DESCRIPTION | 14 pals-1.7/pals/MD5 | 42 - pals-1.7/pals/NAMESPACE | 1 pals-1.7/pals/NEWS.md | 4 pals-1.7/pals/R/colors_continuous.R | 13 pals-1.7/pals/R/sysdata.rda |binary pals-1.7/pals/build/vignette.rds |binary pals-1.7/pals/inst/doc/bivariate_choropleths.html | 359 ++++---------- pals-1.7/pals/inst/doc/pals_examples.R | 2 pals-1.7/pals/inst/doc/pals_examples.Rmd | 8 pals-1.7/pals/inst/doc/pals_examples.html | 531 +++++++--------------- pals-1.7/pals/man/continuous.Rd | 12 pals-1.7/pals/man/discrete.Rd | 2 pals-1.7/pals/man/pal.bands.Rd | 11 pals-1.7/pals/man/pal.safe.Rd | 2 pals-1.7/pals/man/pal.sineramp.Rd | 12 pals-1.7/pals/man/pals.Rd | 1 pals-1.7/pals/man/penobscot.Rd | 4 pals-1.7/pals/vignettes/pals.bib | 2 pals-1.7/pals/vignettes/pals_examples.Rmd | 8 24 files changed, 374 insertions(+), 654 deletions(-)
Title: Put Page Numbers on Graphics
Description: A simple way to add page numbers to base/ggplot/lattice graphics.
Author: Kevin Wright [aut, cre] (<https://orcid.org/0000-0002-0617-8673>)
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between pagenum versions 1.1 dated 2017-07-13 and 1.2 dated 2021-04-17
DESCRIPTION | 20 +- MD5 | 18 +- NEWS.md |only build/vignette.rds |binary inst/doc/pagenum_examples.R | 13 - inst/doc/pagenum_examples.Rmd | 21 -- inst/doc/pagenum_examples.html | 327 ++++++++++++++++------------------------- man/figures |only man/pagenum.Rd | 15 + tests/testthat/test_pagenum.R | 2 vignettes/pagenum_examples.Rmd | 21 -- 11 files changed, 175 insertions(+), 262 deletions(-)
Title: An R Package to Retrieve, Analyze and Visualize Air Traffic Data
Description: Provides functionalities and data structures to retrieve, analyze and visualize aviation
data. It includes a client interface to the 'OpenSky' API <https://opensky-network.org>. It allows
retrieval of flight information, as well as aircraft state vectors.
Author: Rafael Ayala, Daniel Ayala, David Ruiz, Aleix Sellés, Lara Sellés Vidal
Maintainer: Rafael Ayala <rafael.ayala@oist.jp>
Diff between openSkies versions 1.1.0 dated 2021-03-06 and 1.1.1 dated 2021-04-17
DESCRIPTION | 10 MD5 | 4 inst/doc/openSkies.html | 583 ++++++++++++++++++++++++------------------------ 3 files changed, 303 insertions(+), 294 deletions(-)
Title: Cleaner Workspaces with Shared Variable Environments
Description: Provides intuitive functions for loading objects into
environments, encouraging less cluttered workspaces and sharing variables
with large or reusable data across users and sessions. The user
provides named variables which are loaded into the variable environment for
later retrieval.
Author: Nathan Sheffield [aut, cre]
Maintainer: Nathan Sheffield <nathan@code.databio.org>
Diff between loadr versions 0.1.2 dated 2019-03-08 and 0.1.3 dated 2021-04-17
DESCRIPTION | 16 +-- MD5 | 16 +-- NEWS.md | 6 + R/loadr.R | 2 build/vignette.rds |binary inst/doc/loadrIntro.R | 30 +++--- inst/doc/loadrIntro.html | 219 +++++++++++++++++++++++++++++------------------ man/eload.Rd | 8 + man/loadr.Rd | 3 9 files changed, 181 insertions(+), 119 deletions(-)
Title: Classical Jacobi Eigenvalue Algorithm
Description: Implements the classical Jacobi algorithm for the
eigenvalues and eigenvectors of a real symmetric matrix, both in
pure 'R' and in 'C++' using 'Rcpp'. Mainly as a programming example
for teaching purposes.
Author: Bill Venables
Maintainer: Bill Venables <Bill.Venables@gmail.com>
Diff between JacobiEigen versions 0.3-3 dated 2019-03-10 and 0.3-4 dated 2021-04-17
DESCRIPTION | 10 +++--- MD5 | 18 ++++++------ NAMESPACE | 16 +++++------ R/RcppExports.R | 22 +++++++-------- build/vignette.rds |binary inst/doc/JacobiEigen.R | 8 ++--- inst/doc/JacobiEigen.pdf |binary man/Jacobi.Rd | 68 +++++++++++++++++++++++------------------------ man/JacobiR.Rd | 68 +++++++++++++++++++++++------------------------ man/JacobiS.Rd | 68 +++++++++++++++++++++++------------------------ 10 files changed, 139 insertions(+), 139 deletions(-)
Title: Toolbox for Model Building and Forecasting
Description: Implements functions and instruments for regression model building and its
application to forecasting. The main scope of the package is in variables selection
and models specification for cases of time series data. This includes promotional
modelling, selection between different dynamic regressions with non-standard
distributions of errors, selection based on cross validation, solutions to the fat
regression model problem and more. Models developed in the package are tailored
specifically for forecasting purposes. So as a results there are several methods
that allow producing forecasts from these models and visualising them.
Author: Ivan Svetunkov [aut, cre] (Lecturer at Centre for Marketing Analytics
and Forecasting, Lancaster University, UK),
Yves R. Sagaert [ctb] (Visiting Research at Centre for Marketing
Analytics and Forecasting, Lancaster University, UK)
Maintainer: Ivan Svetunkov <ivan@svetunkov.ru>
Diff between greybox versions 0.6.8 dated 2021-03-12 and 0.6.9 dated 2021-04-17
DESCRIPTION | 8 +- MD5 | 54 +++++++++---------- NAMESPACE | 2 NEWS | 16 +++++ R/alm.R | 23 ++++++-- R/association.R | 4 - R/coefbootstrap.R | 9 +-- R/cramer.R | 10 +-- R/greybox-package.R | 2 R/mcor.R | 67 +++++++++++------------- R/methods.R | 67 ++++++++++++++++++------ R/spread.R | 34 ++++++------ README.md | 11 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/alm.html | 118 +++++++++++++++++++++---------------------- inst/doc/greybox.Rmd | 1 inst/doc/greybox.html | 5 + inst/doc/maUsingGreybox.html | 8 +- inst/doc/ro.html | 16 ++--- man/InformationCriteria.Rd | 8 ++ man/greybox.Rd | 2 man/lmCombine.Rd | 3 + man/lmDynamic.Rd | 3 + man/nparam.Rd | 18 ++++-- man/plot.greybox.Rd | 4 - man/stepwise.Rd | 3 + vignettes/greybox.Rmd | 1 28 files changed, 297 insertions(+), 200 deletions(-)
Title: A Framework for Robust Shiny Applications
Description: An opinionated framework for building a
production-ready 'Shiny' application. This package contains a series
of tools for building a robust 'Shiny' application from start to
finish.
Author: Colin Fay [cre, aut] (<https://orcid.org/0000-0001-7343-1846>),
Vincent Guyader [aut] (<https://orcid.org/0000-0003-0671-9270>,
previous maintainer),
Sébastien Rochette [aut] (<https://orcid.org/0000-0002-1565-9313>),
Cervan Girard [aut] (<https://orcid.org/0000-0002-4816-4624>),
Novica Nakov [ctb],
David Granjon [ctb],
ThinkR [cph]
Maintainer: Colin Fay <contact@colinfay.me>
Diff between golem versions 0.2.1 dated 2020-03-05 and 0.3.1 dated 2021-04-17
golem-0.2.1/golem/R/add_deploy_helpers.R |only golem-0.2.1/golem/R/add_ressource_path.R |only golem-0.2.1/golem/R/zzz.R |only golem-0.3.1/golem/DESCRIPTION | 45 golem-0.3.1/golem/MD5 | 220 ++-- golem-0.3.1/golem/NAMESPACE | 30 golem-0.3.1/golem/NEWS.md | 120 ++ golem-0.3.1/golem/R/add_dockerfiles.R |only golem-0.3.1/golem/R/add_files.R | 504 ++++++++-- golem-0.3.1/golem/R/add_modules.R | 185 ++- golem-0.3.1/golem/R/add_r_files.R | 79 + golem-0.3.1/golem/R/add_resource_path.R |only golem-0.3.1/golem/R/add_rstudio_files.R |only golem-0.3.1/golem/R/browser_button.R | 5 golem-0.3.1/golem/R/bundle_resources.R | 21 golem-0.3.1/golem/R/config.R | 20 golem-0.3.1/golem/R/create_golem.R | 179 ++- golem-0.3.1/golem/R/desc.R | 60 + golem-0.3.1/golem/R/disable_autoload.R |only golem-0.3.1/golem/R/enable_roxygenize.R |only golem-0.3.1/golem/R/get_sysreqs.R | 53 - golem-0.3.1/golem/R/gobals.R |only golem-0.3.1/golem/R/golem-package.R | 2 golem-0.3.1/golem/R/is_running.R |only golem-0.3.1/golem/R/js.R | 124 ++ golem-0.3.1/golem/R/make_dev.R | 15 golem-0.3.1/golem/R/options.R | 46 golem-0.3.1/golem/R/reload.R | 112 +- golem-0.3.1/golem/R/run_dev.R |only golem-0.3.1/golem/R/sanity_check.R |only golem-0.3.1/golem/R/templates.R |only golem-0.3.1/golem/R/test_helpers.R | 117 ++ golem-0.3.1/golem/R/use_favicon.R | 15 golem-0.3.1/golem/R/use_files.R | 401 +++++++ golem-0.3.1/golem/R/use_recommended.R | 42 golem-0.3.1/golem/R/use_utils.R | 3 golem-0.3.1/golem/R/utils.R | 92 + golem-0.3.1/golem/R/with_opt.R | 83 + golem-0.3.1/golem/R/yesno.R | 6 golem-0.3.1/golem/README.md | 71 - 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Title: Gaussian Mixture Graphical Model Learning and Inference
Description: Gaussian mixture graphical models include Bayesian networks and
dynamic Bayesian networks (their temporal extension) whose local probability
distributions are described by Gaussian mixture models. They are powerful
tools for graphically and quantitatively representing nonlinear dependencies
between continuous variables. This package provides a complete framework to
create, manipulate, learn the structure and the parameters, and perform
inference in these models. Most of the algorithms are described in the PhD
thesis of Roos (2018) <https://tel.archives-ouvertes.fr/tel-01943718>.
Author: Jérémy Roos [aut, cre, cph],
RATP Group [fnd, cph]
Maintainer: Jérémy Roos <jeremy.roos@gmail.com>
Diff between gmgm versions 1.0.1 dated 2020-11-14 and 1.0.2 dated 2021-04-17
gmgm-1.0.1/gmgm/man/figures/network.png |only gmgm-1.0.2/gmgm/DESCRIPTION | 10 - gmgm-1.0.2/gmgm/MD5 | 36 +++--- gmgm-1.0.2/gmgm/NEWS.md | 9 + gmgm-1.0.2/gmgm/R/BIC.R | 13 +- gmgm-1.0.2/gmgm/R/aggregation.R | 8 - gmgm-1.0.2/gmgm/R/filtering.R | 41 +++---- gmgm-1.0.2/gmgm/R/gmgm-package.R | 2 gmgm-1.0.2/gmgm/R/gmm.R | 30 +++-- gmgm-1.0.2/gmgm/R/inference.R | 16 +- gmgm-1.0.2/gmgm/R/logLik.R | 14 +- gmgm-1.0.2/gmgm/R/particles.R | 8 + gmgm-1.0.2/gmgm/R/prediction.R | 52 ++++----- gmgm-1.0.2/gmgm/R/propagation.R | 36 +++--- gmgm-1.0.2/gmgm/R/smoothing.R | 43 +++---- gmgm-1.0.2/gmgm/R/struct_learn.R | 14 +- gmgm-1.0.2/gmgm/README.md | 144 +++++++++++++++++++++----- gmgm-1.0.2/gmgm/man/figures/ellipses.png |only gmgm-1.0.2/gmgm/man/figures/network_init.png |only gmgm-1.0.2/gmgm/man/figures/network_learn.png |only gmgm-1.0.2/gmgm/tests/testthat/test-gmm.R | 14 ++ 21 files changed, 304 insertions(+), 186 deletions(-)
Title: Safe Color Set for Color Blindness
Description: Provide the safe color set for color blindness,
the simulator of protanopia, deuteranopia.
The color sets are collected from:
Wong, B. (2011) <doi:10.1038/nmeth.1618>, and
<http://mkweb.bcgsc.ca/biovis2012/>.
The simulations of the appearance of the colors to color-deficient
viewers were based on algorithms in
Vienot, F., Brettel, H. and Mollon, J.D. (1999)
<doi:10.1002/(SICI)1520-6378(199908)24:4%3C243::AID-COL5%3E3.0.CO;2-3>.
The cvdPlot() function to generate 'ggplot' grobs of simulations
were modified from <https://github.com/clauswilke/colorblindr>.
Author: Jianhong Ou [aut, cre] (<https://orcid.org/0000-0002-8652-2488>)
Maintainer: Jianhong Ou <jianhong.ou@duke.edu>
Diff between colorBlindness versions 0.1.6 dated 2020-03-16 and 0.1.9 dated 2021-04-17
DESCRIPTION | 16 MD5 | 22 NEWS | 13 R/palette.R | 2 build/vignette.rds |binary inst/doc/colorBlindness.Rmd | 3 inst/doc/colorBlindness.html | 1416 ++++++++++++++++++++++++++++++++++++++++--- man/colorPalette.Rd | 42 + man/safeColors.Rd | 20 man/setPDFopt.Rd | 4 vignettes/bibliography.bib | 24 vignettes/colorBlindness.Rmd | 3 12 files changed, 1456 insertions(+), 109 deletions(-)
More information about colorBlindness at CRAN
Permanent link
Title: Load Data from Facebook API Marketing
Description: Load data by campaigns, ads, ad sets and insights, ad account and business manager
from Facebook Marketing API into R. For more details see official documents by Facebook
Marketing API <https://developers.facebook.com/docs/marketing-apis/>.
Author: Alexey Seleznev [aut, cre] (<https://orcid.org/0000-0003-0410-7385>)
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between rfacebookstat versions 2.2.2 dated 2021-01-04 and 2.3.0 dated 2021-04-16
DESCRIPTION | 8 +- LICENSE | 2 MD5 | 37 ++++++------ NAMESPACE | 7 ++ NEWS.md | 13 ++++ R/authorization.R | 30 ++++++++++ R/fbGetAdCreative.R | 2 R/fbGetAdSets.R | 6 +- R/fbGetPages.R | 3 - R/fbParsers.R | 56 +++++++++++++++++-- R/fbSetters.R |only R/zzz.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/rfacebookstat-authorization.Rmd | 13 ++++ inst/doc/rfacebookstat-authorization.html | 84 +++++++---------------------- inst/doc/rfacebookstat-cost-data.html | 76 +++----------------------- inst/doc/rfacebookstat-get-statistics.html | 76 +++----------------------- man/fbGetLogins.Rd |only man/fbSetters.Rd |only vignettes/rfacebookstat-authorization.Rmd | 13 ++++ 21 files changed, 201 insertions(+), 227 deletions(-)
Title: Prepare Figure Region for Base Graphics
Description: A figure region is prepared, creating a plot region with suitable background color, grid lines or shadings, and providing axes and labeling if not suppressed. Subsequently, information carrying graphics elements can be added (points, lines, barplot with add=TRUE and so forth).
Author: Ulrike Groemping
Maintainer: Ulrike Groemping <groemping@beuth-hochschule.de>
Diff between prepplot versions 1.0 dated 2021-04-14 and 1.0-1 dated 2021-04-16
DESCRIPTION | 10 MD5 | 6 inst/NEWS | 3 inst/doc/prepplotOverview.pdf | 524 +++++++++++++++++++++--------------------- 4 files changed, 273 insertions(+), 270 deletions(-)
Title: Mountain Plots, Folded Empirical Cumulative Distribution Plots
Description: Lattice functions for drawing folded empirical cumulative
distribution plots, or mountain plots. A mountain plot is similar
to an empirical CDF plot, except that the curve increases from
0 to 0.5, then decreases from 0.5 to 1 using an inverted scale at
the right side. See Monti (1995) <doi:10.1080/00031305.1995.10476179>.
Author: Kevin Wright [aut, cre] (<https://orcid.org/0000-0002-0617-8673>)
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between mountainplot versions 1.2 dated 2017-07-13 and 1.3 dated 2021-04-16
DESCRIPTION | 20 - MD5 | 25 +- NAMESPACE | 10 NEWS.md |only R/mountainplot.R | 17 + build/vignette.rds |binary inst/doc/mountainplot_examples.R | 3 inst/doc/mountainplot_examples.Rmd | 38 --- inst/doc/mountainplot_examples.html | 362 ++++++++++++++++-------------------- man/figures |only man/mountainplot.Rd | 23 +- tests/testthat/test_mountainplot.R | 16 + vignettes/mountainplot_examples.Rmd | 38 --- 13 files changed, 254 insertions(+), 298 deletions(-)
Title: Maximum Approximate Bernstein/Beta Likelihood Estimation
Description: Fit data from a continuous population with a smooth density on finite interval by an approximate Bernstein polynomial model which is a mixture of certain beta distributions and find maximum approximate Bernstein likelihood estimator of the unknown coefficients. Consequently, maximum likelihood estimates of the unknown density, distribution functions, and more can be obtained. If the support of the density is not the unit interval then transformation can be applied. This is an implementation of the methods proposed by the author of this package published in the Journal of Nonparametric Statistics: Guan (2016) <doi:10.1080/10485252.2016.1163349> and Guan (2017) <doi:10.1080/10485252.2017.1374384>. For data with covariates, under some semiparametric regression models such as Cox proportional hazards model and the accelerated failure time model, the baseline survival function can be estimated smoothly based on general interval censored data.
Author: Zhong Guan [aut, cre]
Maintainer: Zhong Guan <zguan@iusb.edu>
Diff between mable versions 3.0.0 dated 2021-03-02 and 3.0.1 dated 2021-04-16
DESCRIPTION | 12 - MD5 | 42 +++--- NAMESPACE | 1 R/mable-aft-model.r | 48 +++---- R/mable-ph-model.r | 315 +++++++++++++++++++++++++----------------------- R/mable.r | 11 - inst/doc/mable.R | 14 +- inst/doc/mable.Rmd | 15 +- inst/doc/mable.pdf |binary man/mable.aft.Rd | 8 - man/mable.ic.Rd | 2 man/mable.ph.Rd | 6 man/mable.reg.Rd | 3 man/maple.aft.Rd | 11 - man/maple.ph.Rd | 11 - man/plot.mable_reg.Rd | 7 - man/summary.mable.Rd | 3 src/mable.c | 124 ++++++++++++------ src/mable_init.c | 40 ++++++ vignettes/bernstein.bib | 16 +- vignettes/mable.Rmd | 15 +- vignettes/mable.html | 26 ++- 22 files changed, 412 insertions(+), 318 deletions(-)
Title: Download Official Spatial Data Sets of Brazil
Description: Easy access to official spatial data sets of Brazil as 'sf' objects
in R. The package includes a wide range of geospatial data available
at various geographic scales and for various years with harmonized
attributes, projection and fixed topology.
Author: Rafael H. M. Pereira [aut, cre]
(<https://orcid.org/0000-0003-2125-7465>),
Caio Nogueira Goncalves [aut],
Paulo Henrique Fernandes de Araujo [ctb],
Guilherme Duarte Carvalho [ctb],
Rodrigo Almeida de Arruda [ctb],
Igor Nascimento [ctb],
Barbara Santiago Pedreira da Costa [ctb],
Welligtton Silva Cavedo [ctb],
Pedro R. Andrade [ctb],
Alan da Silva [ctb],
Carlos Kauê Vieira Braga [ctb],
Carl Schmertmann [ctb],
Alessandro Samuel-Rosa [ctb],
Daniel Ferreira [ctb],
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geobr versions 1.6 dated 2021-04-14 and 1.6.1 dated 2021-04-16
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- R/utils.R | 3 +-- build/partial.rdb |binary tests/testthat/test-download_metadata.R | 2 ++ 5 files changed, 13 insertions(+), 12 deletions(-)
Title: Simplified Statistics for PA 606
Description: Simplifies functions assess normality for bivariate and multivariate statistical techniques, including hst(), box(), and qq(). Plots designed to replicate those that would result from similar calls in 'SPSS'. Also includes simplified formulae, such as mode(), scatter(), and ow.anova().
Author: Burrel Vann Jr [aut, cre]
Maintainer: Burrel Vann Jr <bvannjr@sdsu.edu>
Diff between vannstats versions 1.0.3.27 dated 2021-04-06 and 1.0.4.15 dated 2021-04-16
DESCRIPTION | 12 ++++++------ MD5 | 22 ++++++++++++++-------- NAMESPACE | 10 ++++++++++ R/box.R | 8 ++++---- R/hst.R | 29 ++++++++++++++++------------- R/ow.anova.R |only R/p.corr.R |only R/qq.R | 8 ++++---- R/scatter.R |only man/box.Rd | 8 ++++---- man/hst.Rd | 8 ++++---- man/ow.anova.Rd |only man/p.corr.Rd |only man/qq.Rd | 8 ++++---- man/scatter.Rd |only 15 files changed, 66 insertions(+), 47 deletions(-)
Title: Syntax Highlighting for R Source Code
Description: Provides syntax highlighting for R source code. Currently it
supports LaTeX and HTML output. Source code of other languages is supported
via Andre Simon's highlight package (<http://www.andre-simon.de>).
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Yixuan Qiu [aut],
Christopher Gandrud [ctb],
Qiang Li [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between highr versions 0.8 dated 2019-03-20 and 0.9 dated 2021-04-16
highr-0.8/highr/NEWS |only highr-0.8/highr/README.md |only highr-0.9/highr/DESCRIPTION | 27 +++--- highr-0.9/highr/MD5 | 25 +++--- highr-0.9/highr/R/highlight.R | 7 - highr-0.9/highr/R/utils.R | 24 ------ highr-0.9/highr/build/vignette.rds |binary highr-0.9/highr/inst/NEWS.Rd |only highr-0.9/highr/inst/doc/highr-custom.R | 6 - highr-0.9/highr/inst/doc/highr-custom.html | 6 - highr-0.9/highr/inst/doc/highr-internals.R | 18 ++-- highr-0.9/highr/inst/doc/highr-internals.html | 104 ++++++++++++-------------- highr-0.9/highr/man/hi_andre.Rd | 2 highr-0.9/highr/man/hilight.Rd | 15 ++- highr-0.9/highr/tests/testit/test-utils.R | 19 ---- 15 files changed, 105 insertions(+), 148 deletions(-)
Title: Diagnostic Tools and Unit Tests for Statistical Estimators
Description: Extension of 'testthat' package to make unit tests on empirical distributions of estimators and functions for diagnostics of their finite-sample performance.
Author: Dmitry Otryakhin [aut, cre] (<https://orcid.org/0000-0002-4700-7221>)
Maintainer: Dmitry Otryakhin <d.otryakhin.acad@protonmail.ch>
Diff between EstimDiagnostics versions 0.0.2 dated 2021-03-07 and 0.0.3 dated 2021-04-16
DESCRIPTION | 7 ++---- MD5 | 8 +++---- NEWS.md | 4 +++ build/vignette.rds |binary inst/doc/Testing-estimators-with-EstimDiagnostics.html | 18 ++++++++--------- 5 files changed, 20 insertions(+), 17 deletions(-)
More information about EstimDiagnostics at CRAN
Permanent link
Title: Desirability Functions for Ranking, Selecting, and Integrating
Data
Description: Functions for (1) ranking, selecting, and prioritising genes,
proteins, and metabolites from high dimensional biology experiments, (2)
multivariate hit calling in high content screens, and (3) combining data
from diverse sources.
Author: Stanley E. Lazic
Maintainer: Stanley E. Lazic <stan.lazic@cantab.net>
Diff between desiR versions 1.2.1 dated 2016-12-10 and 1.2.2 dated 2021-04-16
desiR-1.2.1/desiR/vignettes/Gene_ranking.html |only desiR-1.2.2/desiR/DESCRIPTION | 13 +++++----- desiR-1.2.2/desiR/MD5 | 31 ++++++++++++-------------- desiR-1.2.2/desiR/build/vignette.rds |binary desiR-1.2.2/desiR/inst/doc/Gene_ranking.R | 18 +++++++-------- desiR-1.2.2/desiR/inst/doc/Gene_ranking.Rmd | 2 - desiR-1.2.2/desiR/inst/doc/Gene_ranking.pdf |binary desiR-1.2.2/desiR/man/d.4pl.Rd | 1 desiR-1.2.2/desiR/man/d.central.Rd | 1 desiR-1.2.2/desiR/man/d.ends.Rd | 1 desiR-1.2.2/desiR/man/d.high.Rd | 1 desiR-1.2.2/desiR/man/d.low.Rd | 1 desiR-1.2.2/desiR/man/d.overall.Rd | 1 desiR-1.2.2/desiR/man/d.rank.Rd | 1 desiR-1.2.2/desiR/man/des.line.Rd | 1 desiR-1.2.2/desiR/man/farmer2005.Rd | 7 +++-- desiR-1.2.2/desiR/vignettes/Gene_ranking.Rmd | 2 - 17 files changed, 37 insertions(+), 44 deletions(-)
Title: Dependency Logo
Description: Plots dependency logos from a set of aligned input sequences.
Author: Jan Grau [aut, cre],
Jens Keilwagen [aut],
Martin Nettling [aut]
Maintainer: Jan Grau <grau@informatik.uni-halle.de>
Diff between DepLogo versions 1.0 dated 2019-03-13 and 1.2 dated 2021-04-16
DepLogo-1.0/DepLogo/vignettes/references.bib |only DepLogo-1.2/DepLogo/DESCRIPTION | 12 +- DepLogo-1.2/DepLogo/MD5 | 67 ++++++------ DepLogo-1.2/DepLogo/R/DepLogoR.R | 117 ++++++++++++---------- DepLogo-1.2/DepLogo/build/vignette.rds |binary DepLogo-1.2/DepLogo/inst/CITATION |only DepLogo-1.2/DepLogo/inst/doc/DepLogo.Rmd | 5 DepLogo-1.2/DepLogo/inst/doc/DepLogo.html | 57 +++++----- DepLogo-1.2/DepLogo/man/DLData.Rd | 16 ++- DepLogo-1.2/DepLogo/man/alphabet.dna.Rd | 4 DepLogo-1.2/DepLogo/man/alphabet.dna.gap.Rd | 4 DepLogo-1.2/DepLogo/man/alphabet.protein.Rd | 4 DepLogo-1.2/DepLogo/man/alphabet.protein.gap.Rd | 4 DepLogo-1.2/DepLogo/man/alphabet.rna.Rd | 4 DepLogo-1.2/DepLogo/man/alphabet.rna.gap.Rd | 4 DepLogo-1.2/DepLogo/man/colorchart.Rd | 2 DepLogo-1.2/DepLogo/man/deprects.Rd | 2 DepLogo-1.2/DepLogo/man/filter.by.conservation.Rd | 2 DepLogo-1.2/DepLogo/man/filter.by.dependencies.Rd | 2 DepLogo-1.2/DepLogo/man/filter.by.gaps.Rd | 4 DepLogo-1.2/DepLogo/man/filterColumns.Rd | 4 DepLogo-1.2/DepLogo/man/getDeps.Rd | 8 - DepLogo-1.2/DepLogo/man/getPWM.Rd | 4 DepLogo-1.2/DepLogo/man/logo.Rd | 2 DepLogo-1.2/DepLogo/man/partition.Rd | 19 ++- DepLogo-1.2/DepLogo/man/plotBlocks.Rd | 12 +- DepLogo-1.2/DepLogo/man/plotDeparcs.Rd | 12 +- DepLogo-1.2/DepLogo/man/plotDeplogo.Rd | 49 ++++++--- DepLogo-1.2/DepLogo/man/plotDepmatrix.Rd | 12 +- DepLogo-1.2/DepLogo/man/replaceColors.Rd | 4 DepLogo-1.2/DepLogo/man/subBoxes.Rd | 2 DepLogo-1.2/DepLogo/man/subLines.Rd | 2 DepLogo-1.2/DepLogo/man/suggestColors.Rd | 2 DepLogo-1.2/DepLogo/tests/testthat/Rplots.pdf |binary DepLogo-1.2/DepLogo/vignettes/DepLogo.Rmd | 5 DepLogo-1.2/DepLogo/vignettes/references.bibtex |only 36 files changed, 269 insertions(+), 178 deletions(-)
Title: Import Data in the JCAMP-DX Format
Description: Import data written in the JCAMP-DX format. This is an instrument-independent format used in the field of spectroscopy. Examples include IR, NMR, and Raman spectroscopy. See the vignette for background and supported formats. The official JCAMP-DX site is <http://www.jcamp-dx.org/>.
Author: Bryan A. Hanson [aut, cre] (<https://orcid.org/0000-0003-3536-8246>)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between readJDX versions 0.5.36 dated 2021-03-15 and 0.5.41 dated 2021-04-16
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS.md | 4 ++++ inst/doc/GuideToVignettes.pdf |binary inst/doc/MiniDIFDUP_1.pdf |binary inst/doc/MiniDIFDUP_2.pdf |binary inst/doc/ProgramFlow.pdf |binary inst/doc/readJDX.pdf |binary 8 files changed, 16 insertions(+), 12 deletions(-)
Title: Tools for Quantitative Risk Management
Description: Functions and data sets for reproducing selected results from
the book "Quantitative Risk Management: Concepts, Techniques and Tools".
Furthermore, new developments and auxiliary functions for Quantitative
Risk Management practice.
Author: Marius Hofert [aut, cre],
Kurt Hornik [aut],
Alexander J. McNeil [aut]
Maintainer: Marius Hofert <marius.hofert@uwaterloo.ca>
Diff between qrmtools versions 0.0-13 dated 2020-04-19 and 0.0-14 dated 2021-04-16
qrmtools-0.0-13/qrmtools/man/edf_plot.Rd |only qrmtools-0.0-14/qrmtools/DESCRIPTION | 13 qrmtools-0.0-14/qrmtools/MD5 | 26 qrmtools-0.0-14/qrmtools/NAMESPACE | 8 qrmtools-0.0-14/qrmtools/R/Brownian.R |only qrmtools-0.0-14/qrmtools/R/fit_GPD.R | 2 qrmtools-0.0-14/qrmtools/R/graphics.R | 133 qrmtools-0.0-14/qrmtools/build/vignette.rds |binary qrmtools-0.0-14/qrmtools/inst/NEWS.Rd | 8 qrmtools-0.0-14/qrmtools/inst/doc/ARMA_GARCH_VaR.html | 401 +- qrmtools-0.0-14/qrmtools/inst/doc/VaR_bounds.html | 1421 +++++----- qrmtools-0.0-14/qrmtools/inst/doc/geometric_risk_measures.html | 331 +- qrmtools-0.0-14/qrmtools/man/Brownian.Rd |only qrmtools-0.0-14/qrmtools/man/VaR_ES_bounds_analytical.Rd | 2 qrmtools-0.0-14/qrmtools/man/VaR_ES_bounds_rearrange.Rd | 6 qrmtools-0.0-14/qrmtools/man/stepfun_plot.Rd |only 16 files changed, 1294 insertions(+), 1057 deletions(-)
Title: Entropy Partitioning to Measure Diversity
Description: Measurement and partitioning of diversity, based on Tsallis entropy, following Marcon and Herault (2015) <doi:10.18637/jss.v067.i08>.
'entropart' provides functions to calculate alpha, beta and gamma diversity of communities, including phylogenetic and functional diversity.
Estimation-bias corrections are available.
Author: Eric Marcon [aut, cre] (<https://orcid.org/0000-0002-5249-321X>),
Bruno Herault [aut] (<https://orcid.org/0000-0002-6950-7286>)
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between entropart versions 1.6-6 dated 2020-11-03 and 1.6-7 dated 2021-04-16
DESCRIPTION | 10 MD5 | 98 ++++---- NEWS.md | 18 + R/AbdFreqCount.R | 8 R/Accumulation.R | 17 - R/AllenH.R | 2 R/CEnvelope.R | 16 - R/ChaoPD.R | 2 R/CommunityProfile.R | 44 ++- R/DivEst.R | 34 ++ R/DivPart.R | 8 R/DivProfile.R | 21 + R/EntropyCI.R | 2 R/Hqz.R | 10 R/MCdiversity.R | 7 R/MCentropy.R | 5 R/MergeC.R | 2 R/MergeMC.R | 2 R/MetaCommunity.R | 17 + R/PhyloApply.R | 10 R/PhyloDiversity.R | 2 R/PhyloEntropy.R | 2 R/PhyloValue.R | 10 R/Preprocess.MC.R | 2 R/Richness.R | 12 - R/Shannon.R | 16 - R/ShannonBeta.R | 10 R/ShuffleMC.R | 6 R/SimTest.R | 2 R/SpeciesDistribution.R | 26 +- R/Tsallis.R | 22 - R/expq.R | 6 R/lnq.R | 6 R/mergeandlabel.R | 2 README.md | 8 build/vignette.rds |binary inst/doc/entropart.Rmd | 2 inst/doc/entropart.html | 477 ++++++++++++------------------------------ man/Accumulation.Rd | 19 + man/CommunityProfile.Rd | 34 ++ man/DivEst.Rd | 29 ++ man/DivPart.Rd | 9 man/DivProfile.Rd | 14 + man/MCdiversity.Rd | 9 man/MCentropy.Rd | 9 man/PhyloValue.Rd | 15 + man/Richness.Rd | 6 man/SpeciesDistribution.Rd | 14 + tests/testthat/testCoverage.R | 4 vignettes/entropart.Rmd | 2 50 files changed, 550 insertions(+), 558 deletions(-)
Title: SciViews - Manage GUIs in R
Description: The 'SciViews' 'svGUI' package eases the management of Graphical
User Interfaces (GUI) in R. It is independent from any particular GUI widgets
('Tk', 'Gtk2', native, ...). It centralizes info about GUI elements currently
used, and it dispatches GUI calls to the particular toolkits in use in
function of the context (is R run at the terminal, within a 'Tk' application,
a HTML page?).
Author: Philippe Grosjean [aut, cre] (<https://orcid.org/0000-0002-2694-9471>)
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between svGUI versions 1.0.0 dated 2018-04-23 and 1.0.1 dated 2021-04-16
svGUI-1.0.0/svGUI/TODO |only svGUI-1.0.1/svGUI/DESCRIPTION | 33 +- svGUI-1.0.1/svGUI/MD5 | 42 +- svGUI-1.0.1/svGUI/NEWS.md |only svGUI-1.0.1/svGUI/R/gui.R | 4 svGUI-1.0.1/svGUI/R/gui_add.R | 25 + svGUI-1.0.1/svGUI/R/setUI.R | 9 svGUI-1.0.1/svGUI/R/svGUI-internal.R | 10 svGUI-1.0.1/svGUI/R/svGUI-package.R | 65 ++-- svGUI-1.0.1/svGUI/build/vignette.rds |binary svGUI-1.0.1/svGUI/inst/CITATION | 6 svGUI-1.0.1/svGUI/inst/WORDLIST |only svGUI-1.0.1/svGUI/inst/doc/svGUI.R | 10 svGUI-1.0.1/svGUI/inst/doc/svGUI.Rmd | 26 - svGUI-1.0.1/svGUI/inst/doc/svGUI.html | 378 +++++++++++++++++++----- svGUI-1.0.1/svGUI/man/dont_ask.Rd | 4 svGUI-1.0.1/svGUI/man/gui.Rd | 4 svGUI-1.0.1/svGUI/man/gui_add.Rd | 24 - svGUI-1.0.1/svGUI/man/setUI.Rd | 25 - svGUI-1.0.1/svGUI/man/svGUI-package.Rd | 88 +++-- svGUI-1.0.1/svGUI/tests/spelling.R |only svGUI-1.0.1/svGUI/tests/testthat/test-gui.R | 87 +++++ svGUI-1.0.1/svGUI/tests/testthat/test-gui_add.R | 42 ++ svGUI-1.0.1/svGUI/vignettes/svGUI.Rmd | 26 - 24 files changed, 665 insertions(+), 243 deletions(-)
Title: R Interface to 'ONNX'
Description: R Interface to 'ONNX' - Open Neural Network Exchange <https://onnx.ai/>.
'ONNX' provides an open source format for machine learning models.
It defines an extensible computation graph model, as well as definitions
of built-in operators and standard data types.
Author: Yuan Tang [aut, cre] (<https://orcid.org/0000-0001-5243-233X>),
ONNX Authors [aut, cph],
Facebook, Inc. [cph],
Microsoft Corporation [cph]
Maintainer: Yuan Tang <terrytangyuan@gmail.com>
Diff between onnx versions 0.0.2 dated 2018-04-25 and 0.0.3 dated 2021-04-16
DESCRIPTION | 11 MD5 | 26 - NAMESPACE | 18 - NEWS.md | 5 README.md | 8 build/vignette.rds |binary inst/doc/onnx_model_zoo.R | 10 inst/doc/onnx_model_zoo.Rmd | 2 inst/doc/onnx_model_zoo.html | 327 +++++++----------------- inst/doc/protobufs.R | 16 - inst/doc/protobufs.html | 563 ++++++++++++++++--------------------------- man/maker.Rd | 5 man/onnx.Rd | 1 vignettes/onnx_model_zoo.Rmd | 2 14 files changed, 355 insertions(+), 639 deletions(-)
Title: Weighted Metrics, Scoring Functions and Performance Measures for
Machine Learning
Description: Provides weighted versions of several metrics, scoring
functions and performance measures used in machine learning, including
average unit deviances of the Bernoulli, Tweedie, Poisson, and Gamma
distributions, see Jorgensen B. (1997, ISBN: 978-0412997112). The
package also contains a weighted version of generalized R-squared, see
e.g. Cohen, J. et al. (2002, ISBN: 978-0805822236). Furthermore,
'dplyr' chains are supported.
Author: Michael Mayer [aut, cre, cph],
Christian Lorentzen [ctb, rev]
Maintainer: Michael Mayer <mayermichael79@gmail.com>
Diff between MetricsWeighted versions 0.5.1 dated 2020-04-18 and 0.5.2 dated 2021-04-16
DESCRIPTION | 27 - MD5 | 44 +- NAMESPACE | 82 ++--- NEWS.md | 4 R/deviance_gamma.R | 4 R/deviance_normal.R | 4 R/deviance_poisson.R | 4 R/deviance_tweedie.R | 4 R/elementary_score.R | 4 R/prop_within.R | 2 R/r_squared.R | 4 README.md | 4 build/vignette.rds |binary inst/doc/MetricsWeighted.Rmd | 3 inst/doc/MetricsWeighted.html | 644 ++++++++++++++++-------------------------- man/deviance_gamma.Rd | 4 man/deviance_normal.Rd | 4 man/deviance_poisson.Rd | 4 man/deviance_tweedie.Rd | 4 man/elementary_score.Rd | 4 man/prop_within.Rd | 2 man/r_squared.Rd | 4 vignettes/MetricsWeighted.Rmd | 3 23 files changed, 362 insertions(+), 501 deletions(-)
More information about MetricsWeighted at CRAN
Permanent link
Title: Fit the Gambin Model to Species Abundance Distributions
Description: Fits unimodal and multimodal gambin distributions to species-abundance distributions
from ecological data, as in in Matthews et al. (2014) <DOI:10.1111/ecog.00861>.
'gambin' is short for 'gamma-binomial'. The main function is fit_abundances(), which estimates
the 'alpha' parameter(s) of the gambin distribution using maximum likelihood. Functions are
also provided to generate the gambin distribution and for calculating likelihood statistics.
Author: Thomas Matthews [aut, cre],
Michael Krabbe Borregaard [aut],
Karl Ugland [aut],
Colin Gillespie [aut]
Maintainer: Thomas Matthews <txm676@gmail.com>
Diff between gambin versions 2.4.4 dated 2020-06-02 and 2.5.0 dated 2021-04-16
DESCRIPTION | 10 +- MD5 | 32 +++--- NAMESPACE | 2 README.md | 21 +++- build/vignette.rds |binary inst/doc/overview.html | 163 +++++++++++++++++++++-------------- man/categ.Rd | 44 ++++----- man/create_octaves.Rd | 60 ++++++------ man/deconstruct_modes.Rd | 218 +++++++++++++++++++++++------------------------ man/dgambin.Rd | 178 +++++++++++++++++++------------------- man/fit_abundances.Rd | 132 ++++++++++++++-------------- man/fly.Rd | 44 ++++----- man/gambin-package.Rd | 136 ++++++++++++++--------------- man/logLik.gambin.Rd | 82 ++++++++--------- man/moths.Rd | 32 +++--- man/mult_abundances.Rd | 142 +++++++++++++++--------------- man/summary.gambin.Rd | 124 +++++++++++++------------- 17 files changed, 736 insertions(+), 684 deletions(-)
Title: Distance-Based Measures of Spatial Structures
Description: Simple computation of spatial statistic functions of distance to characterize the spatial structures of mapped objects, following Marcon, Traissac, Puech, and Lang (2015) <doi:10.18637/jss.v067.c03>.
Includes classical functions (Ripley's K and others) and more recent ones used by spatial economists (Duranton and Overman's Kd, Marcon and Puech's M).
Relies on 'spatstat' for some core calculation.
Author: Eric Marcon [aut, cre] (<https://orcid.org/0000-0002-5249-321X>),
Gabriel Lang [aut] (<https://orcid.org/0000-0002-4325-6044>),
Stephane Traissac [aut] (<https://orcid.org/0000-0001-9255-1616>),
Florence Puech [aut] (<https://orcid.org/0000-0002-5279-6878>)
Maintainer: Eric Marcon <eric.marcon@agroparistech.fr>
Diff between dbmss versions 2.7-4 dated 2021-01-25 and 2.7-5 dated 2021-04-16
DESCRIPTION | 10 - MD5 | 134 ++++++++++---------- NAMESPACE | 10 - NEWS.md | 13 +- R/CheckdbmssArguments.R | 19 ++ R/Dhat.R | 11 + R/GoFtest.R | 8 - R/Kdhat.R | 7 - R/Ktest.r | 14 +- R/Mhat.R | 12 + R/autoplot.R | 201 +++++++++++++++++++++++++++---- R/ghat.R | 11 + R/m_hat.R | 20 +-- R/rPopulationIndependenceM.R | 2 R/rRandomLocation.R | 2 README.md | 3 build/vignette.rds |binary inst/doc/dbmss.R | 19 +- inst/doc/dbmss.Rmd | 19 +- inst/doc/dbmss.html | 258 ++++------------------------------------ man/CheckdbmssArguments.Rd | 5 man/DEnvelope.Rd | 10 - man/Dhat.Rd | 8 - man/Dtable.Rd | 3 man/FillEnvelope.Rd | 6 man/GlobalEnvelope.Rd | 6 man/GoFtest.Rd | 8 - man/KEnvelope.Rd | 10 - man/KdEnvelope.Rd | 8 - man/Kdhat.Rd | 7 - man/Khat.Rd | 8 - man/KinhomEnvelope.Rd | 11 - man/Kinhomhat.Rd | 5 man/KmmEnvelope.Rd | 10 - man/Kmmhat.Rd | 10 - man/Ktest.Rd | 4 man/LEnvelope.Rd | 10 - man/Lhat.Rd | 10 - man/LmmEnvelope.Rd | 10 - man/Lmmhat.Rd | 10 - man/MEnvelope.Rd | 10 - man/Mhat.Rd | 7 - man/Rcpp.Rd | 5 man/as.Dtable.Rd | 3 man/as.wmppp.Rd | 3 man/autoplot.Rd | 64 ++++++++- man/dbmss-package.Rd | 2 man/dbmssEnvelope.Rd | 5 man/envelope.Dtable.Rd | 2 man/gEnvelope.Rd | 10 - man/generic.spatstat.Rd | 4 man/ghat.Rd | 8 - man/is.wmppp.Rd | 4 man/m_Envelope.Rd | 10 - man/m_hat.Rd | 7 - man/paracou16.Rd | 2 man/print.dbmssEnvelope.Rd | 7 - man/rPopulationIndependenceK.Rd | 4 man/rPopulationIndependenceM.Rd | 4 man/rRandomLabeling.Rd | 4 man/rRandomLabelingM.Rd | 4 man/rRandomLocation.Rd | 7 - man/rRandomPositionK.Rd | 6 man/summary.dbmssEnvelope.Rd | 8 - man/wmppp.Rd | 3 man/wmppp.object.Rd | 8 - src/CountNbd.cpp | 77 +++++------ vignettes/dbmss.Rmd | 19 +- 68 files changed, 575 insertions(+), 654 deletions(-)
Title: Data Package 'Frictionless Data'
Description: Work with 'Frictionless Data Packages' (<https://specs.frictionlessdata.io//data-package/>). Allows to load and validate any descriptor for a data package profile, create and modify descriptors and provides expose methods for reading and streaming data in the package. When a descriptor is a 'Tabular Data Package', it uses the 'Table Schema' package (<https://CRAN.R-project.org/package=tableschema.r>) and exposes its functionality, for each resource object in the resources field.
Author: Kleanthis Koupidis [aut, cre],
Lazaros Ioannidis [aut],
Charalampos Bratsas [aut],
Open Knowledge International [cph]
Maintainer: Kleanthis Koupidis <koupidis.okfgr@gmail.com>
Diff between datapackage.r versions 1.3.2 dated 2021-01-14 and 1.3.3 dated 2021-04-16
DESCRIPTION | 9 - MD5 | 26 ++--- NEWS.md | 4 README.md | 10 +- build/vignette.rds |binary inst/doc/creating_data_packages_in_r.html | 53 ++--------- inst/doc/using_data_packages_in_r.Rmd.html | 76 ++++------------ inst/profiles/fiscal-data-package.json | 4 inst/profiles/tabular-data-package.json | 2 inst/profiles/tabular-data-resource.json | 2 tests/testthat/inst/profiles/fiscal-data-package.json | 4 tests/testthat/inst/profiles/tabular-data-package.json | 2 tests/testthat/inst/profiles/tabular-data-resource.json | 2 tests/testthat/test-profile.R | 36 ------- 14 files changed, 67 insertions(+), 163 deletions(-)
Title: Cluster Ensembles
Description: CLUster Ensembles.
Author: Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>),
Walter Böhm [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between clue versions 0.3-58 dated 2020-12-03 and 0.3-59 dated 2021-04-16
DESCRIPTION | 6 +++--- MD5 | 28 ++++++++++++++-------------- build/partial.rdb |binary build/vignette.rds |binary data/CKME.rda |binary data/Cassini.rda |binary data/GVME.rda |binary data/GVME_Consensus.rda |binary data/Kinship82.rda |binary data/Kinship82_Consensus.rda |binary data/Phonemes.rda |binary inst/doc/clue.pdf |binary man/cl_bag.Rd | 2 +- man/cl_fuzziness.Rd | 2 +- man/lattice.Rd | 2 +- 15 files changed, 20 insertions(+), 20 deletions(-)
Title: Automatic Generation of Interactive Visualizations for
Statistical Results
Description: Functionalities to automatically generate interactive visualizations for
statistical results supported by 'ggfortify', such as time series, PCA,
clustering and survival analysis, with 'plotly.js' <https://plotly.com/> and
'ggplot2' style. The generated visualizations can also be easily extended
using 'ggplot2' and 'plotly' syntax while staying interactive.
Author: Yuan Tang [aut, cre] (<https://orcid.org/0000-0001-5243-233X>)
Maintainer: Yuan Tang <terrytangyuan@gmail.com>
Diff between autoplotly versions 0.1.2 dated 2018-04-21 and 0.1.3 dated 2021-04-16
DESCRIPTION | 13 ++++++------- MD5 | 20 ++++++++++---------- NEWS.md | 6 ++++++ build/vignette.rds |binary inst/CITATION | 6 ++++-- inst/doc/intro.R | 2 +- inst/doc/intro.Rmd | 6 +++--- inst/doc/intro.html | 6 +++--- man/autoplotly.Rd | 28 ++++++++++++++++++++-------- man/reexports.Rd | 5 +---- vignettes/intro.Rmd | 6 +++--- 11 files changed, 57 insertions(+), 41 deletions(-)
Title: Explainable Outlier Detection Through Decision Tree Conditioning
Description: Will try to fit decision trees that try to "predict" values for each column based on the values of each other column.
Along the way, each time a split is evaluated, it will take the observations that fall into each branch as a homogeneous
cluster in which it will search for outliers in the 1-d distribution of the column being predicted. Outliers are determined
according to confidence intervals in this 1-d distribution, and need to have a large gap with respect to the next observation
in sorted order to be flagged as outliers. Since outliers are searched for in a decision tree branch, it will know the conditions
that make it a rare observation compared to others that meet the same conditions, and the conditions will always be correlated
with the target variable (as it's being predicted from them). Full procedure is described in Cortes (2020) <arXiv:2001.00636>.
Loosely based on the 'GritBot' <https://www.rulequest.com/gritbot-info.html> software.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between outliertree versions 1.6.0 dated 2021-03-14 and 1.7.1 dated 2021-04-16
DESCRIPTION | 8 ++-- MD5 | 6 +-- src/Rwrapper.cpp | 107 +++++++++++++++++++++++++++++++++++------------------- src/fit_model.cpp | 6 +-- 4 files changed, 81 insertions(+), 46 deletions(-)
Title: Maximum Likelihood Inference on Multi-State Trees
Description: Inference of a multi-states birth-death model from a phylogeny, comprising a number of states N, birth and death rates for each state and on which edges each state appears. Inference is done using a hybrid approach: states are progressively added in a greedy approach. For a fixed number of states N the best model is selected via maximum likelihood. Reference: J. Barido-Sottani, T. G. Vaughan and T. Stadler (2018) <doi:10.1098/rsif.2018.0512>.
Author: Joelle Barido-Sottani [aut, cre]
Maintainer: Joelle Barido-Sottani <joelle.barido-sottani@m4x.org>
Diff between ML.MSBD versions 1.2.0 dated 2019-09-26 and 1.2.1 dated 2021-04-16
DESCRIPTION | 11 - MD5 | 12 - NEWS.md | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Using_ML.MSBD.R | 18 +- inst/doc/Using_ML.MSBD.html | 271 +++++++++++++++++++++++++++++++++++--------- 7 files changed, 245 insertions(+), 71 deletions(-)
Title: Create a Collection of 'tidymodels' Workflows
Description: A workflow is a combination of a model and preprocessors (e.g, a
formula, recipe, etc.) (Kuhn and Silge (2021) <https://www.tmwr.org/>). In
order to try different combinations of these, an object can be created that
contains many workflows. There are functions to create workflows en masse
as well as training them and visualizing the results.
Author: Max Kuhn [aut, cre] (<https://orcid.org/0000-0003-2402-136X>),
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between workflowsets versions 0.0.1 dated 2021-03-18 and 0.0.2 dated 2021-04-16
DESCRIPTION | 8 +- MD5 | 18 ++-- NEWS.md | 4 + R/checks.R | 35 ++++++++ R/workflow_map.R | 49 ++++++++---- README.md | 76 ++++++++++++------- inst/WORDLIST | 1 inst/doc/evaluating-different-predictor-sets.html | 88 +++++++++++----------- man/workflow_map.Rd | 3 tests/testthat/test-workflow-map.R | 59 ++++++++++++++ 10 files changed, 240 insertions(+), 101 deletions(-)
Title: Analysis of Tidal Datasets
Description: Contains functions for analysis and summary of tidal datasets. Also provides access to tidal data collected by the National Oceanic and Atmospheric Administration's Center for Operational Oceanographic Products and Services and the Permanent Service for Mean Sea Level. For detailed description and application examples, see Hill, T.D. and S.C. Anisfeld (2021) <doi:10.6084/m9.figshare.14161202.v1> and Hill, T.D. and S.C. Anisfeld (2015) <doi:10.1016/j.ecss.2015.06.004>.
Author: Troy Hill [aut, cre] (<https://orcid.org/0000-0003-2980-4099>),
Shimon Anisfeld [ctb]
Maintainer: Troy Hill <Hill.Troy@gmail.com>
Diff between VulnToolkit versions 1.1.1 dated 2021-03-11 and 1.1.2 dated 2021-04-16
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ NEWS | 13 +++++++++++++ R/noaa.r | 3 +-- README.md | 13 +++++++------ inst/CITATION | 17 ++++++++--------- inst/doc/Tidal_data.html | 12 ++++++------ 7 files changed, 46 insertions(+), 34 deletions(-)
Title: Machine Learning Models and Tools
Description: Meta-package for statistical and machine learning with a unified
interface for model fitting, prediction, performance assessment, and
presentation of results. Approaches for model fitting and prediction of
numerical, categorical, or censored time-to-event outcomes include
traditional regression models, regularization methods, tree-based methods,
support vector machines, neural networks, ensembles, data preprocessing,
filtering, and model tuning and selection. Performance metrics are provided
for model assessment and can be estimated with independent test sets, split
sampling, cross-validation, or bootstrap resampling. Resample estimation
can be executed in parallel for faster processing and nested in cases of
model tuning and selection. Modeling results can be summarized with
descriptive statistics; calibration curves; variable importance; partial
dependence plots; confusion matrices; and ROC, lift, and other performance
curves.
Author: Brian J Smith [aut, cre]
Maintainer: Brian J Smith <brian-j-smith@uiowa.edu>
Diff between MachineShop versions 2.7.0 dated 2021-03-02 and 2.8.0 dated 2021-04-16
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Title: Time Varying GARCH Modelling
Description: Simulation, estimation and inference for univariate and multivariate TV(s)-GARCH(p,q,r)-X models, where s indicates the number and shape of the transition functions, p is the ARCH order, q is the GARCH order, r is the asymmetry order, and 'X' indicates that covariates can be included. In the multivariate case, variances are estimated equation by equation and dynamic conditional correlations are allowed. The TV long-term component of the variance as in the multiplicative TV-GARCH model of Amado and Ter\"{a}svirta (2013) <doi:10.1016/j.jeconom.2013.03.006> introduces non-stationarity whereas the GARCH-X short-term component describes conditional heteroscedasticity. Maximisation by parts leads to consistent and asymptotically normal estimates.
Author: Susana Campos-Martins [aut, cre], Genaro Sucarrat [ctb]
Maintainer: Susana Campos-Martins <susana.martins@nuffield.ox.ac.uk>
Diff between tvgarch versions 1.0 dated 2021-02-05 and 2.0 dated 2021-04-16
DESCRIPTION | 12 +++++------ MD5 | 46 +++++++++++++++++++++++++++++------------- NAMESPACE | 53 ++++++++++++++++++++++++++++++++++++++----------- NEWS | 12 ++++++++++- R/coef.mtvgarch.R |only R/dccObj.R |only R/fitted.mtvgarch.R |only R/logLik.mtvgarch.R |only R/mtvgarch.R |only R/mtvgarchSim.R |only R/nobs.mtvgarch.R |only R/predict.mtvgarch.R |only R/predict.tvgarch.R | 2 - R/print.mtvgarch.R |only R/quantile.mtvgarch.R |only R/residuals.mtvgarch.R |only R/toLatex.mtvgarch.R |only R/tv.R | 16 +++++++++++--- R/tvObj.R | 16 +++++++++++--- R/tvgarch.R | 14 +++--------- R/tvgarchTest.R | 9 ++++---- R/vcov.mtvgarch.R |only R/vcov.tvgarch.R | 4 +-- man/coef.mtvgarch.Rd |only man/coef.tvgarch.Rd | 4 +-- man/dccObj.Rd |only man/garchObj.Rd | 16 +++++++------- man/mtvgarch.Rd |only man/mtvgarchSim.Rd |only man/tvgarch-package.Rd |only man/tvgarch.Rd | 13 ++++++------ man/tvgarchSim.Rd | 10 ++++----- man/tvgarchTest.Rd | 8 +++---- 33 files changed, 153 insertions(+), 82 deletions(-)
Title: 'SciViews' - Miscellaneous Functions
Description: Miscellaneous functions for 'SciViews' or general use: manage a
temporary environment attached to the search path for temporary variables you
do not want to save() or load(), test if 'Aqua', 'Mac', 'Win', ... Show
progress bar, etc.
Author: Philippe Grosjean [aut, cre] (<https://orcid.org/0000-0002-2694-9471>),
Romain Francois [ctb],
Kamil Barton [ctb]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between svMisc versions 1.1.0 dated 2018-06-30 and 1.1.4 dated 2021-04-16
svMisc-1.1.0/svMisc/TODO |only svMisc-1.1.4/svMisc/DESCRIPTION | 29 +- svMisc-1.1.4/svMisc/MD5 | 108 ++++---- svMisc-1.1.4/svMisc/NEWS.md |only svMisc-1.1.4/svMisc/R/Install.R | 4 svMisc-1.1.4/svMisc/R/about.R | 3 svMisc-1.1.4/svMisc/R/add_actions.R | 4 svMisc-1.1.4/svMisc/R/batch.R | 18 + svMisc-1.1.4/svMisc/R/capture_all.R | 9 svMisc-1.1.4/svMisc/R/completion.R | 23 + svMisc-1.1.4/svMisc/R/file_edit.R | 18 - svMisc-1.1.4/svMisc/R/is_xxx.R | 1 svMisc-1.1.4/svMisc/R/list_methods.R | 9 svMisc-1.1.4/svMisc/R/obj_browse.R | 3 svMisc-1.1.4/svMisc/R/parse_text.R | 3 svMisc-1.1.4/svMisc/R/rjson.R | 22 - svMisc-1.1.4/svMisc/R/search_web.R | 1 svMisc-1.1.4/svMisc/R/svMisc-package.R | 22 + svMisc-1.1.4/svMisc/R/system_file.R | 2 svMisc-1.1.4/svMisc/R/temp_env.R | 2 svMisc-1.1.4/svMisc/build/vignette.rds |binary svMisc-1.1.4/svMisc/inst/CITATION | 6 svMisc-1.1.4/svMisc/inst/WORDLIST |only svMisc-1.1.4/svMisc/inst/doc/svMisc.R |only svMisc-1.1.4/svMisc/inst/doc/svMisc.Rmd |only svMisc-1.1.4/svMisc/inst/doc/svMisc.html |only svMisc-1.1.4/svMisc/inst/doc/temporary_environment.R | 2 svMisc-1.1.4/svMisc/inst/doc/temporary_environment.Rmd | 9 svMisc-1.1.4/svMisc/inst/doc/temporary_environment.html | 204 +++++++++++++++- svMisc-1.1.4/svMisc/man/Install.Rd | 8 svMisc-1.1.4/svMisc/man/about.Rd | 8 svMisc-1.1.4/svMisc/man/add_actions.Rd | 28 +- svMisc-1.1.4/svMisc/man/batch.Rd | 18 - svMisc-1.1.4/svMisc/man/capture_all.Rd | 21 - svMisc-1.1.4/svMisc/man/compare_r_version.Rd | 4 svMisc-1.1.4/svMisc/man/completion.Rd | 30 +- svMisc-1.1.4/svMisc/man/def.Rd | 4 svMisc-1.1.4/svMisc/man/describe_function.Rd | 26 +- svMisc-1.1.4/svMisc/man/file_edit.Rd | 50 ++- svMisc-1.1.4/svMisc/man/gui_cmd.Rd | 4 svMisc-1.1.4/svMisc/man/is_help.Rd | 3 svMisc-1.1.4/svMisc/man/list_methods.Rd | 29 +- svMisc-1.1.4/svMisc/man/obj_browse.Rd | 93 +++++-- svMisc-1.1.4/svMisc/man/package.Rd | 15 - svMisc-1.1.4/svMisc/man/parse_text.Rd | 7 svMisc-1.1.4/svMisc/man/pkgman_describe.Rd | 24 + svMisc-1.1.4/svMisc/man/progress.Rd | 19 - svMisc-1.1.4/svMisc/man/search_web.Rd | 9 svMisc-1.1.4/svMisc/man/source_clipboard.Rd | 4 svMisc-1.1.4/svMisc/man/subsettable.Rd | 8 svMisc-1.1.4/svMisc/man/svMisc-package.Rd | 37 ++ svMisc-1.1.4/svMisc/man/system_file.Rd | 6 svMisc-1.1.4/svMisc/man/temp_env.Rd | 6 svMisc-1.1.4/svMisc/man/temp_var.Rd | 4 svMisc-1.1.4/svMisc/man/to_rjson.Rd | 9 svMisc-1.1.4/svMisc/tests/spelling.R |only svMisc-1.1.4/svMisc/tests/testthat/test-temp_env.R | 46 --- svMisc-1.1.4/svMisc/vignettes/svMisc.Rmd |only svMisc-1.1.4/svMisc/vignettes/temporary_environment.Rmd | 9 59 files changed, 661 insertions(+), 370 deletions(-)
Title: Regional Spatial Modeling with Continuous Borders
Description: Automatically creates separate regression models for different spatial
regions. The prediction surface is smoothed using a regional border smoothing
method. If regional models are continuous, the resulting prediction surface is
continuous across the spatial dimensions, even at region borders. Methodology
is described in Wagstaff (2021) <https://digitalcommons.usu.edu/etd/8065/>.
Author: Jadon Wagstaff [aut, cre],
Brennan Bean [aut]
Maintainer: Jadon Wagstaff <jadonw@gmail.com>
Diff between remap versions 0.2.0 dated 2021-01-14 and 0.2.1 dated 2021-04-16
DESCRIPTION | 26 +++++++++------ MD5 | 20 ++++++------ NAMESPACE | 1 NEWS.md | 14 ++++++++ R/redist.R | 4 +- R/remap.R | 57 ++++++++++++++++++++++++++++------ R/utils.R | 14 ++++---- build/vignette.rds |binary inst/CITATION |only inst/doc/Introduction_to_remap.html | 59 ++++++++---------------------------- man/remap.Rd | 13 ++++++- man/summary.remap.Rd |only 12 files changed, 120 insertions(+), 88 deletions(-)
Title: Preprocessing Tools to Create Design Matrices
Description: An extensible framework to create and preprocess
design matrices. Recipes consist of one or more data manipulation
and analysis "steps". Statistical parameters for the steps can
be estimated from an initial data set and then applied to
other data sets. The resulting design matrices can then be used
as inputs into statistical or machine learning models.
Author: Max Kuhn [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between recipes versions 0.1.15 dated 2020-11-11 and 0.1.16 dated 2021-04-16
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Title: 'sf'-Based Interface to the 'HERE' REST APIs
Description: Interface to the 'HERE' REST APIs <https://developer.here.com/develop/rest-apis>:
(1) geocode and autosuggest addresses or reverse geocode POIs using the 'Geocoder' API;
(2) route directions, travel distance or time matrices and isolines using the 'Routing', 'Matrix Routing' and 'Isoline Routing' APIs;
(3) request real-time traffic flow and incident information from the 'Traffic' API;
(4) find request public transport connections and nearby stations from the 'Public Transit' API;
(5) request intermodal routes using the 'Intermodal Routing' API;
(6) get weather forecasts, reports on current weather conditions, astronomical
information and alerts at a specific location from the 'Destination Weather' API.
Locations, routes and isolines are returned as 'sf' objects.
Author: Merlin Unterfinger [aut, cre] (<https://orcid.org/0000-0003-2020-2366>),
Daniel Possenriede [ctb] (<https://orcid.org/0000-0002-6738-9845>)
Maintainer: Merlin Unterfinger <info@munterfinger.ch>
Diff between hereR versions 0.6.1 dated 2021-02-01 and 0.7.0 dated 2021-04-16
hereR-0.6.1/hereR/R/authentication.R |only hereR-0.6.1/hereR/tests/testthat/test-get_content.R |only hereR-0.7.0/hereR/DESCRIPTION | 11 hereR-0.7.0/hereR/MD5 | 106 ++--- hereR-0.7.0/hereR/NAMESPACE | 1 hereR-0.7.0/hereR/NEWS.md | 10 hereR-0.7.0/hereR/R/autosuggest.R | 9 hereR-0.7.0/hereR/R/checks.R | 84 +++- hereR-0.7.0/hereR/R/connection.R | 5 hereR-0.7.0/hereR/R/flow.R | 5 hereR-0.7.0/hereR/R/geocode.R | 9 hereR-0.7.0/hereR/R/incident.R | 5 hereR-0.7.0/hereR/R/intermodal_route.R | 5 hereR-0.7.0/hereR/R/isoline.R | 52 +- hereR-0.7.0/hereR/R/options.R |only hereR-0.7.0/hereR/R/reverse_geocode.R | 5 hereR-0.7.0/hereR/R/route.R | 46 +- hereR-0.7.0/hereR/R/route_matrix.R | 19 - hereR-0.7.0/hereR/R/station.R | 5 hereR-0.7.0/hereR/R/sysdata.rda |binary hereR-0.7.0/hereR/R/utils.R | 146 ++++--- hereR-0.7.0/hereR/R/weather.R | 9 hereR-0.7.0/hereR/README.md | 2 hereR-0.7.0/hereR/build/vignette.rds |binary hereR-0.7.0/hereR/inst/doc/authentication.Rmd | 26 + hereR-0.7.0/hereR/inst/doc/authentication.html | 84 ++++ hereR-0.7.0/hereR/inst/doc/geocoder.html | 19 - hereR-0.7.0/hereR/inst/doc/intermodal.html | 117 +++--- hereR-0.7.0/hereR/inst/doc/routing.html | 105 +++-- hereR-0.7.0/hereR/inst/doc/traffic.html | 9 hereR-0.7.0/hereR/inst/doc/transit.html | 95 ++--- hereR-0.7.0/hereR/inst/doc/weather.html | 185 +++++----- hereR-0.7.0/hereR/man/isoline.Rd | 11 hereR-0.7.0/hereR/man/route.Rd | 14 hereR-0.7.0/hereR/man/route_matrix.Rd | 8 hereR-0.7.0/hereR/man/set_key.Rd | 2 hereR-0.7.0/hereR/man/set_rate_limit.Rd |only hereR-0.7.0/hereR/man/set_verbose.Rd | 2 hereR-0.7.0/hereR/man/unset_key.Rd | 2 hereR-0.7.0/hereR/tests/testthat/test-async_request.R |only hereR-0.7.0/hereR/tests/testthat/test-autosuggest.R | 2 hereR-0.7.0/hereR/tests/testthat/test-connection.R | 4 hereR-0.7.0/hereR/tests/testthat/test-flow.R | 2 hereR-0.7.0/hereR/tests/testthat/test-geocode.R | 4 hereR-0.7.0/hereR/tests/testthat/test-incident.R | 2 hereR-0.7.0/hereR/tests/testthat/test-intermodal_route.R | 2 hereR-0.7.0/hereR/tests/testthat/test-isoline.R | 7 hereR-0.7.0/hereR/tests/testthat/test-rate_limit.R |only hereR-0.7.0/hereR/tests/testthat/test-reverse_geocode.R | 4 hereR-0.7.0/hereR/tests/testthat/test-route.R | 6 hereR-0.7.0/hereR/tests/testthat/test-route_matrix.R | 6 hereR-0.7.0/hereR/tests/testthat/test-station.R | 2 hereR-0.7.0/hereR/tests/testthat/test-weather_alerts.R | 2 hereR-0.7.0/hereR/tests/testthat/test-weather_forecast_astronomy.R | 2 hereR-0.7.0/hereR/tests/testthat/test-weather_forecast_hourly.R | 2 hereR-0.7.0/hereR/tests/testthat/test-weather_observation.R | 2 hereR-0.7.0/hereR/vignettes/authentication.Rmd | 26 + 57 files changed, 762 insertions(+), 526 deletions(-)
Title: Create Constraints for Small Test Assembly Problems
Description: Provides simple functions to create constraints for small test assembly problems
(e.g. van der Linden (2005, ISBN: 978-0-387-29054-6)) using sparse matrices. Currently,
'GLPK', 'lpSolve', 'Symphony', and 'Gurobi' are supported as solvers. The 'gurobi' package is not available from
any mainstream repository; see <https://www.gurobi.com/downloads/>.
Author: Benjamin Becker [aut, cre],
Dries Debeer [aut]
Maintainer: Benjamin Becker <b.becker@iqb.hu-berlin.de>
Diff between eatATA versions 0.10.0 dated 2021-02-10 and 0.11.1 dated 2021-04-16
eatATA-0.10.0/eatATA/R/itemCategoryMinMax.R |only eatATA-0.10.0/eatATA/R/itemValuesMinMax.R |only eatATA-0.10.0/eatATA/R/items.R |only eatATA-0.10.0/eatATA/R/items_sim.R |only eatATA-0.10.0/eatATA/R/objectiveConstraint.R |only eatATA-0.10.0/eatATA/data/items.rda |only eatATA-0.10.0/eatATA/data/items_sim.rda |only eatATA-0.10.0/eatATA/inst/extdata/gurobi_out_feasible.RDS |only eatATA-0.10.0/eatATA/inst/extdata/gurobi_out_infeasible.RDS |only eatATA-0.10.0/eatATA/man/autoItemValuesMinMax.Rd |only eatATA-0.10.0/eatATA/man/cappedMaximinConstraint.Rd |only eatATA-0.10.0/eatATA/man/itemCategoryRange.Rd |only eatATA-0.10.0/eatATA/man/itemExclusionTuples.Rd |only eatATA-0.10.0/eatATA/man/itemValuesRange.Rd |only eatATA-0.10.0/eatATA/man/items.Rd |only eatATA-0.10.0/eatATA/man/items_sim.Rd |only eatATA-0.10.0/eatATA/man/maxConstraint.Rd |only eatATA-0.10.0/eatATA/man/maximinConstraint.Rd |only eatATA-0.10.0/eatATA/man/minConstraint.Rd |only eatATA-0.10.0/eatATA/man/minimaxConstraint.Rd |only eatATA-0.11.1/eatATA/DESCRIPTION | 6 eatATA-0.11.1/eatATA/MD5 | 144 +++---- eatATA-0.11.1/eatATA/NAMESPACE | 32 - eatATA-0.11.1/eatATA/NEWS.md | 17 eatATA-0.11.1/eatATA/R/analyzeBlockExclusion.R | 6 eatATA-0.11.1/eatATA/R/appendSolution.R | 2 eatATA-0.11.1/eatATA/R/autoItemValuesMinMax.R | 16 eatATA-0.11.1/eatATA/R/computeTargetValues.R | 14 eatATA-0.11.1/eatATA/R/inspectSolution.R | 2 eatATA-0.11.1/eatATA/R/itemCategoryMinMaxConstraint.R |only eatATA-0.11.1/eatATA/R/itemExclusionConstraint.R | 131 ++---- eatATA-0.11.1/eatATA/R/itemTuples.R |only eatATA-0.11.1/eatATA/R/itemUsageConstraint.R | 27 + eatATA-0.11.1/eatATA/R/itemValuesMinMaxConstraint.R |only eatATA-0.11.1/eatATA/R/items_pools.R |only eatATA-0.11.1/eatATA/R/matrixExlusionTuples.R | 94 ++-- eatATA-0.11.1/eatATA/R/objectives.R |only eatATA-0.11.1/eatATA/R/stemInclusionTuples.R |only eatATA-0.11.1/eatATA/R/useSolver.R | 2 eatATA-0.11.1/eatATA/R/utils.R | 94 ++++ eatATA-0.11.1/eatATA/README.md | 22 - eatATA-0.11.1/eatATA/build/vignette.rds |binary eatATA-0.11.1/eatATA/data/items_diao.rda |only eatATA-0.11.1/eatATA/data/items_lsa.rda |only eatATA-0.11.1/eatATA/data/items_mini.rda |only eatATA-0.11.1/eatATA/data/items_pilot.rda |only eatATA-0.11.1/eatATA/data/items_vera.rda |only eatATA-0.11.1/eatATA/inst/doc/minimal_example.R | 32 - eatATA-0.11.1/eatATA/inst/doc/minimal_example.Rmd | 38 + eatATA-0.11.1/eatATA/inst/doc/minimal_example.html | 200 ++++++---- eatATA-0.11.1/eatATA/inst/doc/overview.Rmd | 33 + eatATA-0.11.1/eatATA/inst/doc/overview.html | 41 +- eatATA-0.11.1/eatATA/inst/doc/use_case_pilot_study.R | 58 +- eatATA-0.11.1/eatATA/inst/doc/use_case_pilot_study.Rmd | 62 +-- eatATA-0.11.1/eatATA/inst/doc/use_case_pilot_study.html | 156 +++---- eatATA-0.11.1/eatATA/inst/extdata/items.xlsx |binary eatATA-0.11.1/eatATA/man/analyzeBlockExclusion.Rd | 6 eatATA-0.11.1/eatATA/man/appendSolution.Rd | 2 eatATA-0.11.1/eatATA/man/autoItemValuesMinMaxConstraint.Rd |only eatATA-0.11.1/eatATA/man/cappedMaximinObjective.Rd |only eatATA-0.11.1/eatATA/man/computeTargetValues.Rd | 14 eatATA-0.11.1/eatATA/man/inspectSolution.Rd | 2 eatATA-0.11.1/eatATA/man/itemCategoryRangeConstraint.Rd |only eatATA-0.11.1/eatATA/man/itemExclusionConstraint.Rd | 50 +- eatATA-0.11.1/eatATA/man/itemTuples.Rd |only eatATA-0.11.1/eatATA/man/itemUsageConstraint.Rd | 14 eatATA-0.11.1/eatATA/man/itemValuesRangeConstraint.Rd |only eatATA-0.11.1/eatATA/man/items_diao.Rd |only eatATA-0.11.1/eatATA/man/items_lsa.Rd |only eatATA-0.11.1/eatATA/man/items_mini.Rd |only eatATA-0.11.1/eatATA/man/items_pilot.Rd |only eatATA-0.11.1/eatATA/man/items_vera.Rd |only eatATA-0.11.1/eatATA/man/maxObjective.Rd |only eatATA-0.11.1/eatATA/man/maximinObjective.Rd |only eatATA-0.11.1/eatATA/man/minObjective.Rd |only eatATA-0.11.1/eatATA/man/minimaxObjective.Rd |only eatATA-0.11.1/eatATA/man/stemInclusionTuples.Rd |only eatATA-0.11.1/eatATA/man/useSolver.Rd | 2 eatATA-0.11.1/eatATA/tests/testthat/test_analyzeBlockExclusion.R | 2 eatATA-0.11.1/eatATA/tests/testthat/test_analyzeComplexBlockExclusion.R | 4 eatATA-0.11.1/eatATA/tests/testthat/test_appendSolution.R | 2 eatATA-0.11.1/eatATA/tests/testthat/test_autoItemValuesMinMax.R | 22 - eatATA-0.11.1/eatATA/tests/testthat/test_check_solverOut.R | 2 eatATA-0.11.1/eatATA/tests/testthat/test_inspectSolution.R | 2 eatATA-0.11.1/eatATA/tests/testthat/test_itemCategoryConstraint.R | 22 - eatATA-0.11.1/eatATA/tests/testthat/test_itemExclusionConstraint.R | 87 +--- eatATA-0.11.1/eatATA/tests/testthat/test_itemTuples.R |only eatATA-0.11.1/eatATA/tests/testthat/test_itemUsageConstraint.R | 23 + eatATA-0.11.1/eatATA/tests/testthat/test_itemValuesConstraint.R | 10 eatATA-0.11.1/eatATA/tests/testthat/test_matrixExclusionTuples.R | 64 +-- eatATA-0.11.1/eatATA/tests/testthat/test_objectiveConstraint.R | 18 eatATA-0.11.1/eatATA/tests/testthat/test_stemInclusionTuples.R |only eatATA-0.11.1/eatATA/tests/testthat/test_useSolver.R | 4 eatATA-0.11.1/eatATA/tests/testthat/test_utils.R | 94 ++++ eatATA-0.11.1/eatATA/vignettes/minimal_example.Rmd | 38 + eatATA-0.11.1/eatATA/vignettes/overview.Rmd | 33 + eatATA-0.11.1/eatATA/vignettes/use_case_pilot_study.Rmd | 62 +-- 97 files changed, 1055 insertions(+), 753 deletions(-)
Title: Quantitative Structural Model ('QSM') Treatment for Tree
Architecture
Description: Provides a set of tools to manipulate, visualize and compute metrics from quantitative structural model of trees (i.e the so-called 'QSM') . It can be used in various context of forest ecology (i.e biomass estimation) and tree architecture (i.e architectural metrics), see Martin-Ducup et al. (2020) <doi:10.1111/1365-2435.13678>. The package is based on a new S4 class called 'aRchi'.
Author: Olivier Martin
Maintainer: Olivier Martin <oli.martin@ntymail.com>
Diff between aRchi versions 1.0.3 dated 2021-04-09 and 1.0.5 dated 2021-04-16
DESCRIPTION | 11 +++++------ MD5 | 16 ++++++++-------- NEWS | 11 ++++++++++- R/Make_Node.R | 4 ++-- R/SelectinQSM_3d.R | 7 ++++++- R/Truncate_QSM.R | 1 - R/plot.R | 6 +++--- R/read_QSM.R | 2 +- README.md | 4 +++- 9 files changed, 38 insertions(+), 24 deletions(-)
Title: Tidy Interface to 'data.table'
Description: A tidy interface to 'data.table' that is 'rlang' compatible,
giving users the speed of 'data.table' with the clean syntax of the tidyverse.
Author: Mark Fairbanks [aut, cre],
Abdessabour Moutik [ctb],
Matt Carlson [ctb],
Ivan Leung [ctb],
Ross Kennedy [ctb]
Maintainer: Mark Fairbanks <mark.t.fairbanks@gmail.com>
Diff between tidytable versions 0.6.0 dated 2021-04-02 and 0.6.1 dated 2021-04-16
tidytable-0.6.0/tidytable/R/lag_lead.R |only tidytable-0.6.1/tidytable/DESCRIPTION | 30 - tidytable-0.6.1/tidytable/MD5 | 166 +++++----- tidytable-0.6.1/tidytable/NAMESPACE | 4 tidytable-0.6.1/tidytable/NEWS.md | 19 + tidytable-0.6.1/tidytable/R/across.R |only tidytable-0.6.1/tidytable/R/as_tidytable.R | 1 tidytable-0.6.1/tidytable/R/case.R | 6 tidytable-0.6.1/tidytable/R/coalesce.R |only tidytable-0.6.1/tidytable/R/count.R | 4 tidytable-0.6.1/tidytable/R/desc.R | 3 tidytable-0.6.1/tidytable/R/distinct.R | 33 + tidytable-0.6.1/tidytable/R/drop_na.R | 4 tidytable-0.6.1/tidytable/R/dt.R | 10 tidytable-0.6.1/tidytable/R/expand.R | 1 tidytable-0.6.1/tidytable/R/extract.R | 1 tidytable-0.6.1/tidytable/R/fill.R | 17 - tidytable-0.6.1/tidytable/R/filter.R | 2 tidytable-0.6.1/tidytable/R/get_dummies.R | 1 tidytable-0.6.1/tidytable/R/group_split.R | 26 + tidytable-0.6.1/tidytable/R/ifelse.R | 6 tidytable-0.6.1/tidytable/R/inv_gc.R | 6 tidytable-0.6.1/tidytable/R/is_tidytable.R | 8 tidytable-0.6.1/tidytable/R/join.R | 85 +---- tidytable-0.6.1/tidytable/R/lag-lead.R |only tidytable-0.6.1/tidytable/R/map.R | 12 tidytable-0.6.1/tidytable/R/map2.R | 10 tidytable-0.6.1/tidytable/R/mutate.R | 44 +- tidytable-0.6.1/tidytable/R/mutate_across.R | 9 tidytable-0.6.1/tidytable/R/mutate_rowwise.R | 4 tidytable-0.6.1/tidytable/R/nest.R | 1 tidytable-0.6.1/tidytable/R/nest_by.R | 14 tidytable-0.6.1/tidytable/R/notin.R | 6 tidytable-0.6.1/tidytable/R/pivot_longer.R | 37 +- tidytable-0.6.1/tidytable/R/pivot_wider.R | 1 tidytable-0.6.1/tidytable/R/pull.R | 11 tidytable-0.6.1/tidytable/R/relocate.R | 28 - tidytable-0.6.1/tidytable/R/rename.R | 5 tidytable-0.6.1/tidytable/R/rename_with.R | 8 tidytable-0.6.1/tidytable/R/replace_na.R | 15 tidytable-0.6.1/tidytable/R/select.R | 4 tidytable-0.6.1/tidytable/R/separate.R | 1 tidytable-0.6.1/tidytable/R/summarize.R | 2 tidytable-0.6.1/tidytable/R/summarize_across.R | 9 tidytable-0.6.1/tidytable/R/tidytable-package.R | 12 tidytable-0.6.1/tidytable/R/tidytable.R | 1 tidytable-0.6.1/tidytable/R/top_n.R | 6 tidytable-0.6.1/tidytable/R/transmute.R | 1 tidytable-0.6.1/tidytable/R/uncount.R | 1 tidytable-0.6.1/tidytable/R/unite.R | 1 tidytable-0.6.1/tidytable/R/unnest.R | 32 - tidytable-0.6.1/tidytable/R/utils-across.R | 22 + tidytable-0.6.1/tidytable/R/utils-general.R | 5 tidytable-0.6.1/tidytable/R/utils-prep_exprs.R | 31 + tidytable-0.6.1/tidytable/README.md | 72 +++- tidytable-0.6.1/tidytable/man/across..Rd |only tidytable-0.6.1/tidytable/man/as_tidytable.Rd | 1 tidytable-0.6.1/tidytable/man/case..Rd | 2 tidytable-0.6.1/tidytable/man/coalesce..Rd |only tidytable-0.6.1/tidytable/man/count..Rd | 3 tidytable-0.6.1/tidytable/man/desc..Rd | 3 tidytable-0.6.1/tidytable/man/distinct..Rd | 3 tidytable-0.6.1/tidytable/man/drop_na..Rd | 3 tidytable-0.6.1/tidytable/man/dt.Rd | 9 tidytable-0.6.1/tidytable/man/fill..Rd | 16 tidytable-0.6.1/tidytable/man/grapes-notin-grapes.Rd | 2 tidytable-0.6.1/tidytable/man/group_split..Rd | 16 tidytable-0.6.1/tidytable/man/ifelse..Rd | 4 tidytable-0.6.1/tidytable/man/is_tidytable.Rd | 8 tidytable-0.6.1/tidytable/man/lags..Rd | 2 tidytable-0.6.1/tidytable/man/nest_by..Rd | 9 tidytable-0.6.1/tidytable/man/pull..Rd | 10 tidytable-0.6.1/tidytable/man/relocate..Rd | 9 tidytable-0.6.1/tidytable/man/rename..Rd | 4 tidytable-0.6.1/tidytable/man/rename_with..Rd | 3 tidytable-0.6.1/tidytable/man/select..Rd | 3 tidytable-0.6.1/tidytable/man/tidytable.Rd | 1 tidytable-0.6.1/tidytable/man/top_n..Rd | 3 tidytable-0.6.1/tidytable/man/unnest..Rd | 12 tidytable-0.6.1/tidytable/tests/testthat/test-across.R |only tidytable-0.6.1/tidytable/tests/testthat/test-case.R | 25 - tidytable-0.6.1/tidytable/tests/testthat/test-case_when.R | 24 - tidytable-0.6.1/tidytable/tests/testthat/test-coalesce.R |only tidytable-0.6.1/tidytable/tests/testthat/test-if_all-if_any.R | 13 tidytable-0.6.1/tidytable/tests/testthat/test-mutate_rowwise.R | 8 tidytable-0.6.1/tidytable/tests/testthat/test-pivot_longer.R | 111 ++++-- tidytable-0.6.1/tidytable/tests/testthat/test-replace_na.R | 7 tidytable-0.6.1/tidytable/tests/testthat/test-summarize_across.R | 6 88 files changed, 644 insertions(+), 514 deletions(-)
Title: Parse and Manipulate Research Patient Data Registry ('RPDR')
Text Queries
Description: Functions to load Research Patient Data Registry ('RPDR') text queries from Partners Healthcare institutions into R.
The package also provides helper functions to manipulate data and execute common procedures
such as finding the closest radiological exams considering a given timepoint. 'parseRPDR' currently supports
txt sources: mrn, con, dem, enc, rdt, lab, med, dia and rad.
All functionalities are parallelized for fast and efficient analyses.
Author: Marton Kolossvary [aut, cre]
Maintainer: Marton Kolossvary <mkolossvary@mgh.harvard.edu>
Diff between parseRPDR versions 0.0.1 dated 2021-03-15 and 0.0.2 dated 2021-04-16
DESCRIPTION | 8 +++---- MD5 | 43 +++++++++++++++++++++--------------------- NEWS.md |only R/ZZZ.R | 2 + R/convert_dia.R | 2 - R/convert_enc.R | 2 - R/convert_lab.R | 2 + R/convert_med.R | 2 - R/find_exam.R | 6 +++-- R/find_exam_bm.R | 17 ++++++---------- R/find_exam_ram.R | 11 +++------- R/load_dem.R | 4 +-- R/load_dia.R | 2 - R/load_enc.R | 4 +-- R/load_lab.R | 2 - R/load_med.R | 2 - R/load_rad.R | 2 - R/load_rdt.R | 2 - inst/doc/Using_parseRPDR.R | 2 - inst/doc/Using_parseRPDR.Rmd | 9 +++++--- inst/doc/Using_parseRPDR.html | 10 +++++---- man/find_exam.Rd | 6 +++-- vignettes/Using_parseRPDR.Rmd | 9 +++++--- 23 files changed, 80 insertions(+), 69 deletions(-)
Title: Estimation Methods for Causal Inference Based on Inverse
Probability Weighting
Description: Various estimators of causal effects based on inverse probability weighting, doubly robust estimation, and double machine learning. Specifically, the package includes methods for estimating average treatment effects, direct and indirect effects in causal mediation analysis, and dynamic treatment effects. The models refer to studies of Froelich (2007) <doi:10.1016/j.jeconom.2006.06.004>, Huber (2012) <doi:10.3102/1076998611411917>, Huber (2014) <doi:10.1080/07474938.2013.806197>, Huber (2014) <doi:10.1002/jae.2341>, Froelich and Huber (2017) <doi:10.1111/rssb.12232>, Hsu, Huber, Lee, and Lettry (2020) <doi:10.1002/jae.2765>, and others.
Author: Hugo Bodory [aut, cre] (<https://orcid.org/0000-0002-3645-1204>),
Martin Huber [aut] (<https://orcid.org/0000-0002-8590-9402>)
Maintainer: Hugo Bodory <hugo.bodory@unisg.ch>
Diff between causalweight versions 1.0.0 dated 2020-12-02 and 1.0.1 dated 2021-04-16
DESCRIPTION | 6 - MD5 | 47 +++++++---- NAMESPACE | 2 R/JC.R |only R/RDDcovar.R |only R/coffeeleaflet.R |only R/dyntreatDML.R | 187 ++++++++++++++++++++++++---------------------- R/functions.R | 113 +++++++++++++++++++-------- R/games.R | 4 R/medDML.R | 111 +++++++++++++-------------- R/treatDML.R | 130 +++++++++++++++++-------------- R/treatselDML.R | 161 +++++++++++++++++++++------------------ R/ubduration.R |only data/JC.RData |only data/coffeeleaflet.RData |only data/games.RData |binary data/swissexper.RData |binary data/ubduration.RData |only data/wexpect.RData |binary inst/doc/bodory-huber.pdf |binary man/JC.Rd |only man/RDDcovar.Rd |only man/coffeeleaflet.Rd |only man/didweight.Rd | 114 ++++++++++++++-------------- man/dyntreatDML.Rd | 7 + man/games.Rd | 122 ++++++++++++++---------------- man/medDML.Rd | 5 - man/treatDML.Rd | 5 - man/treatselDML.Rd | 7 + man/ubduration.Rd |only 30 files changed, 565 insertions(+), 456 deletions(-)
Title: Schedule R Scripts and Processes with the Windows Task Scheduler
Description: Schedule R scripts/processes with the Windows task scheduler. This
allows R users to automate R processes on specific time points from R itself.
Author: Jan Wijffels [aut, cre, cph],
BNOSAC [cph],
Oliver Belmans [cph, aut]
Maintainer: Jan Wijffels <jwijffels@bnosac.be>
Diff between taskscheduleR versions 1.4 dated 2018-10-24 and 1.5 dated 2021-04-16
DESCRIPTION | 11 -- MD5 | 12 +- build/vignette.rds |binary inst/NEWS | 3 inst/doc/taskscheduleR.R | 8 - inst/doc/taskscheduleR.html | 234 ++++++++++++++++++++++++++++---------------- man/taskscheduler_create.Rd | 29 +++-- 7 files changed, 187 insertions(+), 110 deletions(-)
Title: Simulations and Statistical Inference for Linear Fractional
Stable Motions
Description: Contains functions for simulating linear fractional stable motions, according to techniques developed by Stoev and Taqqu (2004) <doi:10.1142/S0218348X04002379>, as well as functions for computing important statistics used with these processes introduced by Mazur, Otryakhin and Podolskij (2018) <arXiv:1802.06373>, and also different quantities related to those statistics.
Author: Dmitry Otryakhin [aut, cre] (<https://orcid.org/0000-0002-4700-7221>),
Stepan Mazur [aut] (<https://orcid.org/0000-0002-1395-9427>),
Mathias Ljungdahl [ctb]
Maintainer: Dmitry Otryakhin <d.otryakhin.acad@protonmail.ch>
Diff between rlfsm versions 1.0.2 dated 2021-03-15 and 1.0.3 dated 2021-04-16
DESCRIPTION | 7 +++---- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/MinContrastEstim.R | 3 ++- build/partial.rdb |binary man/MinContrastEstim.Rd | 3 ++- 6 files changed, 16 insertions(+), 11 deletions(-)
Title: Automatic Download, Linking, Manipulating Coordinates for Maps
Description: Maps are an important tool to visualise variables distribution across different spatial object. The mapping process require to link the data with coordinates and then generate the correspondent map. This package provide coordinates, linking and mapping functions for an automatic, flexible and easy approach of mapping workflow of different geographical statistical unit.Geographical coordinates are provided in the package and automatically linked with the input data to generate maps with internal provided functions or external functions.provide an easy, flexible and automatic approach to potentially download updated coordinates, to link statistical units with coordinates and to aggregate variables based on the spatial hierarchy of units. The object returned from the package can be used for thematic maps with the build-in functions provided in mapping or with other packages already available.
Author: Alessio Serafini [aut, cre],
Giancarlo Ferrara [aut]
Maintainer: Alessio Serafini <srf.alessio@gmail.com>
Diff between mapping versions 1.0 dated 2021-04-01 and 1.1 dated 2021-04-16
DESCRIPTION | 10 MD5 | 14 NAMESPACE | 85 +- NEWS.md | 2 README.md | 21 inst/doc/a-journey-into-mapping.Rmd | 1022 +++++++++++++++++------------------ inst/doc/a-journey-into-mapping.html | 4 vignettes/a-journey-into-mapping.Rmd | 1022 +++++++++++++++++------------------ 8 files changed, 1080 insertions(+), 1100 deletions(-)
Title: Printing Floating Point Numbers in a Human-Friendly Format
Description: Print vectors (and data frames) of floating point numbers
using a non-scientific format optimized for human readers. Vectors
of numbers are rounded using significant digits, aligned at the
decimal point, and all zeros trailing the decimal point are dropped.
See: Wright (2016). Lucid: An R Package for Pretty-Printing Floating Point
Numbers. In JSM Proceedings, Statistical Computing Section. Alexandria,
VA: American Statistical Association. 2270-2279.
Author: Kevin Wright [aut, cre] (<https://orcid.org/0000-0002-0617-8673>)
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between lucid versions 1.7 dated 2019-02-06 and 1.8 dated 2021-04-16
lucid-1.7/lucid/data/antibiotic.txt.gz |only lucid-1.8/lucid/DESCRIPTION | 13 lucid-1.8/lucid/MD5 | 31 - lucid-1.8/lucid/NAMESPACE | 2 lucid-1.8/lucid/NEWS.md | 28 - lucid-1.8/lucid/R/lucid.R | 97 ++--- lucid-1.8/lucid/R/vc.R | 70 +++ lucid-1.8/lucid/build/vignette.rds |binary lucid-1.8/lucid/data/antibiotic.txt |only lucid-1.8/lucid/inst/doc/lucid_examples.Rmd | 12 lucid-1.8/lucid/inst/doc/lucid_examples.html | 477 +++++++++------------------ lucid-1.8/lucid/man/antibiotic.Rd | 158 ++++---- lucid-1.8/lucid/man/figures |only lucid-1.8/lucid/man/lucid.Rd | 185 +++++----- lucid-1.8/lucid/man/vc.Rd | 165 ++++----- lucid-1.8/lucid/tests/testthat/test_lucid.R | 4 lucid-1.8/lucid/tests/testthat/test_vc.R | 67 ++- lucid-1.8/lucid/vignettes/lucid_examples.Rmd | 12 18 files changed, 614 insertions(+), 707 deletions(-)
Title: Exact Distributions for Rank and Permutation Tests
Description: Computes exact conditional p-values and quantiles using an
implementation of the Shift-Algorithm by Streitberg & Roehmel.
Author: Torsten Hothorn [aut, cre],
Kurt Hornik [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between exactRankTests versions 0.8-31 dated 2019-12-11 and 0.8-32 dated 2021-04-16
exactRankTests-0.8-31/exactRankTests/tests/exactRankTests-Ex.R |only exactRankTests-0.8-31/exactRankTests/tests/exactRankTests-Ex.Rout.save |only exactRankTests-0.8-31/exactRankTests/tests/exactRankTests-ExOLD.R |only exactRankTests-0.8-31/exactRankTests/tests/exactRankTests-ExOLD.Rout.save |only exactRankTests-0.8-32/exactRankTests/DESCRIPTION | 8 +- exactRankTests-0.8-32/exactRankTests/MD5 | 31 ++++------ exactRankTests-0.8-32/exactRankTests/data/ASAT.rda |binary exactRankTests-0.8-32/exactRankTests/data/bloodp.rda |binary exactRankTests-0.8-32/exactRankTests/data/ears.rda |binary exactRankTests-0.8-32/exactRankTests/data/glioma.rda |binary exactRankTests-0.8-32/exactRankTests/data/globulin.rda |binary exactRankTests-0.8-32/exactRankTests/data/lungcancer.rda |binary exactRankTests-0.8-32/exactRankTests/data/neuropathy.rda |binary exactRankTests-0.8-32/exactRankTests/data/ocarcinoma.rda |binary exactRankTests-0.8-32/exactRankTests/data/rotarod.rda |binary exactRankTests-0.8-32/exactRankTests/data/sal.rda |binary exactRankTests-0.8-32/exactRankTests/inst/NEWS | 4 + exactRankTests-0.8-32/exactRankTests/tests/Examples |only exactRankTests-0.8-32/exactRankTests/tests/reg-tests.Rout.save | 12 +-- 19 files changed, 28 insertions(+), 27 deletions(-)
More information about exactRankTests at CRAN
Permanent link
Title: Diffusion Models R Analysis
Description: The implemented methods are: Bass model, Generalized Bass model (with rectangular shock, exponential shock, mixed shock and harmonic shock, 1 to 3 shocks available), Dynamic market potential model, and UCRCD model. The Bass model consists of a simple differential equation that describes the process of how new products get adopted in a population, the Generalized Bass model is a generalization of the Bass model with a function x(t), capturing the changing speed of diffusion. In some real processes the market potential may be not constant over time and a dynamic market potential model is needed. The Guseo-Guidolin model is a specification of this situation. The UCRCD model (Unbalanced Competition and Regime Change Diachronic) is a diffusion model used to capture the dynamics of competition between two products within the same market.
Author: Zanghi Federico
Maintainer: Zanghi Federico <federico.zanghi.11@gmail.com>
Diff between DIMORA versions 0.1.0 dated 2018-12-03 and 0.2.0 dated 2021-04-16
DESCRIPTION | 17 MD5 | 39 +- NAMESPACE | 21 + R/BASSgeneralized.R | 685 ++++++++++++++++++++++----------------- R/BASSstandard.R | 150 +++++--- R/GGmodel.R | 201 ++++++----- R/SARMAX.refinement.R |only R/UCRCD.R |only R/classic.plot.sarima.R |only R/plot.Dimora.R |only R/predict.Dimora.R |only R/predict_SARMAX.refinement.R |only R/summary.Dimora.R |only README.md | 5 man/BASSGeneralized.Rd | 29 + man/BASSStandard.Rd | 27 - man/BASSStandardgenerator.Rd | 18 - man/BASSplot.Rd | 11 man/DIMORA.Rd |only man/GGmodel.Rd | 74 ++-- man/SARMAX.refinement.Rd |only man/UCRCD.Rd |only man/classic.plot.sarima.Rd |only man/makeinstantanous.Rd | 13 man/plot.Dimora.Rd |only man/predict.Dimora.Rd |only man/predict_SARMAX.refinement.Rd |only man/summary.Dimora.Rd |only 28 files changed, 747 insertions(+), 543 deletions(-)
Title: A Clean, Whitespace-Sensitive Template Language for Writing HTML
Description: Jade is a high performance template engine heavily influenced by
Haml and implemented with JavaScript for node and browsers.
Author: Jeroen Ooms, Forbes Lindesay
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between rjade versions 0.1 dated 2015-02-18 and 0.1.1 dated 2021-04-16
DESCRIPTION | 18 ++--- MD5 | 18 ++--- NAMESPACE | 2 R/jade.R | 6 - build/vignette.rds |binary inst/doc/intro.R | 8 +- inst/doc/intro.Rmd | 2 inst/doc/intro.html | 170 +++++++++++++++++++++++++++++++++++++++------------- man/jade.Rd | 11 +-- vignettes/intro.Rmd | 2 10 files changed, 163 insertions(+), 74 deletions(-)
Title: Search and Retrieve Data from Eurostat Database
Description: Eurostat is the statistical office of the European Union and provides high quality statistics for Europe.
Large set of the data is disseminated through the Eurostat database (<https://ec.europa.eu/eurostat/data/database>).
The tools are using the REST API with the Statistical Data and Metadata eXchange (SDMX <https://sdmx.org>) Web Services
(<https://ec.europa.eu/eurostat/web/sdmx-web-services/about-this-service>) to search and download data from
the Eurostat database using the SDMX standard.
Author: Mátyás Mészáros [aut, cre]
Maintainer: Mátyás Mészáros <matyas.meszaros@ec.europa.eu>
Diff between restatapi versions 0.10.0 dated 2021-03-10 and 0.10.3 dated 2021-04-16
DESCRIPTION | 9 +++---- MD5 | 54 +++++++++++++++++++++++---------------------- NAMESPACE | 1 NEWS.md | 13 +++++++++- R/clean_restatapi_cache.R | 4 +-- R/create_filter_table.R | 4 +-- R/extract_dsd.R | 2 - R/extract_toc.R | 4 +-- R/get_compressed_sdmx.R | 2 - R/get_eurostat_bulk.R | 6 ++--- R/get_eurostat_cache.R | 6 ++--- R/get_eurostat_data.R | 17 +++++++------- R/get_eurostat_dsd.R | 6 ++--- R/get_eurostat_raw.R | 12 +++++----- R/get_eurostat_toc.R | 6 ++--- R/load_cfg.R | 3 +- R/put_eurostat_cache.R | 8 +++--- R/restatapi_env.R |only R/search_eurostat_dsd.R | 4 +-- R/zzz.R | 9 ++++++- man/create_filter_table.Rd | 4 +-- man/dot-restatapi_env.Rd |only man/extract_dsd.Rd | 2 - man/extract_toc.Rd | 4 +-- man/get_eurostat_bulk.Rd | 6 ++--- man/get_eurostat_data.Rd | 8 +++--- man/get_eurostat_raw.Rd | 6 ++--- man/put_eurostat_cache.Rd | 2 - man/search_eurostat_dsd.Rd | 4 +-- 29 files changed, 113 insertions(+), 93 deletions(-)
Title: 'Rcpp' Interface to the APT Package Manager
Description: The 'APT Package Management System' provides Debian and
Debian-derived Linux systems with a powerful system to resolve package
dependencies. This package offers access directly from R. This can
only work on a system with a suitable 'libapt-pkg-dev' installation
so functionality is curtailed if such a library is not found.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppAPT versions 0.0.6 dated 2020-03-14 and 0.0.7 dated 2021-04-16
ChangeLog | 29 + DESCRIPTION | 13 MD5 | 16 README.md | 39 - build/vignette.rds |binary inst/NEWS.Rd | 2 inst/doc/binnmuAfterR340.Rmd | 87 +-- inst/doc/binnmuAfterR340.html | 1105 ++++++++++++++++++++---------------------- vignettes/binnmuAfterR340.Rmd | 87 +-- 9 files changed, 693 insertions(+), 685 deletions(-)
Title: 'Mica' Data Web Portal Client
Description: 'Mica' is a server application used to create data web portals for
large-scale epidemiological studies or multiple-study consortia. 'Mica' helps
studies to provide scientifically robust data visibility and web presence
without significant information technology effort. 'Mica' provides a
structured description of consortia, studies, annotated and searchable data
dictionaries, and data access request management. This 'Mica' client allows
to perform data extraction for reporting purposes.
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>),
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between micar versions 1.1.1 dated 2019-04-10 and 1.1.2 dated 2021-04-16
DESCRIPTION | 10 +++--- MD5 | 54 ++++++++++++++++++------------------- build/vignette.rds |binary inst/doc/mica-dar.R | 14 ++++----- inst/doc/mica-dar.html | 41 +++++++++++++++++++++------- inst/doc/mica-search.R | 16 +++++----- inst/doc/mica-search.html | 41 +++++++++++++++++++++------- man/dot-extractLabel.Rd | 8 ++++- man/dot-extractLabel2.Rd | 8 ++++- man/mica.dar.Rd | 18 ++++++------ man/mica.dar.actions.Rd | 18 ++++++------ man/mica.dar.amendment.Rd | 18 ++++++------ man/mica.dar.amendment.form.Rd | 18 ++++++------ man/mica.dar.amendment.history.Rd | 18 ++++++------ man/mica.dar.amendments.Rd | 18 ++++++------ man/mica.dar.amendments.history.Rd | 18 ++++++------ man/mica.dar.form.Rd | 18 ++++++------ man/mica.dar.history.Rd | 18 ++++++------ man/mica.dars.Rd | 18 ++++++------ man/mica.datasets.Rd | 13 ++++++-- man/mica.login.Rd | 7 +++- man/mica.networks.Rd | 13 ++++++-- man/mica.studies.Rd | 21 +++++++++----- man/mica.study.dces.Rd | 18 ++++++++---- man/mica.study.populations.Rd | 19 ++++++++----- man/mica.taxonomies.Rd | 13 ++++++-- man/mica.variables.Rd | 13 ++++++-- man/mica.vocabularies.Rd | 13 ++++++-- 28 files changed, 318 insertions(+), 184 deletions(-)
Title: The Breakdown of Genomic Ancestry Blocks in Hybrid Lineages
Description: Individual based simulations of hybridizing populations, where the accumulation of junctions is tracked. Furthermore, mathematical equations are provided to verify simulation outcomes. Both simulations and mathematical equations are based on Janzen (2018) <doi:10.1101/058107>.
Author: Thijs Janzen [aut, cre]
Maintainer: Thijs Janzen <thijsjanzen@gmail.com>
Diff between junctions versions 1.1 dated 2018-08-13 and 1.1.1 dated 2021-04-16
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- build/vignette.rds |binary inst/doc/junctions_vignette.R | 36 ++++++++++++++++++------------------ inst/doc/junctions_vignette.html | 14 +++++++------- 5 files changed, 34 insertions(+), 34 deletions(-)
Title: Download and Process GIMMS NDVI3g Data
Description: This is a set of functions to retrieve information about GIMMS
NDVI3g files currently available online; download (and re-arrange, in the
case of NDVI3g.v0) the half-monthly data sets; import downloaded files from
ENVI binary (NDVI3g.v0) or NetCDF format (NDVI3g.v1) directly into R based
on the widespread 'raster' package; conduct quality control; and generate
monthly composites (e.g., maximum values) from the half-monthly input data.
As a special gimmick, a method is included to conveniently apply the
Mann-Kendall trend test upon 'Raster*' images, optionally featuring
trend-free pre-whitening to account for lag-1 autocorrelation.
Author: Florian Detsch [cre, aut]
Maintainer: Florian Detsch <fdetsch@web.de>
Diff between gimms versions 1.1.3 dated 2020-03-19 and 1.2.0 dated 2021-04-16
DESCRIPTION | 28 +- LICENSE | 4 MD5 | 68 ++--- NAMESPACE | 43 +-- NEWS | 138 +++++----- NEWS.md | 138 +++++----- R/downloadGimms.R | 473 +++++++++++++++++++----------------- R/gimms-package.R | 29 +- R/gimmsControls.R | 513 ++++++++++++++++++++++------------------ R/monthlyComposite.R | 271 +++++++++++---------- R/monthlyIndices.R | 182 +++++++------- R/oldNaming.R | 28 +- R/qualityControl.R | 307 ++++++++++++----------- R/rasterizeGimms.R | 496 +++++++++++++++++++------------------- R/rearrangeFiles.R | 132 +++++----- R/significantTau.R | 402 ++++++++++++++++--------------- R/updateInventory.R | 207 +++++++++++----- README.md | 20 + build/partial.rdb |binary data/bale3g.v1.rda |binary data/kili3g.v0.rda |binary inst/extdata/dates_plv1.rds |only inst/extdata/inventory_plv1.rds |only inst/tinytest |only man/bale3g.v1.Rd | 32 +- man/downloadGimms.Rd | 255 ++++++++++--------- man/gimms-package.Rd | 67 ++--- man/kili3g.v0.Rd | 32 +- man/monthlyComposite.Rd | 156 ++++++------ man/monthlyIndices.Rd | 116 ++++----- man/oldNaming.Rd | 98 +++---- man/qualityControl.Rd | 118 ++++----- man/rasterizeGimms.Rd | 164 ++++++------ man/rearrangeFiles.Rd | 82 +++--- man/significantTau.Rd | 250 +++++++++---------- man/updateInventory.Rd | 118 +++++---- tests |only 37 files changed, 2632 insertions(+), 2335 deletions(-)
Title: Concordance Correlation Coefficient for Repeated (and
Non-Repeated) Measures
Description: Estimates the Concordance Correlation Coefficient to assess agreement. The scenarios considered are non-repeated measures, non-longitudinal repeated measures (replicates) and longitudinal repeated measures. It also includes the estimation of the one-way intraclass correlation coefficient also known as reliability index. The estimation approaches implemented are variance components and U-statistics approaches.
Author: Josep Lluis Carrasco <jlcarrasco@ub.edu>, Josep Puig Martinez
<j.puig04@gmail.com>
Maintainer: Josep Lluis Carrasco <jlcarrasco@ub.edu>
Diff between cccrm versions 2.0.1 dated 2020-06-10 and 2.0.2 dated 2021-04-16
DESCRIPTION | 14 +++++++------- MD5 | 19 ++++++++++++------- NAMESPACE | 5 +++-- R/extra_func.R | 5 ++++- R/ic.ccc.R | 3 ++- R/ic.icc.R |only R/icc.R |only R/print.icc.R |only R/summary.icc.R |only man/ccclon.Rd | 8 +++++++- man/ccclonw.Rd | 6 +++++- man/cccvc.Rd | 7 ++++++- man/icc.Rd |only 13 files changed, 46 insertions(+), 21 deletions(-)
Title: Mendelian Randomization Package
Description: Encodes several methods for performing Mendelian randomization
analyses with summarized data. Summarized data on genetic associations with the
exposure and with the outcome can be obtained from large consortia. These data
can be used for obtaining causal estimates using instrumental variable methods.
Author: Olena Yavorska <olena.yavorska@ludwig.ox.ac.uk>
James Staley <james.staley@bristol.ac.uk>
Maintainer: Stephen Burgess <sb452@medschl.cam.ac.uk>
Diff between MendelianRandomization versions 0.5.0 dated 2020-09-30 and 0.5.1 dated 2021-04-16
DESCRIPTION | 9 ++++----- MD5 | 10 +++++----- R/pheno_input-function.R | 18 +++++++++--------- build/vignette.rds |binary man/phenoscanner.Rd | 18 +++++++++--------- vignettes/Vignette_MR.html | 19 ++++++++++++++++++- 6 files changed, 45 insertions(+), 29 deletions(-)
More information about MendelianRandomization at CRAN
Permanent link
Title: Noise Quantification in High Throughput Sequencing Output
Description: Quantifies and removes technical noise from high-throughput
sequencing data. Two approaches are used, one based on the count
matrix, and one using the alignment BAM files directly.
Contains several options for every step of the process, as well
as tools to quality check and assess the stability of output.
Author: Ilias Moutsopoulos [aut, cre],
Irina Mohorianu [aut, ctb],
Hajk-Georg Drost [ctb],
Elze Lauzikaite [ctb]
Maintainer: Ilias Moutsopoulos <im383@cam.ac.uk>
Diff between noisyr versions 0.1.0 dated 2021-01-06 and 1.0.0 dated 2021-04-16
noisyr-0.1.0/noisyr/R/calculate_distance_matrices_counts.R |only noisyr-0.1.0/noisyr/R/calculate_distance_matrices_transcript.R |only noisyr-0.1.0/noisyr/R/calculate_profile.R |only noisyr-0.1.0/noisyr/R/calculate_threshold_fixed_density.R |only noisyr-0.1.0/noisyr/R/calculate_threshold_noise.R |only noisyr-0.1.0/noisyr/R/cast_matrix_to_double.R |only noisyr-0.1.0/noisyr/R/plot_distance_abundance.R |only noisyr-0.1.0/noisyr/R/remove_noise_matrix.R |only noisyr-0.1.0/noisyr/R/remove_noise_method.R |only noisyr-0.1.0/noisyr/man/calculate_distance_matrices_counts.Rd |only noisyr-0.1.0/noisyr/man/calculate_distance_matrices_transcript.Rd |only noisyr-0.1.0/noisyr/man/calculate_profile.Rd |only noisyr-0.1.0/noisyr/man/calculate_threshold_fixed_density.Rd |only noisyr-0.1.0/noisyr/man/calculate_threshold_noise.Rd |only noisyr-0.1.0/noisyr/man/cast_matrix_to_double.Rd |only noisyr-0.1.0/noisyr/man/plot_distance_abundance.Rd |only noisyr-0.1.0/noisyr/man/remove_noise_matrix.Rd |only noisyr-0.1.0/noisyr/man/remove_noise_method.Rd |only noisyr-1.0.0/noisyr/DESCRIPTION | 12 noisyr-1.0.0/noisyr/MD5 | 73 ++-- noisyr-1.0.0/noisyr/R/calculate_expression_profile.R |only noisyr-1.0.0/noisyr/R/calculate_expression_similarity_counts.R |only noisyr-1.0.0/noisyr/R/calculate_expression_similarity_transcript.R |only noisyr-1.0.0/noisyr/R/calculate_first_minimum_density.R |only noisyr-1.0.0/noisyr/R/calculate_noise_threshold.R |only noisyr-1.0.0/noisyr/R/calculate_noise_threshold_method_statistics.R |only noisyr-1.0.0/noisyr/R/cast_gtf_to_genes.R | 67 ++-- noisyr-1.0.0/noisyr/R/cast_matrix_to_numeric.R |only noisyr-1.0.0/noisyr/R/filter_genes_transcript.R |only noisyr-1.0.0/noisyr/R/get_methods_calculate_noise_threshold.R | 12 noisyr-1.0.0/noisyr/R/get_methods_correlation_distance.R | 36 +- noisyr-1.0.0/noisyr/R/noisyr.R |only noisyr-1.0.0/noisyr/R/noisyr_counts.R |only noisyr-1.0.0/noisyr/R/noisyr_transcript.R |only noisyr-1.0.0/noisyr/R/optimise_window_length.R | 154 ++++++---- noisyr-1.0.0/noisyr/R/plot_expression_similarity.R |only noisyr-1.0.0/noisyr/R/remove_noise_from_bams.R |only noisyr-1.0.0/noisyr/R/remove_noise_from_matrix.R |only noisyr-1.0.0/noisyr/README.md | 80 +++++ noisyr-1.0.0/noisyr/build |only noisyr-1.0.0/noisyr/inst |only noisyr-1.0.0/noisyr/man/calculate_expression_profile.Rd |only noisyr-1.0.0/noisyr/man/calculate_expression_similarity_counts.Rd |only noisyr-1.0.0/noisyr/man/calculate_expression_similarity_transcript.Rd |only noisyr-1.0.0/noisyr/man/calculate_first_minimum_density.Rd |only noisyr-1.0.0/noisyr/man/calculate_noise_threshold.Rd |only noisyr-1.0.0/noisyr/man/calculate_noise_threshold_method_statistics.Rd |only noisyr-1.0.0/noisyr/man/cast_gtf_to_genes.Rd | 16 - noisyr-1.0.0/noisyr/man/cast_matrix_to_numeric.Rd |only noisyr-1.0.0/noisyr/man/filter_genes_transcript.Rd |only noisyr-1.0.0/noisyr/man/get_methods_calculate_noise_threshold.Rd | 5 noisyr-1.0.0/noisyr/man/get_methods_correlation_distance.Rd | 5 noisyr-1.0.0/noisyr/man/noisyr.Rd |only noisyr-1.0.0/noisyr/man/noisyr_counts.Rd |only noisyr-1.0.0/noisyr/man/noisyr_transcript.Rd |only noisyr-1.0.0/noisyr/man/optimise_window_length.Rd | 42 +- noisyr-1.0.0/noisyr/man/plot_expression_similarity.Rd |only noisyr-1.0.0/noisyr/man/remove_noise_from_bams.Rd |only noisyr-1.0.0/noisyr/man/remove_noise_from_matrix.Rd |only noisyr-1.0.0/noisyr/vignettes |only 60 files changed, 329 insertions(+), 173 deletions(-)
Title: Dyadic Network Analysis
Description: Contains functions for the MCMC simulation of dyadic network models j2 (Zijlstra, 2017, <doi:10.1080/0022250X.2017.1387858>) and p2 (Van Duijn, Snijders & Zijlstra, 2004, <doi: 10.1046/j.0039-0402.2003.00258.x>), and the bidirectional (multilevel) counterpart of the the multilevel p2 model as described in Zijlstra, Van Duijn & Snijders (2009) <doi: 10.1348/000711007X255336>, the (multilevel) b2 model.
Author: Bonne J.H. Zijlstra <B.J.H.Zijlstra@uva.nl>
Maintainer: Bonne J.H. Zijlstra <B.J.H.Zijlstra@uva.nl>
Diff between dyads versions 1.1.3 dated 2020-12-17 and 1.1.4 dated 2021-04-16
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 4 +++- R/internalFunctionsDyads.R | 10 +++++----- build/partial.rdb |binary 5 files changed, 16 insertions(+), 14 deletions(-)
Title: Bridge Sampling for Marginal Likelihoods and Bayes Factors
Description: Provides functions for estimating marginal likelihoods, Bayes
factors, posterior model probabilities, and normalizing constants in general,
via different versions of bridge sampling (Meng & Wong, 1996,
<http://www3.stat.sinica.edu.tw/statistica/j6n4/j6n43/j6n43.htm>).
Gronau, Singmann, & Wagenmakers (2020) <doi:10.18637/jss.v092.i10>.
Author: Quentin F. Gronau [aut, cre] (<https://orcid.org/0000-0001-5510-6943>),
Henrik Singmann [aut] (<https://orcid.org/0000-0002-4842-3657>),
Jonathan J. Forster [ctb],
Eric-Jan Wagenmakers [ths],
The JASP Team [ctb],
Jiqiang Guo [ctb],
Jonah Gabry [ctb],
Ben Goodrich [ctb],
Kees Mulder [ctb],
Perry de Valpine [ctb]
Maintainer: Quentin F. Gronau <Quentin.F.Gronau@gmail.com>
Diff between bridgesampling versions 1.0-0 dated 2020-02-26 and 1.1-2 dated 2021-04-16
DESCRIPTION | 8 MD5 | 141 +- NAMESPACE | 100 - NEWS | 448 +++--- R/bf.R | 364 ++--- R/bridge_methods.R | 298 ++-- R/bridge_sampler.R | 1343 +++++++++----------- R/bridge_sampler_internals.R | 592 ++++---- R/bridge_sampler_normal.R | 352 ++--- R/bridge_sampler_tools.R | 62 R/bridge_sampler_warp3.R | 450 +++--- R/error_measures.R | 176 +- R/ier-data.R | 32 R/logml.R | 58 R/post_prob.R | 246 +-- R/turtles-data.R | 64 build/partial.rdb |binary build/vignette.rds |binary inst/doc/bridgesampling_example_jags.R | 348 ++--- inst/doc/bridgesampling_example_jags.Rmd | 452 +++--- inst/doc/bridgesampling_example_jags.html | 719 +++++----- inst/doc/bridgesampling_example_nimble.R | 228 +-- inst/doc/bridgesampling_example_nimble.Rmd | 322 ++-- inst/doc/bridgesampling_example_nimble.html | 591 ++++---- inst/doc/bridgesampling_example_stan.R | 244 +-- inst/doc/bridgesampling_example_stan.Rmd | 328 ++-- inst/doc/bridgesampling_example_stan.html | 609 ++++----- inst/doc/bridgesampling_paper.pdf |binary inst/doc/bridgesampling_paper.pdf.asis | 4 inst/doc/bridgesampling_paper_extended.pdf |binary inst/doc/bridgesampling_paper_extended.pdf.asis | 4 inst/doc/bridgesampling_stan_ttest.R | 274 ++-- inst/doc/bridgesampling_stan_ttest.Rmd | 388 ++--- inst/doc/bridgesampling_stan_ttest.html | 659 +++++---- inst/doc/bridgesampling_tutorial.pdf |binary inst/doc/bridgesampling_tutorial.pdf.asis | 4 man/bf.Rd | 138 +- man/bridge-methods.Rd | 78 - man/bridge_sampler.Rd | 1066 ++++++++------- man/error_measures.Rd | 110 - man/ier.Rd | 342 ++--- man/logml.Rd | 54 man/post_prob.Rd | 201 +- man/turtles.Rd | 324 ++-- tests/testthat.R | 8 tests/testthat/test-bf.R | 134 - tests/testthat/test-bridge_sampler.R | 566 ++++---- tests/testthat/test-bridge_sampler_Rcpp.R | 118 - tests/testthat/test-bridge_sampler_Rcpp_parallel.R | 124 - tests/testthat/test-bridge_sampler_mcmc.list.R | 722 +++++----- tests/testthat/test-bridge_sampler_parallel.R | 150 +- tests/testthat/test-bridge_sampler_print_method.R | 102 - tests/testthat/test-bridge_sampler_summary_method.R | 132 - tests/testthat/test-nimble_bridge_sampler.R | 114 - tests/testthat/test-post_prob.R | 72 - tests/testthat/test-stan_bridge_sampler_basic.R | 342 ++--- tests/testthat/test-stan_bridge_sampler_bugs.R | 357 +++-- tests/testthat/test-stanreg_bridge_sampler_basic.R | 70 - tests/testthat/test-vignette_example_jags.R | 554 ++++---- tests/testthat/test-vignette_example_nimble.R | 438 +++--- tests/testthat/test-vignette_example_stan.R | 458 +++--- tests/testthat/test-vignette_stan_ttest.R | 300 ++-- tests/testthat/test_dat.txt |only tests/testthat/unnormalized_normal_density.cpp | 42 tests/testthat/unnormalized_normal_density_mu.cpp | 44 vignettes/bridgesampling_example_jags.Rmd | 452 +++--- vignettes/bridgesampling_example_nimble.Rmd | 322 ++-- vignettes/bridgesampling_example_stan.Rmd | 328 ++-- vignettes/bridgesampling_paper.pdf.asis | 4 vignettes/bridgesampling_paper_extended.pdf.asis | 4 vignettes/bridgesampling_stan_ttest.Rmd | 388 ++--- vignettes/bridgesampling_tutorial.pdf.asis | 4 72 files changed, 9488 insertions(+), 9082 deletions(-)
More information about bridgesampling at CRAN
Permanent link
Title: Connector Between 'mlr3' and 'OpenML'
Description: Provides an interface to 'OpenML.org' to list and
download machine learning data and tasks. Data and tasks can be
automatically converted to 'mlr3' tasks. For a more sophisticated
interface which also allows uploading experiments, see the 'OpenML'
package.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3oml versions 0.4.2 dated 2021-02-22 and 0.4.3 dated 2021-04-16
mlr3oml-0.4.2/mlr3oml/R/status_codes.R |only mlr3oml-0.4.3/mlr3oml/DESCRIPTION | 6 mlr3oml-0.4.3/mlr3oml/MD5 | 23 +-- mlr3oml-0.4.3/mlr3oml/NAMESPACE | 1 mlr3oml-0.4.3/mlr3oml/NEWS.md | 4 mlr3oml-0.4.3/mlr3oml/R/OMLTask.R | 2 mlr3oml-0.4.3/mlr3oml/R/helper_download.R | 150 +++++++++++++------- mlr3oml-0.4.3/mlr3oml/R/helper_xml.R | 4 mlr3oml-0.4.3/mlr3oml/R/read_arff.R | 14 + mlr3oml-0.4.3/mlr3oml/R/zzz.R | 1 mlr3oml-0.4.3/mlr3oml/build/partial.rdb |binary mlr3oml-0.4.3/mlr3oml/man/OMLTask.Rd | 2 mlr3oml-0.4.3/mlr3oml/tests/testthat/test_OMLData.R | 5 13 files changed, 139 insertions(+), 73 deletions(-)
Title: Analyze Dose-Volume Histograms and Check Constraints
Description: Functionality for analyzing dose-volume histograms (DVH)
in radiation oncology: Read DVH text files, calculate DVH
metrics as well as generalized equivalent uniform dose (gEUD),
biologically effective dose (BED), equivalent dose in 2 Gy
fractions (EQD2), normal tissue complication probability
(NTCP), and tumor control probability (TCP). Show DVH
diagrams, check and visualize quality assurance constraints
for the DVH. Includes web-based graphical user interface.
Author: Daniel Wollschlaeger [aut, cre],
Heiko Karle [aut],
Heinz Schmidberger [ctb]
Maintainer: Daniel Wollschlaeger <wollschlaeger@uni-mainz.de>
Diff between DVHmetrics versions 0.3.10 dated 2020-03-19 and 0.4.1 dated 2021-04-16
DVHmetrics-0.3.10/DVHmetrics/inst/DVHshiny/helper.R |only DVHmetrics-0.3.10/DVHmetrics/inst/DVHshiny/server.R |only DVHmetrics-0.3.10/DVHmetrics/inst/DVHshiny/ui.R |only DVHmetrics-0.4.1/DVHmetrics/DESCRIPTION | 12 DVHmetrics-0.4.1/DVHmetrics/MD5 | 70 +- DVHmetrics-0.4.1/DVHmetrics/R/checkConstraint.R | 12 DVHmetrics-0.4.1/DVHmetrics/R/parseEclipse.R | 146 ++++-- DVHmetrics-0.4.1/DVHmetrics/R/runGUI.R | 17 DVHmetrics-0.4.1/DVHmetrics/R/unix/parseDVH.R | 4 DVHmetrics-0.4.1/DVHmetrics/R/windows/parseDVH.R | 4 DVHmetrics-0.4.1/DVHmetrics/build/vignette.rds |binary DVHmetrics-0.4.1/DVHmetrics/data/dataConstr.rda |binary DVHmetrics-0.4.1/DVHmetrics/data/dataMZ.rda |binary DVHmetrics-0.4.1/DVHmetrics/inst/ChangeLog | 18 DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/ABOUT.html | 243 +--------- DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/ABOUT.md | 8 DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_sidebar.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_tab_about.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_tab_bed_eqd2.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_tab_check_constraints.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_tab_data.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_tab_metrics.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_tab_show_constraints.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/app_ui_tab_show_dvh.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny/global.R |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny_bs4Dash_05 |only DVHmetrics-0.4.1/DVHmetrics/inst/DVHshiny_legacy |only DVHmetrics-0.4.1/DVHmetrics/inst/doc/DVHmetrics.R | 2 DVHmetrics-0.4.1/DVHmetrics/inst/doc/DVHmetrics.Rnw | 8 DVHmetrics-0.4.1/DVHmetrics/inst/doc/DVHmetrics.pdf |binary DVHmetrics-0.4.1/DVHmetrics/inst/doc/DVHshiny.pdf |binary DVHmetrics-0.4.1/DVHmetrics/man/DVHmetrics-package.Rd | 4 DVHmetrics-0.4.1/DVHmetrics/man/readDVH.Rd | 2 DVHmetrics-0.4.1/DVHmetrics/vignettes/DVHmetrics.Rnw | 8 DVHmetrics-0.4.1/DVHmetrics/vignettes/lit.bib | 52 +- 36 files changed, 291 insertions(+), 319 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-06 0.4.0
2019-05-16 0.3.1
2019-04-01 0.3.0
2019-02-24 0.2.0
2018-10-30 0.1.0
Title: PS-Integrated Methods for Incorporating RWE in Clinical Studies
Description: High-quality real-world data can be transformed into scientific
real-world evidence (RWE) for regulatory and healthcare decision-making
using proven analytical methods and techniques. For example, propensity
score (PS) methodology can be applied to pre-select a subset of real-world
data containing patients that are similar to those in the current clinical
study in terms of covariates, and to stratify the selected patients together
with those in the current study into more homogeneous strata. Then, methods
such as power prior approach or composite likelihood approach can be applied
in each stratum to draw inference for the parameters of interest. This
package provides functions that implement the PS-integrated RWE analysis
methods proposed in Wang et al. (2019) <doi:10.1080/10543406.2019.1657133>,
Wang et al. (2020) <doi:10.1080/10543406.2019.1684309> and Chen et al.
(2020) <doi:10.1080/10543406.2020.1730877>.
Author: Chenguang Wang [aut, cre]
Trustees of Columbia University [cph] (tools/make_cpp.R, R/stanmodels.R)
Maintainer: Chenguang Wang <cwang68@jhmi.edu>
Diff between psrwe versions 1.2 dated 2020-09-08 and 1.3 dated 2021-04-16
DESCRIPTION | 8 +- MD5 | 21 +++-- NAMESPACE | 8 +- R/psrwe_complikel.R | 2 R/psrwe_package.R | 4 - R/psrwe_powerprior.R | 4 - R/psrwe_tools.R | 19 ++-- build/vignette.rds |binary inst/doc/vignette.html | 196 +++++++++++++++++++++++++++++-------------------- man/rwe_ps_powerp.Rd | 4 - man/tkCallFun.Rd |only man/tkExpRst.Rd |only man/tkMakeLocal.Rd |only 13 files changed, 156 insertions(+), 110 deletions(-)
More information about diffmatchpatch at CRAN
Permanent link
Title: Assertion and Message Functions
Description: Enhanced message functions (cat() / message() / warning() / error())
using wrappers around sprintf(). Also, multiple assertion functions
(e.g. to check class, length, values, files, arguments, etc.).
Author: Florian Privé [aut, cre]
Maintainer: Florian Privé <florian.prive.21@gmail.com>
Diff between bigassertr versions 0.1.3 dated 2020-04-01 and 0.1.4 dated 2021-04-16
DESCRIPTION | 11 +++----- MD5 | 12 ++++----- NAMESPACE | 3 +- R/assert.R | 11 ++++++++ man/assert.Rd | 4 +++ man/printf.Rd | 56 +++++++++++++++++++++---------------------- tests/testthat/test-assert.R | 15 +++++++++++ 7 files changed, 71 insertions(+), 41 deletions(-)
Title: Randomized Singular Value Decomposition
Description: Low-rank matrix decompositions are fundamental tools and widely used for data
analysis, dimension reduction, and data compression. Classically, highly accurate
deterministic matrix algorithms are used for this task. However, the emergence of
large-scale data has severely challenged our computational ability to analyze big data.
The concept of randomness has been demonstrated as an effective strategy to quickly produce
approximate answers to familiar problems such as the singular value decomposition (SVD).
The rsvd package provides several randomized matrix algorithms such as the randomized
singular value decomposition (rsvd), randomized principal component analysis (rpca),
randomized robust principal component analysis (rrpca), randomized interpolative
decomposition (rid), and the randomized CUR decomposition (rcur). In addition several plot
functions are provided.
Author: N. Benjamin Erichson [aut, cre]
Maintainer: N. Benjamin Erichson <erichson@berkeley.edu>
Diff between rsvd versions 1.0.3 dated 2020-02-17 and 1.0.5 dated 2021-04-16
rsvd-1.0.3/rsvd/data/datalist |only rsvd-1.0.5/rsvd/DESCRIPTION | 13 +++++++------ rsvd-1.0.5/rsvd/MD5 | 34 +++++++++++++++++----------------- rsvd-1.0.5/rsvd/R/digits.R | 2 -- rsvd-1.0.5/rsvd/R/rcur.R | 4 ++-- rsvd-1.0.5/rsvd/R/rid.R | 9 +++++---- rsvd-1.0.5/rsvd/R/rpca.R | 4 ++-- rsvd-1.0.5/rsvd/R/rqb.R | 4 ++-- rsvd-1.0.5/rsvd/R/rrpca.R | 4 ++-- rsvd-1.0.5/rsvd/R/rsvd.R | 4 ++-- rsvd-1.0.5/rsvd/build |only rsvd-1.0.5/rsvd/man/digits.Rd | 5 ++--- rsvd-1.0.5/rsvd/man/rcur.Rd | 4 ++-- rsvd-1.0.5/rsvd/man/rid.Rd | 9 +++++---- rsvd-1.0.5/rsvd/man/rpca.Rd | 4 ++-- rsvd-1.0.5/rsvd/man/rqb.Rd | 4 ++-- rsvd-1.0.5/rsvd/man/rrpca.Rd | 4 ++-- rsvd-1.0.5/rsvd/man/rsvd.Rd | 4 ++-- rsvd-1.0.5/rsvd/man/tiger.Rd | 4 +++- 19 files changed, 59 insertions(+), 57 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-25 1.1.18
2020-07-28 1.1.14
2020-04-23 1.1.11
2020-04-02 1.1.10
2020-03-13 1.1.7
2020-01-28 1.1.3
2019-11-27 1.1.1
2019-11-19 1.1.0
2019-11-02 1.0.25
2019-08-30 1.0.18
2019-06-27 1.0.14
2019-02-13 1.0.12
2018-06-21 1.0.8
2018-05-02 1.0.5
2018-04-16 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-20 0.4.0
2020-08-10 0.3.1
2020-06-10 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-18 0.6.7
2021-02-14 0.6.6
Title: Client Library for SpatioTemporal Asset Catalog
Description: Provides functions to access, search and download spacetime earth
observation data via SpatioTemporal Asset Catalog (STAC). This package
supports the version 0.8.1 or higher of the STAC specification
(<http://stacspec.org>).
Author: Brazil Data Cube Team [cre, aut],
National Institute for Space Research (INPE) [cph]
Maintainer: Brazil Data Cube Team <brazildatacube@inpe.br>
Diff between rstac versions 0.9.0 dated 2020-12-14 and 0.9.1 dated 2021-04-16
DESCRIPTION | 9 ++--- MD5 | 50 +++++++++++++-------------- NEWS.md | 11 +++++- R/assets_download.R | 18 +++++++--- R/collections.R | 4 +- R/documents.R | 40 +++++++++++++++++++--- R/ext_query.R | 2 - R/items.R | 4 +- R/print.R | 6 +-- R/request.R | 4 +- R/stac.R | 2 - R/stac_search.R | 4 +- R/utils.R | 15 ++++---- README.md | 88 +++++++++++++++++++++++++++---------------------- man/assets_download.Rd | 2 - man/assets_list.Rd | 11 ++++-- man/collections.Rd | 4 +- man/ext_query.Rd | 2 - man/items.Rd | 4 +- man/items_fields.Rd | 2 - man/items_group.Rd | 2 - man/items_reap.Rd | 2 - man/print.Rd | 6 +-- man/request.Rd | 4 +- man/stac.Rd | 2 - man/stac_search.Rd | 4 +- 26 files changed, 182 insertions(+), 120 deletions(-)
Title: Proteomics Data Analysis Functions
Description: Data analysis of proteomics experiments by mass spectrometry is supported by this collection of functions mostly dedicated to the analysis of (bottom-up) quantitative (XIC) data.
Fasta-formatted proteomes (eg from UniProt Consortium <doi:10.1093/nar/gky1049>) can be read with automatic parsing and multiple annotation types (like species origin, abbreviated gene names, etc) extracted.
Quantitative proteomics measurements frequently contain multiple NA values, due to physical absence of given peptides in some samples, limitations in sensitivity or other reasons.
The functions provided here help to inspect graphically the data to investigate the nature of NA-values via their respective replicate measurements and to help/confirm the choice of NA-replacement by low random values.
Dedicated filtering and statistical testing using the framework of package 'limma' <doi:10.18129/B9.bioc.limma> can be run, enhanced by multiple rounds of NA-replacements to provide robustness towards rare stochastic events.
Multi-species samples, as frequently used in benchmark-tests (eg Navarro et al 2016 <doi:10.1038/nbt.3685>, Ramus et al 2016 <doi:10.1016/j.jprot.2015.11.011>), can be run with special options separating the data into sub-groups during normalization and testing.
As example the data-set from Ramus et al 2016 <doi:10.1016/j.jprot.2015.11.011>) is provided quantified by MaxQuant (Tyanova et al 2016 <doi:10.1038/nprot.2016.136>), ProteomeDiscoverer,
OpenMS (<doi:10.1038/nmeth.3959>) and Proline (Bouyssie et al 2020 <doi:10.1093/bioinformatics/btaa118>).
Subsequently, ROC curves (Hand and Till 2001 <doi:10.1023/A:1010920819831>) can be constructed to compare multiple analysis approaches.
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrProteo versions 1.4.0 dated 2021-03-10 and 1.4.1 dated 2021-04-15
DESCRIPTION | 9 MD5 | 41 NAMESPACE | 2 R/VolcanoPlotW2.R | 28 R/foldChangeArrow2.R |only R/matrixNAneighbourImpute.R | 2 R/readMassChroQFile.R |only R/readOpenMSFile.R | 2 R/summarizeForROC.R | 99 +- build/vignette.rds |binary inst/doc/wrProteoVignette1.R | 14 inst/doc/wrProteoVignette1.Rmd | 95 +- inst/doc/wrProteoVignette1.html | 262 +++-- inst/doc/wrProteoVignetteUPS1.R | 183 ++-- inst/doc/wrProteoVignetteUPS1.Rmd | 223 ++-- inst/doc/wrProteoVignetteUPS1.html | 1667 ++++++++++++++++++------------------- inst/extdata/tinyMC.RData |only man/VolcanoPlotW2.Rd | 15 man/foldChangeArrow2.Rd |only man/matrixNAneighbourImpute.Rd | 2 man/readMassChroQFile.Rd |only man/summarizeForROC.Rd | 21 vignettes/wrProteoVignette1.Rmd | 95 +- vignettes/wrProteoVignetteUPS1.Rmd | 223 ++-- 24 files changed, 1643 insertions(+), 1340 deletions(-)
Title: Fair Models in Machine Learning
Description: Fair machine learning regression models which take sensitive attributes into account in
model estimation. Currently implementing Komiyama et al. (2018)
<http://proceedings.mlr.press/v80/komiyama18a/komiyama18a.pdf> and an improvement over the former
that uses ridge regression to enforce fairness.
Author: Marco Scutari [aut, cre]
Maintainer: Marco Scutari <marco.scutari@gmail.com>
Diff between fairml versions 0.3 dated 2020-09-09 and 0.4 dated 2021-04-15
Changelog | 9 +++ DESCRIPTION | 13 +++-- MD5 | 47 +++++++++++--------- NAMESPACE | 10 +++- R/crossvalidation.R | 84 ++++++++++++++++++++++++++++-------- R/deviance-and-likelihood.R | 12 +++++ R/diagnostic-plots.R |only R/frrm.R |only R/globals.R | 8 ++- R/nclm.R | 78 +++++++++++++++++++++++++-------- R/predict.R | 34 +++++++++++--- R/print-and-summary.R | 24 ++++++++++ R/profile-plots.R | 39 ++++++++-------- R/sanitization-arguments.R | 18 +++---- R/sanitization-types.R | 2 data/german.credit.rda |only man/communities.and.crime.Rd | 6 +- man/compas.Rd | 12 +++-- man/fairml-package.Rd | 4 + man/fairml.cv.Rd | 35 +++++++++++---- man/fairness.profile.plot.Rd | 14 +++--- man/frrm.Rd |only man/german.credit.Rd |only man/law.school.admissions.Rd | 10 ++-- man/methods.Rd | 6 ++ man/national.longitudinal.survey.Rd | 11 +++- man/nclm.Rd | 9 ++- 27 files changed, 346 insertions(+), 139 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-07-29 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-16 1.1.6
2015-11-19 1.1.5
2015-07-30 1.1.4
2014-07-13 1.1.2
2014-04-14 1.1.1
2014-02-20 1.1
Title: Securely Wrangle Dataset According to Data Usage Agreement
Description: Create shareable data sets from raw data files that
contain protected elements. Relying on master crosswalk
files that list restricted variables, package functions
warn users about possible violations of data usage
agreement and prevent writing protected elements.
Author: Benjamin Skinner [aut, cre] (<https://orcid.org/0000-0002-0337-7415>)
Maintainer: Benjamin Skinner <btskinner@coe.ufl.edu>
Diff between duawranglr versions 0.6.5 dated 2019-11-19 and 0.6.7 dated 2021-04-15
duawranglr-0.6.5/duawranglr/tests/testthat/testdata/admin_data.sas7bdat |only duawranglr-0.6.5/duawranglr/tests/testthat/testdata/dua_one.sas7bdat |only duawranglr-0.6.7/duawranglr/DESCRIPTION | 9 duawranglr-0.6.7/duawranglr/MD5 | 16 duawranglr-0.6.7/duawranglr/NEWS.md | 8 duawranglr-0.6.7/duawranglr/build/vignette.rds |binary duawranglr-0.6.7/duawranglr/inst/doc/duawranglr.html | 337 --- duawranglr-0.6.7/duawranglr/inst/doc/securing_data.html | 1054 ++++------ duawranglr-0.6.7/duawranglr/tests/testthat/test-read_dua_file.R | 9 duawranglr-0.6.7/duawranglr/tests/testthat/test-sreader__.R | 10 10 files changed, 540 insertions(+), 903 deletions(-)
Title: Plotting and Comparing Means with Violin Plots
Description: Produces violin plots with optional mean comparison with Tukey's honest significant difference and linear regression. This package aims to be a simple and quick visualization tool for comparing means and assessing trends of categorical factors.
Author: Jefferson Paril <jeffersonparil@gmail.com>
Maintainer: Jefferson Paril <jeffersonparil@gmail.com>
Diff between violinplotter versions 2.0.0 dated 2021-03-29 and 2.0.1 dated 2021-04-15
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++---- R/plot_regression_line.R | 2 +- R/violinplotter.R | 1 + 5 files changed, 11 insertions(+), 12 deletions(-)
Title: Easily Install and Load the 'Tidyverse'
Description: The 'tidyverse' is a set of packages that work in harmony
because they share common data representations and 'API' design. This
package is designed to make it easy to install and load multiple
'tidyverse' packages in a single step. Learn more about the
'tidyverse' at <https://www.tidyverse.org>.
Author: Hadley Wickham [aut, cre],
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between tidyverse versions 1.3.0 dated 2019-11-21 and 1.3.1 dated 2021-04-15
DESCRIPTION | 44 +-- LICENSE | 597 ----------------------------------------------- MD5 | 26 +- NEWS.md | 17 - README.md | 89 +++---- build/vignette.rds |binary inst/doc/manifesto.Rmd | 2 inst/doc/manifesto.html | 206 +--------------- inst/doc/paper.Rmd | 2 inst/doc/paper.html | 398 +++++++++---------------------- man/tidyverse-package.Rd | 12 vignettes/manifesto.Rmd | 2 vignettes/paper.Rmd | 2 vignettes/paper.bib | 2 14 files changed, 249 insertions(+), 1150 deletions(-)
Title: Joint Latent Class Trees for Joint Modeling of Time-to-Event and
Longitudinal Data
Description: Implements the tree-based approach to joint modeling of time-to-event and longitudinal data. This approach looks for a tree-based partitioning such that within each estimated latent class defined by a terminal node, the time-to-event and longitudinal responses display a lack of association. See Zhang and Simonoff (2018) <arXiv:1812.01774>.
Author: Ningshan Zhang and Jeffrey S. Simonoff
Maintainer: Ningshan Zhang <nzhang@stern.nyu.edu>
Diff between jlctree versions 0.0.1 dated 2018-12-27 and 0.0.2 dated 2021-04-15
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/get_lrt.R | 6 ++++++ R/jlctree.R | 8 ++++++++ R/jlctree.control.R | 3 ++- R/surve.R | 10 ++++++++-- 6 files changed, 33 insertions(+), 12 deletions(-)
Title: Default Color Maps from 'matplotlib'
Description: Color maps designed to improve graph readability for readers with
common forms of color blindness and/or color vision deficiency. The color
maps are also perceptually-uniform, both in regular form and also when
converted to black-and-white for printing. This package also contains
'ggplot2' bindings for discrete and continuous color and fill scales. A lean
version of the package called 'viridisLite' that does not include the
'ggplot2' bindings can be found at
<https://cran.r-project.org/package=viridisLite>.
Author: Simon Garnier [aut, cre],
Noam Ross [ctb, cph],
Bob Rudis [ctb, cph],
Marco Sciaini [ctb, cph],
Antônio Pedro Camargo [ctb, cph],
Cédric Scherer [ctb, cph]
Maintainer: Simon Garnier <garnier@njit.edu>
Diff between viridis versions 0.5.1 dated 2018-03-29 and 0.6.0 dated 2021-04-15
viridis-0.5.1/viridis/R/compatibility.R |only viridis-0.5.1/viridis/man/figures/sample-palette.png |only viridis-0.5.1/viridis/man/figures/samplepalette.pdf |only viridis-0.5.1/viridis/man/viridis.map.Rd |only viridis-0.5.1/viridis/tests/testthat/Rplots.pdf |only viridis-0.6.0/viridis/DESCRIPTION | 33 + viridis-0.6.0/viridis/MD5 | 49 +- viridis-0.6.0/viridis/NAMESPACE | 7 viridis-0.6.0/viridis/NEWS.md |only viridis-0.6.0/viridis/R/scales.R | 222 +++++++------ viridis-0.6.0/viridis/build/vignette.rds |binary viridis-0.6.0/viridis/inst/CITATION |only viridis-0.6.0/viridis/inst/doc/intro-to-viridis.R | 33 + viridis-0.6.0/viridis/inst/doc/intro-to-viridis.Rmd | 107 ++++-- viridis-0.6.0/viridis/inst/doc/intro-to-viridis.html | 320 +++++++++++-------- viridis-0.6.0/viridis/man/figures/logo.png |only viridis-0.6.0/viridis/man/figures/maps.png |only viridis-0.6.0/viridis/man/figures/viridis-scales.png |binary viridis-0.6.0/viridis/man/reexports.Rd | 10 viridis-0.6.0/viridis/man/scale_viridis.Rd | 145 +++++--- viridis-0.6.0/viridis/man/viridis_pal.Rd | 58 +-- viridis-0.6.0/viridis/tests/figs/colorandfill/a.svg | 92 ++--- viridis-0.6.0/viridis/tests/figs/colorandfill/b.svg | 92 ++--- viridis-0.6.0/viridis/tests/figs/colorandfill/c.svg | 92 ++--- viridis-0.6.0/viridis/tests/figs/colorandfill/d.svg | 92 ++--- viridis-0.6.0/viridis/tests/figs/colorandfill/e.svg |only viridis-0.6.0/viridis/tests/figs/colorandfill/f.svg |only viridis-0.6.0/viridis/tests/figs/colorandfill/g.svg |only viridis-0.6.0/viridis/tests/figs/colorandfill/h.svg |only viridis-0.6.0/viridis/tests/figs/deps.txt | 6 viridis-0.6.0/viridis/tests/testthat/test-viridis.R | 21 - viridis-0.6.0/viridis/vignettes/intro-to-viridis.Rmd | 107 ++++-- 32 files changed, 875 insertions(+), 611 deletions(-)
Title: Simulation-Based Power Analysis for Factorial Designs
Description: Functions to perform simulations of ANOVA designs of up to three factors. Calculates the observed power and average observed effect size for all main effects and interactions in the ANOVA, and all simple comparisons between conditions. Includes functions for analytic power calculations and additional helper functions that compute effect sizes for ANOVA designs, observed error rates in the simulations, and functions to plot power curves. Please see Lakens, D., & Caldwell, A. R. (2021). "Simulation-Based Power Analysis for Factorial Analysis of Variance Designs". <doi:10.1177/2515245920951503>.
Author: Aaron Caldwell [aut, cre],
Daniel Lakens [aut],
Lisa DeBruine [ctb],
Jonathon Love [ctb],
Frederik Aust [ctb] (<https://orcid.org/0000-0003-4900-788X>)
Maintainer: Aaron Caldwell <arcaldwell49@gmail.com>
Diff between Superpower versions 0.1.0 dated 2020-09-03 and 0.1.1 dated 2021-04-15
DESCRIPTION | 11 LICENSE | 4 MD5 | 88 +-- NAMESPACE | 7 NEWS.md | 20 R/ANOVA_compromise.R | 9 R/ANOVA_exact.R | 2 R/ANOVA_power.R | 4 R/Superpower_options.R | 2 R/emmeans_power.R | 6 R/globals.R | 2 R/methods.opt_alpha.R |only R/methods.sim_result.R | 107 ++++ R/minimize_balance_alpha.R | 13 R/misc_functions.R |only R/morey_plots.R |only R/plot_power.R | 2 R/power_ftest.R | 6 README.md | 2 build/vignette.rds |binary inst/CITATION | 28 - inst/doc/compromise_power.R | 17 inst/doc/compromise_power.Rmd | 17 inst/doc/compromise_power.html | 181 ++++--- inst/doc/emmeans_power.Rmd | 2 inst/doc/emmeans_power.html | 31 + inst/doc/intro_to_superpower.R | 383 +-------------- inst/doc/intro_to_superpower.Rmd | 554 +--------------------- inst/doc/intro_to_superpower.html | 810 ++++++++------------------------- inst/doc/more_anova_designs.R |only inst/doc/more_anova_designs.Rmd |only inst/doc/more_anova_designs.html |only man/ANOVA_compromise.Rd | 2 man/ANOVA_exact.Rd | 2 man/Superpower_options.Rd | 2 man/emmeans_power.Rd | 8 man/morey_plot.Rd |only man/opt_alpha-methods.Rd |only man/optimal_alpha.Rd | 93 +-- man/plot_power.Rd | 2 man/power.ftest.Rd | 6 man/sim_result-methods.Rd | 69 +- tests/testthat/test-ANOVA_compromise.R | 4 tests/testthat/test-anova_exact.R | 3 tests/testthat/test-anova_power.R | 17 tests/testthat/test-morey.R |only vignettes/compromise_power.Rmd | 17 vignettes/emmeans_power.Rmd | 2 vignettes/intro_to_superpower.Rmd | 554 +--------------------- vignettes/more_anova_designs.Rmd |only 50 files changed, 807 insertions(+), 2282 deletions(-)
Title: Geometrical Functionality of the 'spatstat' Family
Description: Defines types of spatial data such as point patterns,
mainly in two dimensions, but also in higher dimensions.
Provides class support, and functions for geometrical operations
on spatial data, used in the 'spatstat' family of packages.
Excludes spatial data on a linear network, which are covered by
the separate package 'spatstat.linnet'.
Author: Adrian Baddeley [aut, cre],
Rolf Turner [aut],
Ege Rubak [aut],
Tilman Davies [ctb],
Ute Hahn [ctb],
Abdollah Jalilian [ctb],
Sebastian Meyer [ctb],
Suman Rakshit [ctb],
Dominic Schuhmacher [ctb],
Rasmus Waagepetersen [ctb]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.geom versions 2.0-1 dated 2021-03-22 and 2.1-0 dated 2021-04-15
DESCRIPTION | 31 ++++------- MD5 | 30 +++++------ NEWS | 45 +++++++++++++++++ R/images.R | 66 ++++++++++++++++--------- R/nncross.R | 43 ++++++++++------ R/summary.im.R | 80 ++++++++++++++++-------------- R/window.R | 41 +++++++++++---- inst/doc/packagesizes.txt | 1 man/Extract.im.Rd | 121 +++++++++++++++++++++++++--------------------- man/discretise.Rd | 38 ++++++++------ src/knn3DdistX.h | 10 ++- src/knnXdist.h | 10 ++- src/nn3DdistX.h | 10 ++- src/nndistX.h | 15 +++-- tests/testsGtoJ.R | 2 tests/testsNtoO.R | 25 +++++++++ 16 files changed, 360 insertions(+), 208 deletions(-)
Title: Parallel Programming Tools for 'Rcpp'
Description: High level functions for parallel programming with 'Rcpp'.
For example, the 'parallelFor()' function can be used to convert the work of
a standard serial "for" loop into a parallel one and the 'parallelReduce()'
function can be used for accumulating aggregate or other values.
Author: JJ Allaire [aut],
Romain Francois [aut, cph],
Kevin Ushey [aut, cre],
Gregory Vandenbrouck [aut],
Marcus Geelnard [aut, cph] (TinyThread library,
https://tinythreadpp.bitsnbites.eu/),
Hamada S. Badr [ctb] (<https://orcid.org/0000-0002-9808-2344>),
RStudio [cph],
Intel [aut, cph] (Intel TBB library,
https://www.threadingbuildingblocks.org/),
Microsoft [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between RcppParallel versions 5.1.1 dated 2021-04-11 and 5.1.2 dated 2021-04-15
RcppParallel-5.1.1/RcppParallel/inst/NEWS |only RcppParallel-5.1.1/RcppParallel/inst/include/RcppParallel/tbb |only RcppParallel-5.1.1/RcppParallel/inst/include/serial |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb |only RcppParallel-5.1.2/RcppParallel/DESCRIPTION | 6 RcppParallel-5.1.2/RcppParallel/MD5 | 167 ------- RcppParallel-5.1.2/RcppParallel/NAMESPACE | 1 RcppParallel-5.1.2/RcppParallel/NEWS.md |only RcppParallel-5.1.2/RcppParallel/R/RcppParallel-package.R | 3 RcppParallel-5.1.2/RcppParallel/R/flags.R | 126 ----- RcppParallel-5.1.2/RcppParallel/R/hooks.R | 79 +-- RcppParallel-5.1.2/RcppParallel/R/plugin.R |only RcppParallel-5.1.2/RcppParallel/R/tbb.R |only RcppParallel-5.1.2/RcppParallel/R/utils.R |only RcppParallel-5.1.2/RcppParallel/man/RcppParallel-package.Rd | 2 RcppParallel-5.1.2/RcppParallel/man/flags.Rd | 17 RcppParallel-5.1.2/RcppParallel/man/tbbLibraryPath.Rd |only RcppParallel-5.1.2/RcppParallel/src/Makevars.in | 230 +++++----- RcppParallel-5.1.2/RcppParallel/src/install.libs.R |only RcppParallel-5.1.2/RcppParallel/tools/config/configure.R | 21 20 files changed, 226 insertions(+), 426 deletions(-)
More information about measurementProtocol at CRAN
Permanent link
Title: Bias-Corrected GEE for Cluster Randomized Trials
Description: Population-averaged models have been increasingly used in the design and analysis of
cluster randomized trials (CRTs). To facilitate the applications of population-averaged
models in CRTs, the package implements the generalized estimating equations (GEE) and
matrix-adjusted estimating equations (MAEE) approaches to jointly estimate the marginal
mean models correlation models both for general CRTs and stepped wedge CRTs. Despite the
general GEE/MAEE approach, the package also implements a fast cluster-period GEE method by
Li et al. (2021) <doi:10.1093/biostatistics/kxaa056>
specifically for stepped wedge CRTs with large and variable cluster-period sizes and gives
a simple and efficient estimating equations approach based on the cluster-period means to
estimate the intervention effects as well as correlation parameters. In addition, the package
also provides functions for generating correlated binary data with specific mean vector and
correlation matrix based on the multivariate probit method in Emrich and Piedmonte (1991) <doi:10.1080/00031305.1991.10475828> or
the conditional linear family method in Qaqish (2003) <doi:10.1093/biomet/90.2.455>.
Author: Hengshi Yu [aut, cre],
Fan Li [aut],
Paul Rathouz [aut],
Elizabeth L. Turner [aut],
John Preisser [aut]
Maintainer: Hengshi Yu <hengshi@umich.edu>
Diff between geeCRT versions 0.0.1 dated 2020-11-11 and 0.1.0 dated 2021-04-15
DESCRIPTION | 15 MD5 | 42 - R/binMAEE.R | 1538 +++++++++++++++++++++---------------------- R/contMAEE.R | 1556 +++++++++++++++++++++---------------------- R/cpgeeSWD.R | 108 +-- R/cpgee_ed.R | 1691 +++++++++++++++++++++++------------------------ R/cpgee_exc.R | 1700 ++++++++++++++++++++++-------------------------- R/cpgee_nex.R | 1620 ++++++++++++++++++++++----------------------- R/geemaee.R | 97 +- R/print_cpgeeSWD.R | 10 R/print_geemaee.R | 8 R/sampleSWCRTLarge.R | 2 R/sampleSWCRTSmall.R | 2 R/simbinCLF.R | 269 +++---- R/simbinPROBIT.R | 217 +++--- build |only inst |only man/cpgeeSWD.Rd | 60 - man/geemaee.Rd | 77 +- man/sampleSWCRTLarge.Rd | 2 man/sampleSWCRTSmall.Rd | 2 vignettes |only 22 files changed, 4432 insertions(+), 4584 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-31 0.2.2
2020-05-06 0.2.1
2020-03-06 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-12 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-31 1.0
Title: Data & Functions for Working with US ZIP Codes
Description: Make working with ZIP codes in R painless with an integrated dataset of U.S. ZIP codes and functions for working with them.
Search ZIP codes by multiple geographies, including state, county, city & across time zones. Also included are functions for relating
ZIP codes to Census data.
Author: Gavin Rozzi [aut, cre] (<https://orcid.org/0000-0002-9969-8175>)
Maintainer: Gavin Rozzi <gr@gavinrozzi.com>
Diff between zipcodeR versions 0.2.0 dated 2020-12-12 and 0.3.0 dated 2021-04-15
DESCRIPTION | 13 MD5 | 61 +- NAMESPACE | 44 +- NEWS.md | 8 R/data.r | 1 R/download_data.r | 36 - R/globals.r | 2 R/zip_helper_functions.R |only R/zip_lookups.r | 260 +++++++----- README.md | 108 ++--- build/vignette.rds |binary inst/doc/geographic.R |only inst/doc/geographic.Rmd |only inst/doc/geographic.html |only inst/doc/zipcodeR.R | 87 ++-- inst/doc/zipcodeR.Rmd | 271 ++++++------- inst/doc/zipcodeR.html | 978 ++++++++++++++++++++++------------------------- man/download_zip_data.Rd | 4 man/geocode_zip.Rd |only man/get_cd.Rd | 4 man/get_tracts.Rd | 42 +- man/is_zcta.Rd | 6 man/normalize_zip.Rd |only man/reverse_zipcode.Rd | 48 +- man/search_cd.Rd | 46 +- man/search_city.Rd | 46 +- man/search_county.Rd | 52 +- man/search_fips.Rd | 50 +- man/search_radius.Rd |only man/search_state.Rd | 43 +- man/search_tz.Rd | 42 +- man/zip_distance.Rd |only tests |only vignettes/geographic.Rmd |only vignettes/zipcodeR.Rmd | 271 ++++++------- 35 files changed, 1307 insertions(+), 1216 deletions(-)
Title: Cubic Hermite Splines and Related Root Finding Methods
Description: Supports cubic Hermite splines (Fritsch & Carlson, 1980 <doi:10.1137/0717021>), along with their derivatives/integrals. Also, supports monotonically increasing/decreasing splines, and computes their roots and minimum/maximum points.
Author: Abby Spurdle
Maintainer: Abby Spurdle <spurdle.a@gmail.com>
Diff between kubik versions 0.2.0 dated 2020-03-23 and 0.3.0 dated 2021-04-15
kubik-0.2.0/kubik/R/chs.r |only kubik-0.2.0/kubik/R/intoo_deriv.r |only kubik-0.2.0/kubik/R/methods.r |only kubik-0.2.0/kubik/man/11_cubic_hermite_splines.Rd |only kubik-0.2.0/kubik/man/12_constraints.Rd |only kubik-0.2.0/kubik/man/13_print_and_plot_methods.Rd |only kubik-0.2.0/kubik/man/14_roots.Rd |only kubik-0.2.0/kubik/man/15_solve_method.Rd |only kubik-0.2.0/kubik/man/16_slopes_and_tangents.Rd |only kubik-0.2.0/kubik/man/21_direct_chs_evaluation.Rd |only kubik-0.2.0/kubik/man/22_direct_chs_root_evaluation.Rd |only kubik-0.2.0/kubik/man/31_deprecated.Rd |only kubik-0.3.0/kubik/DESCRIPTION | 15 ++- kubik-0.3.0/kubik/MD5 | 49 ++++++------ kubik-0.3.0/kubik/NAMESPACE | 15 ++- kubik-0.3.0/kubik/R/chs0.r |only kubik-0.3.0/kubik/R/chs_cons.r |only kubik-0.3.0/kubik/R/chs_eval.r | 8 +- kubik-0.3.0/kubik/R/chs_interval_eval.r | 4 - kubik-0.3.0/kubik/R/chs_slopes.r | 66 +++++++++-------- kubik-0.3.0/kubik/R/params.r | 4 - kubik-0.3.0/kubik/R/plot_methods.r |only kubik-0.3.0/kubik/R/poly.r | 4 - kubik-0.3.0/kubik/R/roots.r | 46 +++++------ kubik-0.3.0/kubik/R/roots_eval.r | 4 - kubik-0.3.0/kubik/R/roots_eval_2.r | 4 - kubik-0.3.0/kubik/R/roots_interval_eval.r | 4 - kubik-0.3.0/kubik/man/00_bridging_functions.Rd |only kubik-0.3.0/kubik/man/10_cubic_hermite_splines.Rd |only kubik-0.3.0/kubik/man/20_runtime_function_objects.Rd |only kubik-0.3.0/kubik/man/30_print_method.Rd |only kubik-0.3.0/kubik/man/31_plot_methods.Rd |only kubik-0.3.0/kubik/man/40_constraints.Rd |only kubik-0.3.0/kubik/man/41_slopes.Rd |only kubik-0.3.0/kubik/man/50_roots.Rd |only kubik-0.3.0/kubik/man/51_solve_method.Rd |only kubik-0.3.0/kubik/man/60_direct_chs_evaluation.Rd |only kubik-0.3.0/kubik/man/61_direct_chs_root_evaluation.Rd |only kubik-0.3.0/kubik/man/95_deprecated.Rd |only 39 files changed, 121 insertions(+), 102 deletions(-)
Title: Sample Size Calculation in Hierarchical 2x2 Factorial Trials
Description: Implements the sample size methods for hierarchical 2x2 factorial trials under a series of hypothesis tests proposed in "Sample size calculation in hierarchical 2x2 factorial trials with unequal cluster sizes" (under review), and provides the table and plot generators for the sample size estimations.
Author: Zizhong Tian [aut, cre],
Denise Esserman [aut],
Guangyu Tong [aut],
Fan Li [aut]
Maintainer: Zizhong Tian <zizhong.tian@yale.edu>
Diff between H2x2Factorial versions 1.0.3 dated 2021-02-06 and 1.1.0 dated 2021-04-15
DESCRIPTION | 9 ++++----- MD5 | 6 +++--- R/helpers.R | 46 +++++++++++++++++++++------------------------- R/table.H2x2Factorial.R | 25 +++++++++++++++---------- 4 files changed, 43 insertions(+), 43 deletions(-)
Title: Connecting to Various Database Platforms
Description: An R 'DataBase Interface' ('DBI') compatible interface to various database platforms ('PostgreSQL', 'Oracle', 'Microsoft SQL Server',
'Amazon Redshift', 'Microsoft Parallel Database Warehouse', 'IBM Netezza', 'Apache Impala', 'Google BigQuery', and 'SQLite'). Also includes support for
fetching data as 'Andromeda' objects. Uses 'Java Database Connectivity' ('JDBC') to connect to databases (except SQLite).
Author: Martijn Schuemie [aut, cre],
Marc Suchard [aut],
Observational Health Data Science and Informatics [cph],
Microsoft Inc. [cph] (SQL Server JDBC driver),
PostgreSQL Global Development Group [cph] (PostgreSQL JDBC driver),
Oracle Inc. [cph] (Oracle JDBC driver),
Amazon Inc. [cph] (RedShift JDBC driver)
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between DatabaseConnector versions 4.0.0 dated 2021-03-02 and 4.0.2 dated 2021-04-15
DESCRIPTION | 10 MD5 | 40 NEWS.md | 18 R/Andromeda.R | 2 R/BulkLoad.R | 2 R/Connect.R | 20 R/CtasHack.R | 6 R/DBI.R | 16 R/DatabaseConnector.R | 4 R/Drivers.R | 18 R/InsertTable.R | 7 R/Sql.R | 4 README.md | 20 build/DatabaseConnector.pdf | 7020 +++++----- inst/doc/UsingDatabaseConnector.pdf |binary man/connect.Rd | 2 man/createConnectionDetails.Rd | 2 man/dbExistsTable-DatabaseConnectorConnection-character-method.Rd | 120 man/dbListTables-DatabaseConnectorConnection-method.Rd | 132 man/dbReadTable-DatabaseConnectorConnection-character-method.Rd | 6 man/jdbcDrivers.Rd | 76 21 files changed, 3779 insertions(+), 3746 deletions(-)
More information about DatabaseConnector at CRAN
Permanent link
Title: Compare Baseline Characteristics Between Groups
Description: Compare baseline characteristics between two or more groups. The variables being compared can be factor and numeric variables. The function will automatically judge the type and distribution of the variables, and make statistical description and bivariate analysis.
Author: Zhongheng Zhang,
Sir Run Run Shaw hospital,
Zhejiang university school of medicine
Maintainer: Zhongheng Zhang <zh_zhang1984@zju.edu.cn>
Diff between CBCgrps versions 2.8.1 dated 2020-08-26 and 2.8.2 dated 2021-04-15
CBCgrps-2.8.1/CBCgrps/README.md |only CBCgrps-2.8.2/CBCgrps/DESCRIPTION | 8 +- CBCgrps-2.8.2/CBCgrps/MD5 | 11 +-- CBCgrps-2.8.2/CBCgrps/R/multigrps.R | 37 ++++-------- CBCgrps-2.8.2/CBCgrps/R/twogrps.R | 72 ++++-------------------- CBCgrps-2.8.2/CBCgrps/man/CBCgrps2.6-package.Rd | 2 CBCgrps-2.8.2/CBCgrps/man/twogrps.Rd | 8 +- 7 files changed, 41 insertions(+), 97 deletions(-)
Title: Processing and Physical Activity Summaries of Minute Level
Activity Data
Description: Provides functions to process minute level actigraphy-measured activity counts data and extract commonly used physical activity volume and fragmentation metrics.
Author: Marta Karas [aut, cre] (<https://orcid.org/0000-0001-5889-3970>),
Jacek Urbanek [aut] (<https://orcid.org/0000-0002-1890-8899>),
Jennifer Schrack [aut] (<https://orcid.org/0000-0001-9244-9267>)
Maintainer: Marta Karas <marta.karass@gmail.com>
Diff between arctools versions 1.1.0 dated 2021-01-09 and 1.1.2 dated 2021-04-15
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 5 +++++ R/activity_stats.R | 3 ++- R/midnight_to_midnight.R | 2 +- R/summarize_PA.R | 2 ++ README.md | 9 +++------ inst/doc/arctools_intro.html | 9 ++++++++- man/activity_stats.Rd | 3 ++- man/midnight_to_midnight.Rd | 2 +- man/summarize_PA.Rd | 4 +++- 11 files changed, 40 insertions(+), 25 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-02 1.0.1
2018-11-14 1.0
Title: Recurrent Event Regression
Description: A comprehensive collection of practical and easy-to-use tools for regression analysis of recurrent events, with or without the presence of a (possibly) informative terminal event. The modeling framework is based on a joint frailty scale-change model, that includes models described in Wang et al. (2001) <doi:10.1198/016214501753209031>, Huang and Wang (2004) <doi:10.1198/016214504000001033>, Xu et al. (2017) <doi:10.1080/01621459.2016.1173557>, and Xu et al. (2019) <doi:10.5705/SS.202018.0224> as special cases. The implemented estimating procedure does not require any parametric assumption on the frailty distribution. The package also allows the users to specify different model forms for both the recurrent event process and the terminal event.
Author: Sy Han (Steven) Chiou [aut, cre],
Chiung-Yu Huang [aut]
Maintainer: Sy Han (Steven) Chiou <schiou@utdallas.edu>
Diff between reReg versions 1.3.0 dated 2020-07-22 and 1.4.0 dated 2021-04-14
reReg-1.3.0/reReg/man/plotMCF.Rd |only reReg-1.3.0/reReg/man/simSC.Rd |only reReg-1.4.0/reReg/DESCRIPTION | 16 reReg-1.4.0/reReg/MD5 | 54 + reReg-1.4.0/reReg/NAMESPACE | 28 reReg-1.4.0/reReg/NEWS.md | 14 reReg-1.4.0/reReg/R/Recur.R | 26 reReg-1.4.0/reReg/R/data.R | 14 reReg-1.4.0/reReg/R/mcf.R |only reReg-1.4.0/reReg/R/npFit.R |only reReg-1.4.0/reReg/R/plot.R | 809 ++++++++++++++++++--------- reReg-1.4.0/reReg/R/reReg.R | 576 ++++++++++--------- reReg-1.4.0/reReg/R/reReg_pkg.R | 17 reReg-1.4.0/reReg/R/regGeneral.R | 328 +++++----- reReg-1.4.0/reReg/R/residuals.R |only reReg-1.4.0/reReg/R/simu.R | 224 ++++--- reReg-1.4.0/reReg/R/summary.R | 157 ++--- reReg-1.4.0/reReg/data/simDat.RData |binary reReg-1.4.0/reReg/man/Recur-class.Rd |only reReg-1.4.0/reReg/man/basebind.Rd |only reReg-1.4.0/reReg/man/mcf.Rd |only reReg-1.4.0/reReg/man/mcf.formula-class.Rd |only reReg-1.4.0/reReg/man/plot.Recur.Rd | 85 +- reReg-1.4.0/reReg/man/plot.reReg.Rd | 39 + reReg-1.4.0/reReg/man/plotEvents.Rd | 52 + reReg-1.4.0/reReg/man/plotHaz.Rd | 32 - reReg-1.4.0/reReg/man/plotRate.Rd | 31 - reReg-1.4.0/reReg/man/reReg-package.Rd | 21 reReg-1.4.0/reReg/man/reReg.Rd | 92 +-- reReg-1.4.0/reReg/man/residuals.reReg.Rd |only reReg-1.4.0/reReg/man/simDat.Rd | 12 reReg-1.4.0/reReg/man/simGSC.Rd |only reReg-1.4.0/reReg/man/summary.Recur-class.Rd |only reReg-1.4.0/reReg/src/regRec.cpp | 113 ++- 34 files changed, 1699 insertions(+), 1041 deletions(-)
Title: Tools and Statistical Procedures in Plant Science
Description: The 'inti' package is part of the 'inkaverse' project for developing
different procedures and tools used in plant science and experimental designs.
The mean aim of the package is to support researchers during the planning of
experiments and data collection (tarpuy()), data analysis and graphics (yupana())
, and technical writing (rtciles()).
Learn more about the 'inkaverse' project at <https://inkaverse.com/>.
Author: Flavio Lozano-Isla [aut, cre] (<https://orcid.org/0000-0002-0714-669X>)
Maintainer: Flavio Lozano-Isla <flavjack@gmail.com>
Diff between inti versions 0.1.3 dated 2021-03-20 and 0.2.0 dated 2021-04-14
inti-0.1.3/inti/inst/rticles/rsconnect/shinyapps.io/flavjack/totora.dcf |only inti-0.1.3/inti/inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy-test.dcf |only inti-0.2.0/inti/DESCRIPTION | 9 inti-0.2.0/inti/MD5 | 50 +- inti-0.2.0/inti/NEWS.md | 41 + inti-0.2.0/inti/R/fieldbook_plex.R | 24 - inti-0.2.0/inti/R/fieldbook_report.R | 6 inti-0.2.0/inti/R/fieldbook_summary.R | 4 inti-0.2.0/inti/R/mean_comparison.R | 33 - inti-0.2.0/inti/R/plot_smr.R | 78 ++- inti-0.2.0/inti/R/web_table.R | 55 -- inti-0.2.0/inti/README.md | 7 inti-0.2.0/inti/build/vignette.rds |binary inti-0.2.0/inti/inst/doc/apps.html | 2 inti-0.2.0/inti/inst/tarpuy/pkgs.R | 4 inti-0.2.0/inti/inst/tarpuy/rsconnect/shinyapps.io/flavjack/tarpuy.dcf | 5 inti-0.2.0/inti/inst/tarpuy/server.R | 78 --- inti-0.2.0/inti/inst/tarpuy/ui.R | 10 inti-0.2.0/inti/inst/yupana/pkgs.R | 13 inti-0.2.0/inti/inst/yupana/rsconnect/shinyapps.io/flavjack/yupanapro.dcf | 5 inti-0.2.0/inti/inst/yupana/server.R | 217 +++------- inti-0.2.0/inti/inst/yupana/ui.R | 4 inti-0.2.0/inti/man/fieldbook_plex.Rd | 4 inti-0.2.0/inti/man/fieldbook_report.Rd | 4 inti-0.2.0/inti/man/fieldbook_summary.Rd | 4 inti-0.2.0/inti/man/mean_comparison.Rd | 12 inti-0.2.0/inti/man/plot_smr.Rd | 14 27 files changed, 308 insertions(+), 375 deletions(-)
Title: Import and Export 'SPSS', 'Stata' and 'SAS' Files
Description: Import foreign statistical formats into R via the embedded
'ReadStat' C library, <https://github.com/WizardMac/ReadStat>.
Author: Hadley Wickham [aut, cre],
Evan Miller [aut, cph] (Author of included ReadStat code),
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between haven versions 2.3.1 dated 2020-06-01 and 2.4.0 dated 2021-04-14
haven-2.3.1/haven/R/RcppExports.R |only haven-2.3.1/haven/R/haven.R |only haven-2.3.1/haven/src/RcppExports.cpp |only haven-2.3.1/haven/tests/testthat/datetime-d.dta |only haven-2.3.1/haven/tests/testthat/datetime.sas7bdat |only haven-2.3.1/haven/tests/testthat/datetime.sav |only haven-2.3.1/haven/tests/testthat/formats.sas7bcat |only haven-2.3.1/haven/tests/testthat/hadley.sas7bdat |only haven-2.3.1/haven/tests/testthat/hadley.zip |only haven-2.3.1/haven/tests/testthat/helper-lump.R |only haven-2.3.1/haven/tests/testthat/labelled-num-na.sav |only haven-2.3.1/haven/tests/testthat/labelled-num.sav |only haven-2.3.1/haven/tests/testthat/labelled-output.txt |only haven-2.3.1/haven/tests/testthat/labelled-spss-output.txt |only haven-2.3.1/haven/tests/testthat/labelled-str.sav |only haven-2.3.1/haven/tests/testthat/notes.dta |only haven-2.3.1/haven/tests/testthat/pillar_double.txt |only haven-2.3.1/haven/tests/testthat/pillar_integer.txt |only haven-2.3.1/haven/tests/testthat/pillar_spss_integer.txt |only haven-2.3.1/haven/tests/testthat/pillar_string.txt |only haven-2.3.1/haven/tests/testthat/pillar_tagged_na.txt |only haven-2.3.1/haven/tests/testthat/tagged-na-double.dta |only haven-2.3.1/haven/tests/testthat/tagged-na-int.dta |only haven-2.3.1/haven/tests/testthat/tagged-na.sas7bcat |only haven-2.3.1/haven/tests/testthat/tagged-na.sas7bdat |only haven-2.3.1/haven/tests/testthat/tagged-na.txt |only haven-2.3.1/haven/tests/testthat/test-as-factor.R |only haven-2.3.1/haven/tests/testthat/test-labelled-pillar.txt |only haven-2.3.1/haven/tests/testthat/test-pillar.R |only haven-2.3.1/haven/tests/testthat/test-read-connection.R |only haven-2.3.1/haven/tests/testthat/test-read-sas.R |only haven-2.3.1/haven/tests/testthat/test-read-sav.R |only haven-2.3.1/haven/tests/testthat/test-read-stata.R |only haven-2.3.1/haven/tests/testthat/test-read-xpt.R |only haven-2.3.1/haven/tests/testthat/test-replace_with.R |only haven-2.3.1/haven/tests/testthat/test-utils.R |only haven-2.3.1/haven/tests/testthat/test-write-dta.R |only haven-2.3.1/haven/tests/testthat/test-write-sas.R |only haven-2.3.1/haven/tests/testthat/test-write-sav.R |only haven-2.3.1/haven/tests/testthat/test-write-xpt.R |only haven-2.3.1/haven/tests/testthat/types.dta |only haven-2.3.1/haven/tests/testthat/umlauts.sav |only haven-2.3.1/haven/tests/testthat/variable-label.sav |only haven-2.3.1/haven/vignettes/releases |only haven-2.4.0/haven/DESCRIPTION | 29 haven-2.4.0/haven/MD5 | 211 +- haven-2.4.0/haven/NAMESPACE | 19 haven-2.4.0/haven/NEWS.md | 42 haven-2.4.0/haven/R/as_factor.R | 23 haven-2.4.0/haven/R/cpp11.R |only haven-2.4.0/haven/R/haven-package.R |only haven-2.4.0/haven/R/haven-sas.R |only haven-2.4.0/haven/R/haven-spss.R |only haven-2.4.0/haven/R/haven-stata.R |only haven-2.4.0/haven/R/labelled.R | 16 haven-2.4.0/haven/R/labelled_spss.R | 181 + haven-2.4.0/haven/R/update.R | 3 haven-2.4.0/haven/R/utils.R | 63 haven-2.4.0/haven/R/zap_missing.R | 2 haven-2.4.0/haven/README.md | 30 haven-2.4.0/haven/build/vignette.rds |binary haven-2.4.0/haven/inst/doc/datetimes.Rmd | 4 haven-2.4.0/haven/inst/doc/datetimes.html | 195 -- haven-2.4.0/haven/inst/doc/semantics.html | 477 +--- haven-2.4.0/haven/man/as_factor.Rd | 7 haven-2.4.0/haven/man/haven-package.Rd |only haven-2.4.0/haven/man/read_dta.Rd | 8 haven-2.4.0/haven/man/read_sas.Rd | 4 haven-2.4.0/haven/man/read_spss.Rd | 10 haven-2.4.0/haven/man/read_xpt.Rd | 6 haven-2.4.0/haven/src/DfReader.cpp | 212 +- haven-2.4.0/haven/src/DfWriter.cpp | 207 +- haven-2.4.0/haven/src/cpp11.cpp |only haven-2.4.0/haven/src/haven_types.cpp | 6 haven-2.4.0/haven/src/haven_types.h | 7 haven-2.4.0/haven/src/readstat/CKHashTable.c | 282 ++ haven-2.4.0/haven/src/readstat/CKHashTable.h | 22 haven-2.4.0/haven/src/readstat/LICENSE |only haven-2.4.0/haven/src/readstat/NEWS |only haven-2.4.0/haven/src/readstat/readstat.h | 8 haven-2.4.0/haven/src/readstat/readstat_io_unistd.c | 42 haven-2.4.0/haven/src/readstat/readstat_strings.h |only haven-2.4.0/haven/src/readstat/readstat_writer.c | 8 haven-2.4.0/haven/src/readstat/sas/readstat_sas.c | 71 haven-2.4.0/haven/src/readstat/sas/readstat_sas.h | 9 haven-2.4.0/haven/src/readstat/sas/readstat_sas7bcat_read.c | 18 haven-2.4.0/haven/src/readstat/sas/readstat_sas7bdat_read.c | 205 +- haven-2.4.0/haven/src/readstat/sas/readstat_sas7bdat_write.c | 29 haven-2.4.0/haven/src/readstat/sas/readstat_sas_rle.c | 5 haven-2.4.0/haven/src/readstat/sas/readstat_xport_read.c | 64 haven-2.4.0/haven/src/readstat/sas/readstat_xport_write.c | 16 haven-2.4.0/haven/src/readstat/spss/readstat_por.c | 2 haven-2.4.0/haven/src/readstat/spss/readstat_por_read.c | 20 haven-2.4.0/haven/src/readstat/spss/readstat_sav.c | 10 haven-2.4.0/haven/src/readstat/spss/readstat_sav_parse.c | 962 ++-------- haven-2.4.0/haven/src/readstat/spss/readstat_sav_parse.rl | 104 - 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Title: Data Driven I-v Feature Extraction
Description: The Data Driven I-V Feature Extraction is used to extract
Current-Voltage (I-V) features from I-V curves. I-V curves indicate the
relationship between current and voltage for a solar cell or Photovoltaic (PV)
modules. The I-V features such as maximum power point (Pmp), shunt resistance (Rsh),
series resistance (Rs),short circuit current (Isc), open circuit voltage (Voc),
fill factor (FF), current at maximum power (Imp) and voltage at maximum power(Vmp)
contain important information of the performance for PV modules. The traditional
method uses the single diode model to model I-V curves and extract I-V features.
This package does not use the diode model, but uses data-driven a method which
select different linear parts of the I-V curves to extract I-V features.
This method also uses a sampling method to calculate uncertainties when extracting
I-V features. Also, because of the partially shaded array, "steps" occurs in
I-V curves. The "Segmented Regression" method is used to identify steps in I-V curves.
This material is based upon work supported by the U.S. Department of Energy’s
Office of Energy Efficiency and Renewable Energy (EERE) under Solar Energy
Technologies Office (SETO) Agreement Number DE-EE0007140. Further information can be
found in the following paper.
[1] Ma, X. et al, 2019.
<doi:10.1109/JPHOTOV.2019.2928477>.
Author: Wei-Heng Huang [aut] (<https://orcid.org/0000-0002-6609-4981>),
Xuan Ma [aut] (<https://orcid.org/0000-0003-2361-2846>),
Jiqi Liu [aut] (<https://orcid.org/0000-0003-2016-4160>),
Menghong Wang [ctb] (<https://orcid.org/0000-0001-7349-699X>),
Alan J. Curran [ctb] (<https://orcid.org/0000-0002-4505-8359>),
Justin S. Fada [ctb] (<https://orcid.org/0000-0002-0029-5051>),
Jean-Nicolas Jaubert [ctb] (<https://orcid.org/0000-0002-9663-6999>),
Jing Sun [ctb] (<https://orcid.org/0000-0002-4313-2316>),
Jennifer L. Braid [ctb] (<https://orcid.org/0000-0002-0677-7756>),
Jenny Brynjarsdottir [ctb] (<https://orcid.org/0000-0003-1859-4962>),
Roger H. French [aut, cph] (<https://orcid.org/0000-0002-6162-0532>),
Megan M. Morbitzer [ctb, cre] (<https://orcid.org/0000-0002-9847-2350>)
Maintainer: Megan M. Morbitzer <mmm308@case.edu>
Diff between ddiv versions 0.1.0 dated 2018-09-28 and 0.1.1 dated 2021-04-14
DESCRIPTION | 36 ++++--- MD5 | 73 +++++++------- R/IVExtractResult.R | 55 +++++++--- R/IV_timeseries.R |only R/IVfeature.R | 121 ++++++++++++++--------- R/IVsteps.R | 29 ++--- R/IVuncertain.R | 51 +++++---- build/vignette.rds |binary data/IV_timeseries.rda |only inst/doc/Daystar.R | 2 inst/doc/Daystar.Rmd | 2 inst/doc/Daystar.html | 172 +++++++++++++++++++++++---------- inst/doc/IV_4K.R | 2 inst/doc/IV_4K.html | 173 +++++++++++++++++++++++---------- inst/doc/IV_5M.R | 2 inst/doc/IV_5M.html | 187 +++++++++++++++++++++++++----------- inst/doc/IV_timeseries.R |only inst/doc/IV_timeseries.Rmd |only inst/doc/IV_timeseries.html |only inst/doc/IVcurve.R | 6 - inst/doc/IVcurve.Rmd | 4 inst/doc/IVcurve.html | 213 +++++++++++++++++++++++++++++------------ inst/doc/ddiv.R | 10 - inst/doc/ddiv.Rmd | 16 +-- inst/doc/ddiv.html | 226 +++++++++++++++++++++++++++++--------------- man/IVExtractResult.Rd | 46 +++++++- man/IV_4K.Rd | 6 - man/IV_5M_1.Rd | 6 - man/IV_5M_2.Rd | 6 - man/IV_daystar.Rd | 6 - man/IV_step1.Rd | 6 - man/IV_step2.Rd | 6 - man/IV_step3.Rd | 6 - man/IV_timeseries.Rd |only man/IVfeature.Rd | 29 +++++ man/IVsteps.Rd | 4 man/IVuncertain.Rd | 19 ++- vignettes/Daystar.Rmd | 2 vignettes/IV_timeseries.Rmd |only vignettes/IVcurve.Rmd | 4 vignettes/ddiv.Rmd | 16 +-- 41 files changed, 1041 insertions(+), 501 deletions(-)
Title: Analysing Convergent Evolution using the Wheatsheaf Index
Description: Analysing convergent evolution using the Wheatsheaf index, described in Arbuckle et al. (2014) <doi: 10.1111/2041-210X.12195>, and some other random but perhaps useful functions.
Author: Kevin Arbuckle and Amanda Minter
Maintainer: Kevin Arbuckle <kevin.arbuckle@swansea.ac.uk>
Diff between windex versions 2.0.1 dated 2021-01-13 and 2.0.2 dated 2021-04-14
windex-2.0.1/windex/R/sisterDivTime.R |only windex-2.0.1/windex/R/sisterRichness.R |only windex-2.0.1/windex/man/sisterDivTime.Rd |only windex-2.0.1/windex/man/sisterRichness.Rd |only windex-2.0.2/windex/DESCRIPTION | 12 ++++++------ windex-2.0.2/windex/MD5 | 18 ++++++++---------- windex-2.0.2/windex/R/richYuleInputs.R |only windex-2.0.2/windex/R/treecheck.R | 6 +++--- windex-2.0.2/windex/R/treedatacheck.R | 6 +++--- windex-2.0.2/windex/man/richYuleInputs.Rd |only windex-2.0.2/windex/man/test.windex.Rd | 4 ++-- windex-2.0.2/windex/man/windex.Rd | 2 +- windex-2.0.2/windex/man/windex.sim.test.Rd | 2 +- 13 files changed, 24 insertions(+), 26 deletions(-)
Title: Download Official Spatial Data Sets of Brazil
Description: Easy access to official spatial data sets of Brazil as 'sf' objects
in R. The package includes a wide range of geospatial data available
at various geographic scales and for various years with harmonized
attributes, projection and fixed topology.
Author: Rafael H. M. Pereira [aut, cre]
(<https://orcid.org/0000-0003-2125-7465>),
Caio Nogueira Goncalves [aut],
Paulo Henrique Fernandes de Araujo [ctb],
Guilherme Duarte Carvalho [ctb],
Rodrigo Almeida de Arruda [ctb],
Igor Nascimento [ctb],
Barbara Santiago Pedreira da Costa [ctb],
Welligtton Silva Cavedo [ctb],
Pedro R. Andrade [ctb],
Alan da Silva [ctb],
Carlos Kauê Vieira Braga [ctb],
Carl Schmertmann [ctb],
Alessandro Samuel-Rosa [ctb],
Daniel Ferreira [ctb],
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geobr versions 1.5-1 dated 2021-02-06 and 1.6 dated 2021-04-14
DESCRIPTION | 22 +- MD5 | 185 ++++++++++++------------ NAMESPACE | 6 R/cep_to_state.R | 9 - R/download_metadata.R | 40 +---- R/geobr.R | 5 R/grid_state_correspondence_table.R | 4 R/list_geobr.R | 10 - R/lookup_muni.R | 20 +- R/read_amazon.R | 34 ++-- R/read_biomes.R | 36 ++-- R/read_census_tract.R | 35 ++-- R/read_comparable_areas.R |only R/read_conservation_units.R | 33 ++-- R/read_country.R | 31 ++-- R/read_disaster_risk_area.R | 47 ++---- R/read_health_facilities.R | 46 ++--- R/read_health_region.R | 49 ++++-- R/read_immediate_region.R | 33 ++-- R/read_indigenous_land.R | 41 ++--- R/read_intermediate_region.R | 41 ++--- R/read_meso_region.R | 34 ++-- R/read_metro_area.R | 39 ++--- R/read_micro_region.R | 35 ++-- R/read_municipal_seat.R | 28 +-- R/read_municipality.R | 55 +++---- R/read_neighborhood.R | 29 +-- R/read_pop_arrangements.R |only R/read_region.R | 27 +-- R/read_schools.R | 25 +-- R/read_semiarid.R | 31 ++-- R/read_state.R | 30 +-- R/read_statistical_grid.R | 44 +++-- R/read_urban_area.R | 37 ++-- R/read_urban_concentrations.R |only R/read_weighting_area.R | 48 +++--- R/utils.R | 107 +++++++++++-- build/partial.rdb |only build/vignette.rds |binary data/grid_state_correspondence_table.RData |binary inst/doc/intro_to_geobr.Rmd | 6 inst/doc/intro_to_geobr.html | 49 +++--- man/cep_to_state.Rd | 8 - man/check_connection.Rd |only man/download_gpkg.Rd | 1 man/download_metadata.Rd | 9 - man/grid_state_correspondence_table.Rd | 9 - man/list_geobr.Rd | 10 - man/load_gpkg.Rd | 1 man/lookup_muni.Rd | 17 +- man/read_amazon.Rd | 34 ++-- man/read_biomes.Rd | 37 ++-- man/read_census_tract.Rd | 34 ++-- man/read_comparable_areas.Rd |only man/read_conservation_units.Rd | 34 ++-- man/read_country.Rd | 31 ++-- man/read_disaster_risk_area.Rd | 46 ++--- man/read_health_facilities.Rd | 45 ++--- man/read_health_region.Rd | 48 ++++-- man/read_immediate_region.Rd | 34 ++-- man/read_indigenous_land.Rd | 39 ++--- man/read_intermediate_region.Rd | 46 +++-- man/read_meso_region.Rd | 38 ++-- man/read_metro_area.Rd | 38 ++-- man/read_micro_region.Rd | 39 ++--- man/read_municipal_seat.Rd | 29 +-- man/read_municipality.Rd | 49 +++--- man/read_neighborhood.Rd | 29 +-- man/read_pop_arrangements.Rd |only man/read_region.Rd | 27 +-- man/read_schools.Rd | 24 +-- man/read_semiarid.Rd | 32 ++-- man/read_state.Rd | 30 ++- man/read_statistical_grid.Rd | 32 ++-- man/read_urban_area.Rd | 36 ++-- man/read_urban_concentrations.Rd |only man/read_weighting_area.Rd | 47 +++--- man/select_data_type.Rd | 1 man/select_metadata.Rd | 1 man/select_year_input.Rd | 1 tests/testthat/test-download_metadata.R | 3 tests/testthat/test-read_census_tract.R | 17 +- tests/testthat/test-read_comparable_areas.R |only tests/testthat/test-read_conservation_units.R | 7 tests/testthat/test-read_health_region.R | 4 tests/testthat/test-read_immediate_region.R | 6 tests/testthat/test-read_intermediate_region.R | 6 tests/testthat/test-read_meso_region.R | 8 - tests/testthat/test-read_micro_region.R | 11 - tests/testthat/test-read_municipal_seat.R | 5 tests/testthat/test-read_municipality.R | 54 ++++--- tests/testthat/test-read_pop_arrangements.R |only tests/testthat/test-read_schools.R | 2 tests/testthat/test-read_state.R | 20 +- tests/testthat/test-read_statistical_grid.R | 5 tests/testthat/test-read_urban_concentrations.R |only tests/testthat/test-read_weighting_area.R | 9 - vignettes/intro_to_geobr.Rmd | 6 vignettes/pandoc32e043bebd3.html |only vignettes/pandoc3d64491379ea.html |only 100 files changed, 1307 insertions(+), 1143 deletions(-)
Title: 'SAS' Linear Model
Description: This is a core implementation of 'SAS' procedures for linear models - GLM, REG, and ANOVA. Some R packages provide type II and type III SS. However, the results of nested and complex designs are often different from those of 'SAS.' Different results does not necessarily mean incorrectness. However, many wants the same results to SAS. This package aims to achieve that.
Reference: Littell RC, Stroup WW, Freund RJ (2002, ISBN:0-471-22174-0).
Author: Kyun-Seop Bae [aut]
Maintainer: Kyun-Seop Bae <k@acr.kr>
Diff between sasLM versions 0.5.1 dated 2021-03-16 and 0.5.2 dated 2021-04-14
sasLM-0.5.1/sasLM/inst/doc/Report-Different-Simplest2102221748.pdf |only sasLM-0.5.1/sasLM/inst/doc/Validation-Report-ANOVA-2102221740.pdf |only sasLM-0.5.1/sasLM/inst/doc/Validation-Report-GLM-2102221751.pdf |only sasLM-0.5.2/sasLM/DESCRIPTION | 6 - sasLM-0.5.2/sasLM/MD5 | 37 +++++----- sasLM-0.5.2/sasLM/R/BasicUtil.R | 19 +++-- sasLM-0.5.2/sasLM/R/CV.R |only sasLM-0.5.2/sasLM/R/LSM.R | 4 - sasLM-0.5.2/sasLM/R/PDIFF.R | 21 ++++- sasLM-0.5.2/sasLM/R/cSS.R | 7 + sasLM-0.5.2/sasLM/R/estmb.R | 2 sasLM-0.5.2/sasLM/R/lr.R | 12 +-- sasLM-0.5.2/sasLM/inst/NEWS.Rd | 10 ++ sasLM-0.5.2/sasLM/inst/doc/Report-Different-Simplest2104150030.pdf |only sasLM-0.5.2/sasLM/inst/doc/Report-NOT-OKs2104150027.pdf |only sasLM-0.5.2/sasLM/inst/doc/Validation-Report-ANOVA-2104150022.pdf |only sasLM-0.5.2/sasLM/inst/doc/Validation-Report-GLM-2104150017.pdf |only sasLM-0.5.2/sasLM/inst/doc/sasLM-manual.pdf |binary sasLM-0.5.2/sasLM/man/CV.Rd |only sasLM-0.5.2/sasLM/man/LSM.Rd | 3 sasLM-0.5.2/sasLM/man/cSS.Rd | 5 - sasLM-0.5.2/sasLM/man/estmb.Rd | 2 sasLM-0.5.2/sasLM/man/lr.Rd | 2 sasLM-0.5.2/sasLM/man/lr0.Rd | 4 - 24 files changed, 87 insertions(+), 47 deletions(-)
Title: Format R Code Automatically
Description: Provides a function tidy_source() to format R source code. Spaces
and indent will be added to the code automatically, and comments will be
preserved under certain conditions, so that R code will be more
human-readable and tidy. There is also a Shiny app as a user interface in
this package (see tidy_app()).
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Ed Lee [ctb],
Eugene Ha [ctb],
Kohske Takahashi [ctb],
Pavel Krivitsky [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between formatR versions 1.8 dated 2021-03-12 and 1.9 dated 2021-04-14
formatR-1.8/formatR/NEWS |only formatR-1.8/formatR/README.md |only formatR-1.9/formatR/DESCRIPTION | 13 - formatR-1.9/formatR/MD5 | 47 +-- formatR-1.9/formatR/NAMESPACE | 1 formatR-1.9/formatR/R/eval.R | 30 +- formatR-1.9/formatR/R/shiny.R | 6 formatR-1.9/formatR/R/tidy.R | 203 +++++++++++----- formatR-1.9/formatR/R/usage.R | 36 +- formatR-1.9/formatR/R/utils.R | 52 +--- formatR-1.9/formatR/build/vignette.rds |binary formatR-1.9/formatR/inst/NEWS.Rd |only formatR-1.9/formatR/inst/doc/formatR.R | 8 formatR-1.9/formatR/inst/doc/formatR.Rmd | 205 +++++++++++----- formatR-1.9/formatR/inst/doc/formatR.html | 143 ++++++----- formatR-1.9/formatR/inst/shiny/server.R | 2 formatR-1.9/formatR/inst/shiny/ui.R | 15 - formatR-1.9/formatR/man/tidy_app.Rd | 6 formatR-1.9/formatR/man/tidy_dir.Rd | 22 - formatR-1.9/formatR/man/tidy_eval.Rd | 28 +- formatR-1.9/formatR/man/tidy_source.Rd | 70 +++-- formatR-1.9/formatR/man/usage.Rd | 32 +- formatR-1.9/formatR/tests/testit/test-tidy.R | 190 +++++++-------- formatR-1.9/formatR/tests/testit/test-usage.R | 316 +++++++++++--------------- formatR-1.9/formatR/tests/testit/test-utils.R | 33 +- formatR-1.9/formatR/vignettes/formatR.Rmd | 205 +++++++++++----- 26 files changed, 936 insertions(+), 727 deletions(-)
Title: A Wrapper of the JavaScript Library 'DataTables'
Description: Data objects in R can be rendered as HTML tables using the
JavaScript library 'DataTables' (typically via R Markdown or Shiny). The
'DataTables' library has been included in this R package. The package name
'DT' is an abbreviation of 'DataTables'.
Author: Yihui Xie [aut, cre],
Joe Cheng [aut],
Xianying Tan [aut],
JJ Allaire [ctb],
Maximilian Girlich [ctb],
Greg Freedman Ellis [ctb],
Johannes Rauh [ctb],
jQuery contributors [ctb, cph] (jQuery in htmlwidgets/lib),
SpryMedia Limited [ctb, cph] (DataTables in htmlwidgets/lib),
Brian Reavis [ctb, cph] (selectize.js in htmlwidgets/lib),
Leon Gersen [ctb, cph] (noUiSlider in htmlwidgets/lib),
Bartek Szopka [ctb, cph] (jquery.highlight.js in htmlwidgets/lib),
RStudio, PBC [cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between DT versions 0.17 dated 2021-01-06 and 0.18 dated 2021-04-14
DT-0.17/DT/README.md |only DT-0.18/DT/DESCRIPTION | 8 +-- DT-0.18/DT/MD5 | 21 ++++----- DT-0.18/DT/NAMESPACE | 1 DT-0.18/DT/R/datatables.R | 69 +++++++++++++++++++++++------- DT-0.18/DT/R/format.R | 29 ++++++++++++ DT-0.18/DT/build/vignette.rds |binary DT-0.18/DT/inst/doc/DT.html | 21 ++++++--- DT-0.18/DT/inst/htmlwidgets/datatables.js | 10 ---- DT-0.18/DT/man/datatable.Rd | 22 ++++++--- DT-0.18/DT/man/styleInterval.Rd | 9 +++ DT-0.18/DT/tests/testit/test-format.R | 25 ++++++++++ 12 files changed, 157 insertions(+), 58 deletions(-)
Title: Create Blogs and Websites with R Markdown
Description: Write blog posts and web pages in R Markdown. This package supports
the static site generator 'Hugo' (<https://gohugo.io>) best, and it also
supports 'Jekyll' (<https://jekyllrb.com>) and 'Hexo' (<https://hexo.io>).
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Christophe Dervieux [aut] (<https://orcid.org/0000-0003-4474-2498>),
Alison Presmanes Hill [aut] (<https://orcid.org/0000-0002-8082-1890>),
Amber Thomas [ctb],
Beilei Bian [ctb],
Brandon Greenwell [ctb],
Brian Barkley [ctb],
Deependra Dhakal [ctb],
Eric Nantz [ctb],
Forest Fang [ctb],
Garrick Aden-Buie [ctb],
Hiroaki Yutani [ctb],
Ian Lyttle [ctb],
Jake Barlow [ctb],
James Balamuta [ctb],
JJ Allaire [ctb],
Jon Calder [ctb],
Jozef Hajnala [ctb],
Juan Manuel Vazquez [ctb],
Kevin Ushey [ctb],
Leonardo Collado-Torres [ctb],
Maëlle Salmon [ctb],
Maria Paula Caldas [ctb],
Nicolas Roelandt [ctb],
Oliver Madsen [ctb],
Raniere Silva [ctb],
TC Zhang [ctb],
Xianying Tan [ctb],
RStudio, PBC [cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between blogdown versions 1.2 dated 2021-03-04 and 1.3 dated 2021-04-14
blogdown-1.2/blogdown/README.md |only blogdown-1.3/blogdown/DESCRIPTION | 9 +- blogdown-1.3/blogdown/MD5 | 27 +++---- blogdown-1.3/blogdown/R/check.R | 36 +++++++--- blogdown-1.3/blogdown/R/clean.R | 13 +-- blogdown-1.3/blogdown/R/hugo.R | 9 +- blogdown-1.3/blogdown/R/install.R | 17 +--- blogdown-1.3/blogdown/R/render.R | 11 --- blogdown-1.3/blogdown/R/serve.R | 7 + blogdown-1.3/blogdown/R/utils.R | 14 +-- blogdown-1.3/blogdown/inst/rstudio/templates/project/skeleton.dcf | 33 +++++---- blogdown-1.3/blogdown/inst/scripts/update_meta.R | 3 blogdown-1.3/blogdown/man/build_site.Rd | 5 - blogdown-1.3/blogdown/man/hugo_cmd.Rd | 8 +- blogdown-1.3/blogdown/man/install_hugo.Rd | 18 +---- 15 files changed, 108 insertions(+), 102 deletions(-)
Title: A Simple Package for Testing R Packages
Description: Provides two convenience functions assert() and test_pkg() to
facilitate testing R packages.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Steven Mortimer [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between testit versions 0.12 dated 2020-09-25 and 0.13 dated 2021-04-14
testit-0.12/testit/NEWS |only testit-0.12/testit/README.md |only testit-0.13/testit/DESCRIPTION | 8 ++++---- testit-0.13/testit/MD5 | 7 +++---- testit-0.13/testit/R/testit.R | 9 ++++++++- testit-0.13/testit/inst/NEWS.Rd |only 6 files changed, 15 insertions(+), 9 deletions(-)
Title: A Simple HTTP Server to Serve Static Files or Dynamic Documents
Description: Start an HTTP server in R to serve static files, or dynamic
documents that can be converted to HTML files (e.g., R Markdown) under a
given directory.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Carson Sievert [ctb],
Jesse Anderson [ctb],
Ramnath Vaidyanathan [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between servr versions 0.21 dated 2020-12-14 and 0.22 dated 2021-04-14
servr-0.21/servr/NEWS |only servr-0.21/servr/README.md |only servr-0.22/servr/DESCRIPTION | 8 ++++---- servr-0.22/servr/MD5 | 9 ++++----- servr-0.22/servr/R/utils.R | 10 ++++++++-- servr-0.22/servr/inst/NEWS.Rd |only servr-0.22/servr/man/random_port.Rd | 2 +- 7 files changed, 17 insertions(+), 12 deletions(-)
Title: Subroutines to Estimate Rolling Window Multiple Correlation
Description: Rolling Window Multiple Correlation ('RolWinMulCor') estimates the rolling (running) window correlation for the bi- and multi-variate cases between regular (sampled on identical time points) time series, with especial emphasis to ecological data although this can be applied to other kinds of data sets. 'RolWinMulCor' is based on the concept of rolling, running or sliding window and is useful to evaluate the evolution of correlation through time and time-scales. 'RolWinMulCor' contains six functions. The first two focus on the bi-variate case: (1) rolwincor_1win() and (2) rolwincor_heatmap(), which estimate the correlation coefficients and the their respective p-values for only one window-length (time-scale) and considering all possible window-lengths or a band of window-lengths, respectively. The second two functions: (3) rolwinmulcor_1win() and (4) rolwinmulcor_heatmap() are designed to analyze the multi-variate case, following the bi-variate case to visually display the results, but these two approaches are methodologically different. That is, the multi-variate case estimates the adjusted coefficients of determination instead of the correlation coefficients. The last two functions: (5) plot_1win() and (6) plot_heatmap() are used to represent graphically the outputs of the four aforementioned functions as simple plots or as heat maps. The functions contained in 'RolWinMulCor' are highly flexible since these contains several parameters to control the estimation of correlation and the features of the plot output, e.g. to remove the (linear) trend contained in the time series under analysis, to choose different p-value correction methods (which are used to address the multiple comparison problem) or to personalise the plot outputs. The 'RolWinMulCor' package also provides examples with synthetic and real-life ecological time series to exemplify its use. Methods derived from H. Abdi. (2007) <https://personal.utdallas.edu/~herve/Abdi-MCC2007-pretty.pdf>, R. Telford (2013) <https://quantpalaeo.wordpress.com/2013/01/04/, J. M. Polanco-Martinez (2019) <doi:10.1007/s11071-019-04974-y>, and J. M. Polanco-Martinez (2020) <doi:10.1016/j.ecoinf.2020.101163>.
Author: Josue M. Polanco-Martinez [aut, cph, cre]
(<https://orcid.org/0000-0001-7164-0185>)
Maintainer: Josue M. Polanco-Martinez <josue.m.polanco@gmail.com>
Diff between RolWinMulCor versions 1.0.0 dated 2020-08-31 and 1.2.0 dated 2021-04-14
DESCRIPTION | 14 +++++------ MD5 | 33 +++++++++++++------------ R/plot_1win.R | 11 ++++---- R/plot_heatmap.R | 31 ++++++++++++++++-------- R/rolwincor_1win.R | 35 ++++++++++++++------------- R/rolwincor_heatmap.R | 27 +++++++++++---------- R/rolwinmulcor_1win.R | 33 +++++++++++++------------ R/rolwinmulcor_heatmap.R | 29 +++++++++++----------- build |only man/RolWinMulCor-package.Rd | 49 ++++++++++++++++++-------------------- man/YX_ecological_data.Rd | 9 +++---- man/plot_1win.Rd | 54 +++++++++++++++++++++++------------------- man/plot_heatmap.Rd | 56 ++++++++++++++++++++++++-------------------- man/rolwincor_1win.Rd | 30 +++++++++++------------ man/rolwincor_heatmap.Rd | 34 ++++++++++++++------------ man/rolwinmulcor_1win.Rd | 33 +++++++++++++------------ man/rolwinmulcor_heatmap.Rd | 32 +++++++++++-------------- man/syntDATA.Rd | 5 +++ 18 files changed, 274 insertions(+), 241 deletions(-)
Title: Penalized Elastic Net S/MM-Estimator of Regression
Description: Robust penalized (adaptive) elastic net S and M estimators for
linear regression. The methods are proposed in
Cohen Freue, G. V., Kepplinger, D., Salibián-Barrera, M., and Smucler, E.
(2019) <https://projecteuclid.org/euclid.aoas/1574910036>.
The package implements the extensions and algorithms described in
Kepplinger, D. (2020) <doi:10.14288/1.0392915>.
Author: David Kepplinger [aut, cre],
Matías Salibián-Barrera [aut],
Gabriela Cohen Freue [aut]
Maintainer: David Kepplinger <david.kepplinger@gmail.com>
Diff between pense versions 2.0.2 dated 2020-10-05 and 2.0.3 dated 2021-04-14
pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-4_896474b2edc055e450aa737ca1bfade2.RData |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-4_896474b2edc055e450aa737ca1bfade2.rdb |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-4_896474b2edc055e450aa737ca1bfade2.rdx |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-5_81e277e698da0d737648b72938aaabca.RData |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-5_81e277e698da0d737648b72938aaabca.rdb |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-5_81e277e698da0d737648b72938aaabca.rdx |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-6_9c4296deafc7dc466befba643ae5cf23.RData |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-6_9c4296deafc7dc466befba643ae5cf23.rdb |only pense-2.0.2/pense/vignettes/migration_guide_cache/html/unnamed-chunk-6_9c4296deafc7dc466befba643ae5cf23.rdx |only pense-2.0.3/pense/DESCRIPTION | 10 pense-2.0.3/pense/MD5 | 66 pense-2.0.3/pense/NEWS.md | 5 pense-2.0.3/pense/R/coef-methods.R | 76 pense-2.0.3/pense/R/control_options.R | 6 pense-2.0.3/pense/R/elnet.R | 6 pense-2.0.3/pense/R/pense_regression.R | 17 pense-2.0.3/pense/R/print-methods.R | 9 pense-2.0.3/pense/R/regmest_regression.R | 5 pense-2.0.3/pense/R/utilities-internal.R | 29 pense-2.0.3/pense/build/partial.rdb |binary pense-2.0.3/pense/build/pense.pdf |binary pense-2.0.3/pense/build/vignette.rds |binary pense-2.0.3/pense/configure | 877 ---------- pense-2.0.3/pense/configure.ac | 4 pense-2.0.3/pense/inst/doc/computing_adapense.html | 508 +---- pense-2.0.3/pense/inst/doc/lambda_grids.html | 326 --- pense-2.0.3/pense/inst/doc/migration_guide.html | 416 +--- pense-2.0.3/pense/man/coef.pense_cvfit.Rd | 3 pense-2.0.3/pense/man/coef.pense_fit.Rd | 3 pense-2.0.3/pense/src/nsoptim/optimizer/auglars.hpp | 75 pense-2.0.3/pense/src/nsoptim/optimizer/linear_algebra_utilities.hpp | 43 pense-2.0.3/pense/src/regularization_path.hpp | 2 pense-2.0.3/pense/vignettes/computing_adapense_files/figure-html/unnamed-chunk-6-1.png |binary pense-2.0.3/pense/vignettes/computing_adapense_files/figure-html/unnamed-chunk-9-1.png |binary pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-4_157feaabf1df04e255ebc73ea452985c.RData |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-4_157feaabf1df04e255ebc73ea452985c.rdb |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-4_157feaabf1df04e255ebc73ea452985c.rdx |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-5_0ca31a39d247ac109db72b262777fa3d.RData |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-5_0ca31a39d247ac109db72b262777fa3d.rdb |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-5_0ca31a39d247ac109db72b262777fa3d.rdx |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-6_d370271aeb4e78cb6f40f286cf70f150.RData |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-6_d370271aeb4e78cb6f40f286cf70f150.rdb |only pense-2.0.3/pense/vignettes/migration_guide_cache/html/unnamed-chunk-6_d370271aeb4e78cb6f40f286cf70f150.rdx |only 43 files changed, 571 insertions(+), 1915 deletions(-)
Title: Paginate the HTML Output of R Markdown with CSS for Print
Description: Use the paged media properties in CSS and the JavaScript
library 'paged.js' to split the content of an HTML document into discrete
pages. Each page can have its page size, page numbers, margin boxes, and
running headers, etc. Applications of this package include books, letters,
reports, papers, business cards, resumes, and posters.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Romain Lesur [aut, cph] (<https://orcid.org/0000-0002-0721-5595>),
Brent Thorne [aut] (<https://orcid.org/0000-0002-1099-3857>),
Xianying Tan [aut] (<https://orcid.org/0000-0002-6072-3521>),
Christophe Dervieux [ctb] (<https://orcid.org/0000-0003-4474-2498>),
Atsushi Yasumoto [ctb] (<https://orcid.org/0000-0002-8335-495X>),
RStudio, PBC [cph],
Adam Hyde [ctb] (paged.js in resources/js/),
Min-Zhong Lu [ctb] (resume.css in resources/css/),
Zulko [ctb] (poster-relaxed.css in resources/css/)
Maintainer: Yihui Xie <xie@yihui.name>
Diff between pagedown versions 0.13 dated 2020-11-30 and 0.14 dated 2021-04-14
DESCRIPTION | 7 MD5 | 34 NEWS.md | 36 R/chrome.R | 63 R/paged.R | 11 R/resume.R | 7 README.md | 6 inst/resources/css/crc.css | 2 inst/resources/css/default-page.css | 6 inst/resources/css/default.css | 1 inst/resources/css/thesis.css | 6 inst/resources/js/config.js | 12 inst/resources/js/hooks.js | 48 inst/resources/js/paged.js |14253 ++++++++++++++++++++++-------------- inst/resources/lua/loft.lua | 8 man/html_resume.Rd | 6 tests/test-travis.R | 4 tests/test-travis/test-chrome.R | 7 18 files changed, 9092 insertions(+), 5425 deletions(-)
Title: A General-Purpose Package for Dynamic Report Generation in R
Description: Provides a general-purpose tool for dynamic report generation in R
using Literate Programming techniques.
Author: Yihui Xie [aut, cre] (<https://orcid.org/0000-0003-0645-5666>),
Abhraneel Sarma [ctb],
Adam Vogt [ctb],
Alastair Andrew [ctb],
Alex Zvoleff [ctb],
Andre Simon [ctb] (the CSS files under inst/themes/ were derived from
the Highlight package http://www.andre-simon.de),
Aron Atkins [ctb],
Aaron Wolen [ctb],
Ashley Manton [ctb],
Atsushi Yasumoto [ctb] (<https://orcid.org/0000-0002-8335-495X>),
Ben Baumer [ctb],
Brian Diggs [ctb],
Brian Zhang [ctb],
Cassio Pereira [ctb],
Christophe Dervieux [ctb],
David Hall [ctb],
David Hugh-Jones [ctb],
David Robinson [ctb],
Doug Hemken [ctb],
Duncan Murdoch [ctb],
Elio Campitelli [ctb],
Ellis Hughes [ctb],
Emily Riederer [ctb],
Fabian Hirschmann [ctb],
Fitch Simeon [ctb],
Forest Fang [ctb],
Frank E Harrell Jr [ctb] (the Sweavel package at inst/misc/Sweavel.sty),
Garrick Aden-Buie [ctb],
Gregoire Detrez [ctb],
Hadley Wickham [ctb],
Hao Zhu [ctb],
Heewon Jeon [ctb],
Henrik Bengtsson [ctb],
Hiroaki Yutani [ctb],
Ian Lyttle [ctb],
Hodges Daniel [ctb],
Jake Burkhead [ctb],
James Manton [ctb],
Jared Lander [ctb],
Jason Punyon [ctb],
Javier Luraschi [ctb],
Jeff Arnold [ctb],
Jenny Bryan [ctb],
Jeremy Ashkenas [ctb, cph] (the CSS file at
inst/misc/docco-classic.css),
Jeremy Stephens [ctb],
Jim Hester [ctb],
Joe Cheng [ctb],
Johannes Ranke [ctb],
John Honaker [ctb],
John Muschelli [ctb],
Jonathan Keane [ctb],
JJ Allaire [ctb],
Johan Toloe [ctb],
Jonathan Sidi [ctb],
Joseph Larmarange [ctb],
Julien Barnier [ctb],
Kaiyin Zhong [ctb],
Kamil Slowikowski [ctb],
Karl Forner [ctb],
Kevin K. Smith [ctb],
Kirill Mueller [ctb],
Kohske Takahashi [ctb],
Lorenz Walthert [ctb],
Lucas Gallindo [ctb],
Marius Hofert [ctb],
Martin Modrák [ctb],
Michael Chirico [ctb],
Michael Friendly [ctb],
Michal Bojanowski [ctb],
Michel Kuhlmann [ctb],
Miller Patrick [ctb],
Nacho Caballero [ctb],
Nick Salkowski [ctb],
Niels Richard Hansen [ctb],
Noam Ross [ctb],
Obada Mahdi [ctb],
Pavel N. Krivitsky [ctb] (<https://orcid.org/0000-0002-9101-3362>),
Qiang Li [ctb],
Ramnath Vaidyanathan [ctb],
Richard Cotton [ctb],
Robert Krzyzanowski [ctb],
Romain Francois [ctb],
Ruaridh Williamson [ctb],
Scott Kostyshak [ctb],
Sebastian Meyer [ctb],
Sietse Brouwer [ctb],
Simon de Bernard [ctb],
Sylvain Rousseau [ctb],
Taiyun Wei [ctb],
Thibaut Assus [ctb],
Thibaut Lamadon [ctb],
Thomas Leeper [ctb],
Tim Mastny [ctb],
Tom Torsney-Weir [ctb],
Trevor Davis [ctb],
Viktoras Veitas [ctb],
Weicheng Zhu [ctb],
Wush Wu [ctb],
Zachary Foster [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between knitr versions 1.31 dated 2021-01-27 and 1.32 dated 2021-04-14
knitr-1.31/knitr/README.md |only knitr-1.32/knitr/DESCRIPTION | 14 - knitr-1.32/knitr/MD5 | 57 +++--- knitr-1.32/knitr/R/block.R | 145 +++++++++++----- knitr-1.32/knitr/R/cache.R | 21 +- knitr-1.32/knitr/R/defaults.R | 2 knitr-1.32/knitr/R/engine.R | 35 ++- knitr-1.32/knitr/R/header.R | 6 knitr-1.32/knitr/R/hooks-latex.R | 8 knitr-1.32/knitr/R/hooks-md.R | 10 - knitr-1.32/knitr/R/plot.R | 33 ++- knitr-1.32/knitr/R/table.R | 21 +- knitr-1.32/knitr/R/utils-conversion.R | 22 -- knitr-1.32/knitr/R/utils-vignettes.R | 32 +-- knitr-1.32/knitr/R/utils.R | 54 +++++ knitr-1.32/knitr/build/vignette.rds |binary knitr-1.32/knitr/inst/doc/knit_expand.html | 4 knitr-1.32/knitr/inst/doc/knit_print.html | 18 - knitr-1.32/knitr/inst/doc/knitr-intro.html | 10 - knitr-1.32/knitr/inst/doc/knitr-markdown.html | 2 knitr-1.32/knitr/inst/doc/knitr-refcard.pdf |binary knitr-1.32/knitr/inst/misc/tikz2pdf.tex | 8 knitr-1.32/knitr/man/knit_filter.Rd | 2 knitr-1.32/knitr/man/load_cache.Rd | 14 + knitr-1.32/knitr/man/opts_template.Rd | 2 knitr-1.32/knitr/man/vignette_engines.Rd | 21 -- knitr-1.32/knitr/tests/testit/test-hooks-md.R | 18 + knitr-1.32/knitr/tests/testit/test-plot.R | 144 +++++++++------ knitr-1.32/knitr/tests/testit/test-table.R | 235 +++++++++++--------------- knitr-1.32/knitr/tests/testit/test-utils.R | 2 30 files changed, 554 insertions(+), 386 deletions(-)
Title: Algorithmic Fairness Metrics
Description: Offers calculation, visualization and comparison of algorithmic fairness metrics. Fair machine learning is an emerging topic with the overarching aim to critically assess whether ML algorithms reinforce existing social biases. Unfair algorithms can propagate such biases and produce predictions with a disparate impact on various sensitive groups of individuals (defined by sex, gender, ethnicity, religion, income, socioeconomic status, physical or mental disabilities). Fair algorithms possess the underlying foundation that these groups should be treated similarly or have similar prediction outcomes. The fairness R package offers the calculation and comparisons of commonly and less commonly used fairness metrics in population subgroups. These methods are described by Calders and Verwer (2010) <doi:10.1007/s10618-010-0190-x>, Chouldechova (2017) <doi:10.1089/big.2016.0047>, Feldman et al. (2015) <doi:10.1145/2783258.2783311> , Friedler et al. (2018) <doi:10.1145/3287560.3287589> and Zafar et al. (2017) <doi:10.1145/3038912.3052660>. The package also offers convenient visualizations to help understand fairness metrics.
Author: Nikita Kozodoi [aut, cre],
Tibor V. Varga [aut] (<https://orcid.org/0000-0002-2383-699X>)
Maintainer: Nikita Kozodoi <n.kozodoi@icloud.com>
Diff between fairness versions 1.2.1 dated 2021-03-31 and 1.2.2 dated 2021-04-14
DESCRIPTION | 6 +++--- MD5 | 36 ++++++++++++++++++------------------ NEWS.md | 4 ++++ R/acc_parity.R | 46 ++++++++++++++++++++++++++++++---------------- R/dem_parity.R | 18 ++++++++++++++++-- R/equal_odds.R | 18 ++++++++++++++++-- R/fairness-package.R | 4 ++-- R/fnr_parity.R | 18 ++++++++++++++++-- R/fpr_parity.R | 18 ++++++++++++++++-- R/mcc_parity.R | 18 ++++++++++++++++-- R/npv_parity.R | 18 ++++++++++++++++-- R/pred_rate_parity.R | 18 ++++++++++++++++-- R/prop_parity.R | 18 ++++++++++++++++-- R/spec_parity.R | 18 ++++++++++++++++-- build/vignette.rds |binary inst/doc/fairness.html | 23 +++-------------------- man/fairness.Rd | 4 ++-- man/figures/Plot_bar.png |binary man/figures/Plot_prob.png |binary 19 files changed, 206 insertions(+), 79 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis, especially raster data. Methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more and it simpler to use and it is faster.
Author: Robert J. Hijmans [cre, aut] (<https://orcid.org/0000-0001-5872-2872>),
Roger Bivand [ctb] (<https://orcid.org/0000-0003-2392-6140>),
Karl Forner [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Edzer Pebesma [ctb] (<https://orcid.org/0000-0001-8049-7069>)
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.1-4 dated 2021-03-09 and 1.1-17 dated 2021-04-14
terra-1.1-17/terra/DESCRIPTION | 14 terra-1.1-17/terra/MD5 | 306 +++++---- terra-1.1-17/terra/NAMESPACE | 5 terra-1.1-17/terra/R/Adepracated.R | 12 terra-1.1-17/terra/R/Agenerics.R | 29 terra-1.1-17/terra/R/Arith_generics.R | 53 + terra-1.1-17/terra/R/SpatVectorCollection.R | 5 terra-1.1-17/terra/R/aggregate.R | 8 terra-1.1-17/terra/R/app.R | 76 +- terra-1.1-17/terra/R/arith.R | 10 terra-1.1-17/terra/R/autocor.R | 10 terra-1.1-17/terra/R/cells.R | 15 terra-1.1-17/terra/R/click.R | 99 +-- terra-1.1-17/terra/R/coerce.R | 97 ++- terra-1.1-17/terra/R/colors.R | 5 terra-1.1-17/terra/R/crosstab.R | 2 terra-1.1-17/terra/R/crs.R | 2 terra-1.1-17/terra/R/distance.R | 27 terra-1.1-17/terra/R/draw.R | 72 +- terra-1.1-17/terra/R/extract.R | 164 +++-- terra-1.1-17/terra/R/focal.R | 67 +- terra-1.1-17/terra/R/gdal.R | 5 terra-1.1-17/terra/R/generics.R | 109 ++- terra-1.1-17/terra/R/geom.R | 4 terra-1.1-17/terra/R/init.R | 20 terra-1.1-17/terra/R/interpolate.R | 2 terra-1.1-17/terra/R/lapp.R | 4 terra-1.1-17/terra/R/levels.R | 171 +++-- terra-1.1-17/terra/R/match.R | 17 terra-1.1-17/terra/R/messages.R | 2 terra-1.1-17/terra/R/options.R | 10 terra-1.1-17/terra/R/plot.R | 37 - terra-1.1-17/terra/R/plotExtent.R | 2 terra-1.1-17/terra/R/plotRGB.R | 30 terra-1.1-17/terra/R/plot_cartogram.R | 2 terra-1.1-17/terra/R/plot_legend.R | 3 terra-1.1-17/terra/R/plot_raster.R | 110 ++- terra-1.1-17/terra/R/plot_vector.R | 10 terra-1.1-17/terra/R/predict.R | 33 - terra-1.1-17/terra/R/rapp.R | 80 +- terra-1.1-17/terra/R/rast.R | 62 + terra-1.1-17/terra/R/rasterize.R | 220 ++++-- terra-1.1-17/terra/R/relate.R | 125 ++- terra-1.1-17/terra/R/replace.R | 10 terra-1.1-17/terra/R/show.R | 63 + terra-1.1-17/terra/R/spatDF.R | 6 terra-1.1-17/terra/R/spatvec.R | 21 terra-1.1-17/terra/R/tiles.R |only terra-1.1-17/terra/R/values.R | 86 ++ terra-1.1-17/terra/R/vect.R | 14 terra-1.1-17/terra/R/write.R | 13 terra-1.1-17/terra/R/zonal.R | 47 - terra-1.1-17/terra/R/zzz.R | 10 terra-1.1-17/terra/inst/tinytest/test_global.R |only terra-1.1-17/terra/inst/tinytest/test_matrix-input.R | 38 - terra-1.1-17/terra/man/RGB.Rd |only terra-1.1-17/terra/man/app.Rd | 6 terra-1.1-17/terra/man/area.Rd | 2 terra-1.1-17/terra/man/as.data.frame.Rd | 9 terra-1.1-17/terra/man/as.raster.Rd |only terra-1.1-17/terra/man/as.spatvector.Rd | 3 terra-1.1-17/terra/man/boundaries.Rd | 13 terra-1.1-17/terra/man/boxplot.Rd | 11 terra-1.1-17/terra/man/c.Rd | 4 terra-1.1-17/terra/man/cells.Rd | 27 terra-1.1-17/terra/man/classify.Rd | 2 terra-1.1-17/terra/man/click.Rd | 6 terra-1.1-17/terra/man/colors.Rd | 4 terra-1.1-17/terra/man/distance.Rd | 12 terra-1.1-17/terra/man/dots.Rd | 6 terra-1.1-17/terra/man/draw.Rd | 10 terra-1.1-17/terra/man/extract.Rd | 9 terra-1.1-17/terra/man/factors.Rd | 75 +- terra-1.1-17/terra/man/focal.Rd | 15 terra-1.1-17/terra/man/focalValues.Rd |only terra-1.1-17/terra/man/geometry.Rd | 7 terra-1.1-17/terra/man/init.Rd | 2 terra-1.1-17/terra/man/interpolate.Rd | 102 +-- terra-1.1-17/terra/man/intersect.Rd | 16 terra-1.1-17/terra/man/isvalid.Rd | 2 terra-1.1-17/terra/man/lapp.Rd | 23 terra-1.1-17/terra/man/mask.Rd | 2 terra-1.1-17/terra/man/math.Rd | 1 terra-1.1-17/terra/man/merge.Rd | 4 terra-1.1-17/terra/man/minmax.Rd | 2 terra-1.1-17/terra/man/near.Rd | 13 terra-1.1-17/terra/man/patches.Rd |only terra-1.1-17/terra/man/plot.Rd | 7 terra-1.1-17/terra/man/plotRGB.Rd | 7 terra-1.1-17/terra/man/predict.Rd | 4 terra-1.1-17/terra/man/rapp.Rd | 28 terra-1.1-17/terra/man/rast.Rd | 3 terra-1.1-17/terra/man/rasterize.Rd | 19 terra-1.1-17/terra/man/readwrite.Rd | 3 terra-1.1-17/terra/man/relate.Rd | 14 terra-1.1-17/terra/man/rep.Rd | 2 terra-1.1-17/terra/man/replace-vector.Rd | 5 terra-1.1-17/terra/man/replace.Rd | 2 terra-1.1-17/terra/man/setValues.Rd |only terra-1.1-17/terra/man/subst.Rd |only terra-1.1-17/terra/man/summarize-generics.Rd | 5 terra-1.1-17/terra/man/tapp.Rd | 6 terra-1.1-17/terra/man/terra-package.Rd | 88 +- terra-1.1-17/terra/man/tiles.Rd |only terra-1.1-17/terra/man/values.Rd | 44 - 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terra-1.1-17/terra/src/raster_methods.cpp | 604 ++++++++++++++----- terra-1.1-17/terra/src/raster_stats.cpp | 97 ++- terra-1.1-17/terra/src/rasterize.cpp | 596 ++++++++---------- terra-1.1-17/terra/src/rasterize_old.cpp |only terra-1.1-17/terra/src/read.cpp | 12 terra-1.1-17/terra/src/read_gdal.cpp | 260 ++++++-- terra-1.1-17/terra/src/read_ogr.cpp | 4 terra-1.1-17/terra/src/recycle.h | 1 terra-1.1-17/terra/src/spatBase.h | 14 terra-1.1-17/terra/src/spatDataframe.cpp | 32 - terra-1.1-17/terra/src/spatDataframe.h | 8 terra-1.1-17/terra/src/spatFactor.h |only terra-1.1-17/terra/src/spatOptions.cpp | 14 terra-1.1-17/terra/src/spatRaster.cpp | 216 +++++- terra-1.1-17/terra/src/spatRaster.h | 131 +++- terra-1.1-17/terra/src/spatSources.cpp | 38 - terra-1.1-17/terra/src/spatVector.cpp | 60 + terra-1.1-17/terra/src/spatVector.h | 8 terra-1.1-17/terra/src/string_utils.cpp | 16 terra-1.1-17/terra/src/string_utils.h | 5 terra-1.1-17/terra/src/time.cpp | 14 terra-1.1-17/terra/src/time.h | 8 terra-1.1-17/terra/src/vecmath.h | 29 terra-1.1-17/terra/src/vecmathfun.cpp | 11 terra-1.1-17/terra/src/vecmathfun.h | 1 terra-1.1-17/terra/src/vector_methods.cpp | 2 terra-1.1-17/terra/src/write.cpp | 47 - terra-1.1-17/terra/src/write_gdal.cpp | 148 ++-- terra-1.1-17/terra/src/write_ogr.cpp | 164 +++++ terra-1.1-4/terra/man/arith.Rd |only terra-1.1-4/terra/src/spatFactor.hpp |only 163 files changed, 6303 insertions(+), 2551 deletions(-)
Title: A Framework for Clustering Longitudinal Data
Description: A framework for clustering longitudinal datasets in a standardized way. Provides an interface to existing R packages for clustering longitudinal univariate trajectories, facilitating reproducible and transparent analyses. Additionally, standard tools are provided to support cluster analyses, including repeated estimation, model validation, and model assessment. The interface enables users to compare results between methods, and to implement and evaluate new methods with ease.
Author: Niek Den Teuling [aut, cre] (<https://orcid.org/0000-0003-1026-5080>),
Steffen Pauws [ctb],
Edwin van den Heuvel [ctb],
Copyright © 2021 Koninklijke Philips N.V. [cph]
Maintainer: Niek Den Teuling <niek.den.teuling@philips.com>
Diff between latrend versions 1.1.0 dated 2021-03-05 and 1.1.2 dated 2021-04-14
DESCRIPTION | 14 MD5 | 48 +- NAMESPACE | 1 R/assert.R | 10 R/latrend.R | 111 +++-- R/method.R | 2 R/methodAKMedoids.R | 20 - R/methodKML.R | 17 R/random.R | 14 R/zzz.R | 40 ++ build/partial.rdb |binary inst/doc/custom.html | 696 ++++++++++++------------------------- inst/doc/demo.html | 746 +++++++++++++--------------------------- inst/doc/validation.html | 581 +++++++++---------------------- man/interface-akmedoids.Rd | 2 man/latrend-package.Rd | 2 man/latrend-parallel.Rd |only man/latrendBatch.Rd | 6 man/latrendBoot.Rd | 6 man/latrendCV.Rd | 6 man/latrendRep.Rd | 9 man/lcMethodAkmedoids.Rd | 5 tests/testthat/setup-init.R | 7 tests/testthat/test-akmedoids.R | 10 tests/testthat/test-kml.R | 4 tests/testthat/test-parallel.R |only 26 files changed, 905 insertions(+), 1452 deletions(-)
Title: Create Panels of Independent States
Description: Create panel data consisting of independent states from 1816 to
the present. The package includes the Gleditsch & Ward (G&W) and Correlates
of War (COW) lists of independent states, as well as helper functions for
working with state panel data and standardizing other data sources to
create country-year/month/etc. data.
Author: Andreas Beger [cre, aut] (<https://orcid.org/0000-0003-1883-3169>)
Maintainer: Andreas Beger <adbeger@gmail.com>
Diff between states versions 0.3.0 dated 2020-12-11 and 0.3.1 dated 2021-04-14
DESCRIPTION | 7 +- MD5 | 17 ++--- NEWS.md | 11 +++ R/misc.R | 7 +- build/vignette.rds |binary data/gwstates.rda |binary inst/doc/differences-gw-cow.html | 65 ++++----------------- inst/doc/statelists.html | 113 ++++++++++++------------------------- tests/testthat/test-data.R |only tests/testthat/test-plot-missing.R | 8 -- 10 files changed, 84 insertions(+), 144 deletions(-)
Title: Manipulate SVG (Template) Files of Charts
Description: The purpose of this package is to manipulate SVG files that are templates of charts the user wants to produce.
In vector graphics one copes with x-/y-coordinates of elements (e.g. lines, rectangles, text). Their scale is often dependent on the program that is used to produce the graphics.
In applied statistics one usually has numeric values on a fixed scale (e.g. percentage values between 0 and 100) to show in a chart.
Basically, 'svgtools' transforms the statistical values into coordinates and widths/heights of the vector graphics.
This is done by stackedBar() for bar charts, by linesSymbols() for charts with lines and/or symbols (dot markers) and scatterSymbols() for scatterplots.
Author: Konrad Oberwimmer [aut, cre],
Christian Wimmer [aut],
Michael Bruneforth [ctb]
Maintainer: Konrad Oberwimmer <konrad.oberwimmer@iqs.gv.at>
Diff between svgtools versions 1.0.1 dated 2021-03-03 and 1.0.3 dated 2021-04-14
DESCRIPTION | 9 ++++----- MD5 | 5 +++-- NEWS |only R/svgtools.R | 26 ++++++++++++++++++++++++-- 4 files changed, 31 insertions(+), 9 deletions(-)
Title: Rank Aggregation with Partition Mallows Model
Description: Rank aggregation aims to achieve a better ranking list given multiple observations. 'PAMA' implements Partition-Mallows model for rank aggregation where the rankers' quality are different. Both Bayesian inference and Maximum likelihood estimation (MLE) are provided. It can handle partial list as well. When covariates information is available, this package can make inference by incorporating the covariate information. More information can be found in the paper "Integrated Partition-Mallows Model and Its Inference for Rank Aggregation". The paper is accepted by Journal of the American Statistical Association.
Author: Wanchuang Zhu [cre, aut]
Maintainer: Wanchuang Zhu <andy.chou.sub@gmail.com>
Diff between PAMA versions 0.1.1 dated 2020-04-09 and 1.0.0 dated 2021-04-14
DESCRIPTION | 23 ++++++++++++----------- MD5 | 28 +++++++++++++++------------- R/PAMA.B.R | 3 ++- R/PAMA.Cov.R | 3 ++- R/PAMA.F.R | 2 ++ R/PAMA.PL.R | 2 ++ R/gprimegammak.R | 27 +++++++++++++++------------ R/gprimephi.R | 33 ++++++++++++++++----------------- R/gprimeprimegammak.R | 21 +++++++++------------ R/gprimeprimephi.R | 22 ++++++++++++---------- README.md |only man/PAMA.B.Rd | 6 ++++++ man/PAMA.Cov.Rd | 6 ++++++ man/PAMA.F.Rd | 6 ++++++ man/PAMA.PL.Rd | 6 ++++++ src |only 16 files changed, 111 insertions(+), 77 deletions(-)
Title: Estimation and Prediction Methods for High-Dimensional Mixed
Frequency Time Series Data
Description: The 'midasml' package implements estimation and prediction methods for high-dimensional mixed-frequency (MIDAS) time-series and panel data regression models. The regularized MIDAS models are estimated using orthogonal (e.g. Legendre) polynomials and sparse-group LASSO (sg-LASSO) estimator. For more information on the `midasml' approach see Babii, Ghysels, and Striaukas (2021, JBES forthcoming) <doi:10.1080/07350015.2021.1899933>. The package is equipped with the fast implementation of the sg-LASSO estimator by means of proximal block coordinate descent. High-dimensional mixed frequency time-series data can also be easily manipulated with functions provided in the package.
Author: Jonas Striaukas [cre, aut],
Andrii Babii [aut],
Eric Ghysels [aut],
Alex Kostrov [ctb] (Contributions to analytical gradients for
non-linear low-dimensional MIDAS estimation code)
Maintainer: Jonas Striaukas <jonas.striaukas@gmail.com>
Diff between midasml versions 0.0.6 dated 2021-03-12 and 0.1.0 dated 2021-04-14
midasml-0.0.6/midasml/R/RcppExports.R |only midasml-0.0.6/midasml/R/fit_sgl.R |only midasml-0.0.6/midasml/R/help_functions.R |only midasml-0.0.6/midasml/R/loss_functions.R |only midasml-0.0.6/midasml/R/midas_functions.R |only midasml-0.0.6/midasml/R/midasml_functions.R |only midasml-0.0.6/midasml/R/polynomial_functions.R |only midasml-0.0.6/midasml/data/macro_midasml.RData |only midasml-0.0.6/midasml/data/market_ret.RData |only midasml-0.0.6/midasml/data/us_rgdp.RData |only midasml-0.0.6/midasml/man/als_loss.Rd |only midasml-0.0.6/midasml/man/apply_transform.Rd |only midasml-0.0.6/midasml/man/beta_w.Rd |only midasml-0.0.6/midasml/man/cpp_sgl_fit.Rd |only midasml-0.0.6/midasml/man/cpp_sgl_fitpath.Rd |only midasml-0.0.6/midasml/man/cvfolds.Rd |only midasml-0.0.6/midasml/man/expalmon_w.Rd |only midasml-0.0.6/midasml/man/fastals.Rd |only midasml-0.0.6/midasml/man/fastols.Rd |only midasml-0.0.6/midasml/man/fastrq.Rd |only midasml-0.0.6/midasml/man/get_start_midas.Rd |only midasml-0.0.6/midasml/man/getmin_cpp.Rd |only midasml-0.0.6/midasml/man/macro_midasml.Rd |only midasml-0.0.6/midasml/man/midas_ardl.Rd |only midasml-0.0.6/midasml/man/midas_dl.Rd |only midasml-0.0.6/midasml/man/midas_estimate.Rd |only midasml-0.0.6/midasml/man/midas_forecast.Rd |only midasml-0.0.6/midasml/man/midas_pr.Rd |only midasml-0.0.6/midasml/man/midasar_pr.Rd |only midasml-0.0.6/midasml/man/midasml_forecast.Rd |only midasml-0.0.6/midasml/man/mixed_freq_data_mhorizon.Rd |only midasml-0.0.6/midasml/man/mse_loss.Rd |only midasml-0.0.6/midasml/man/panel_sgl.Rd |only midasml-0.0.6/midasml/man/path_calc.Rd |only midasml-0.0.6/midasml/man/path_calc_panel.Rd |only midasml-0.0.6/midasml/man/plot_weights.Rd |only midasml-0.0.6/midasml/man/predict.panel_sgl.Rd |only midasml-0.0.6/midasml/man/predict.reg_sgl.Rd |only midasml-0.0.6/midasml/man/qtarget.sort_midasml.Rd |only midasml-0.0.6/midasml/man/rbeta_w.Rd |only midasml-0.0.6/midasml/man/reg_sgl.Rd |only midasml-0.0.6/midasml/man/rq_loss.Rd |only midasml-0.0.6/midasml/man/sgl_fit.Rd |only midasml-0.0.6/midasml/man/transform_dt.Rd |only midasml-0.0.6/midasml/man/updatecvmsd.Rd |only midasml-0.0.6/midasml/src/Makevars |only midasml-0.0.6/midasml/src/Makevars.win |only midasml-0.0.6/midasml/src/RcppExports.cpp |only midasml-0.0.6/midasml/src/fit_sgl.cpp |only midasml-0.0.6/midasml/src/ld_estim.cpp |only midasml-0.1.0/midasml/DESCRIPTION | 30 ++-- midasml-0.1.0/midasml/MD5 | 125 ++++++++---------- midasml-0.1.0/midasml/NAMESPACE | 34 +--- midasml-0.1.0/midasml/R/cv.panel.sglfit.R |only midasml-0.1.0/midasml/R/cv.sglfit.R |only midasml-0.1.0/midasml/R/data.R | 82 ++++++++--- midasml-0.1.0/midasml/R/date.functions.R |only midasml-0.1.0/midasml/R/ic.panel.sglfit.R |only midasml-0.1.0/midasml/R/ic.sglfit.R |only midasml-0.1.0/midasml/R/midas.polynomials.R |only midasml-0.1.0/midasml/R/midas.solvers.R |only midasml-0.1.0/midasml/R/predict.sglpath.R |only midasml-0.1.0/midasml/R/reg.midas.R |only midasml-0.1.0/midasml/R/reg.panel.sgl.R |only midasml-0.1.0/midasml/R/reg.sgl.R |only midasml-0.1.0/midasml/R/sglfit.R |only midasml-0.1.0/midasml/R/sglfitpath.R |only midasml-0.1.0/midasml/R/utilities.R |only midasml-0.1.0/midasml/README.md |only midasml-0.1.0/midasml/build/partial.rdb |binary midasml-0.1.0/midasml/data/alfred_vintages.rda |only midasml-0.1.0/midasml/data/market_ret.rda |only midasml-0.1.0/midasml/data/rgdp_dates.rda |only midasml-0.1.0/midasml/data/rgdp_vintages.rda |only midasml-0.1.0/midasml/data/us_rgdp.rda |only midasml-0.1.0/midasml/man/alfred_vintages.Rd |only midasml-0.1.0/midasml/man/cv.panel.sglfit.Rd |only midasml-0.1.0/midasml/man/cv.panel.sglpath.Rd |only midasml-0.1.0/midasml/man/cv.sglfit.Rd |only midasml-0.1.0/midasml/man/cv.sglpath.Rd |only midasml-0.1.0/midasml/man/data_freq.Rd | 2 midasml-0.1.0/midasml/man/dateMatch.Rd | 2 midasml-0.1.0/midasml/man/date_vec.Rd | 2 midasml-0.1.0/midasml/man/diff_time_mf.Rd | 6 midasml-0.1.0/midasml/man/gb.Rd | 2 midasml-0.1.0/midasml/man/ic.panel.sglfit.Rd |only midasml-0.1.0/midasml/man/ic.pen.Rd |only midasml-0.1.0/midasml/man/ic.sglfit.Rd |only midasml-0.1.0/midasml/man/lag_num.Rd | 2 midasml-0.1.0/midasml/man/lb.Rd | 2 midasml-0.1.0/midasml/man/market_ret.Rd | 2 midasml-0.1.0/midasml/man/midas.ardl.Rd |only midasml-0.1.0/midasml/man/mixed_freq_data.Rd | 2 midasml-0.1.0/midasml/man/mixed_freq_data_single.Rd | 2 midasml-0.1.0/midasml/man/mode_midasml.Rd | 2 midasml-0.1.0/midasml/man/monthBegin.Rd | 2 midasml-0.1.0/midasml/man/monthEnd.Rd | 2 midasml-0.1.0/midasml/man/predict.sglpath.Rd |only midasml-0.1.0/midasml/man/reg.panel.sgl.Rd |only midasml-0.1.0/midasml/man/reg.sgl.Rd |only midasml-0.1.0/midasml/man/rgdp_dates.Rd |only midasml-0.1.0/midasml/man/rgdp_vintages.Rd |only midasml-0.1.0/midasml/man/sglfit.Rd |only midasml-0.1.0/midasml/man/us_rgdp.Rd | 10 - midasml-0.1.0/midasml/src/auxiliary.f90 |only midasml-0.1.0/midasml/src/maxlambda.f90 |only midasml-0.1.0/midasml/src/panelsglfitF.f90 |only midasml-0.1.0/midasml/src/sglfitF.f90 |only 108 files changed, 168 insertions(+), 143 deletions(-)
Title: Download and Visualize Essential Climate Change Data
Description: Provides easy access to essential climate change datasets to non-climate experts. Users can download the latest raw data from authoritative sources and view it via pre-defined 'ggplot2' charts. Datasets include atmospheric CO2, instrumental and proxy temperature records, sea levels, Arctic/Antarctic sea-ice, Hurricanes, and Paleoclimate data. Sources include: NOAA Mauna Loa Laboratory <https://www.esrl.noaa.gov/gmd/ccgg/trends/data.html>, NASA GISTEMP <https://data.giss.nasa.gov/gistemp/>, National Snow and Sea Ice Data Center <https://nsidc.org/data/seaice_index/archives>, CSIRO <https://research.csiro.au/slrwavescoast/sea-level/measurements-and-data/sea-level-data/>, NOAA Laboratory for Satellite Altimetry <https://www.star.nesdis.noaa.gov/socd/lsa/SeaLevelRise/> and HURDAT Atlantic Hurricane Database <https://www.aoml.noaa.gov/hrd/hurdat/Data_Storm.html>, Vostok Paleo carbon dioxide and temperature data: <https://cdiac.ess-dive.lbl.gov/trends/co2/vostok.html>.
Author: Hernando Cortina [aut, cre] (<https://orcid.org/0000-0001-6790-4870>)
Maintainer: Hernando Cortina <hch@alum.mit.edu>
Diff between hockeystick versions 0.4.0 dated 2021-02-05 and 0.5.0 dated 2021-04-14
DESCRIPTION | 13 - MD5 | 74 +++++----- NAMESPACE | 5 NEWS.md | 50 +++---- R/2kyears_temp.R | 250 ++++++++++++++++++------------------ R/carbon.R | 4 R/data_cache.R | 7 - R/globalvars.R | 2 R/hurricanes.R |only R/icecurves.R | 9 - R/instrumental_temp.R | 8 - R/paleo.R | 4 R/seaice.R | 11 + R/sealevel.R | 26 +-- R/zzz.R | 1 README.md | 38 ++++- build/partial.rdb |binary inst/WORDLIST | 4 man/figures/README-carbon-1.png |binary man/figures/README-grid-1.png |binary man/figures/README-hurricanes-1.png |only man/figures/README-hurricanes-2.png |only man/figures/README-icecurves-1.png |binary man/figures/README-si-1.png |binary man/figures/README-sl-1.png |binary man/figures/README-stripes-1.png |binary man/figures/README-stripes2-1.png |binary man/figures/README-temp-1.png |binary man/get_carbon.Rd | 4 man/get_hurricanes.Rd |only man/get_icecurves.Rd | 4 man/get_paleo.Rd | 4 man/get_seaice.Rd | 4 man/get_sealevel.Rd | 12 - man/get_temp.Rd | 6 man/get_temp2k.Rd | 6 man/hockeystick-package.Rd | 2 man/plot_hurricane_nrg.Rd |only man/plot_hurricanes.Rd |only man/plot_temp.Rd | 2 man/plot_temp2k.Rd | 2 41 files changed, 302 insertions(+), 250 deletions(-)
Title: Estimation Methods for Markets in Equilibrium and Disequilibrium
Description: Provides estimation methods for markets in equilibrium and
disequilibrium. Supports the estimation of an equilibrium and
four disequilibrium models with both correlated and independent shocks.
Also provides post-estimation analysis tools, such as aggregation,
marginal effect, and shortage calculations. The estimation methods are
based on full information maximum likelihood techniques given in
Maddala and Nelson (1974) <doi:10.2307/1914215>. They are implemented
using the analytic derivative expressions calculated in
Karapanagiotis (2020) <doi:10.2139/ssrn.3525622>. Standard
errors can be estimated by adjusting for heteroscedasticity or clustering.
The equilibrium estimation constitutes a case of a system of linear,
simultaneous equations. Instead, the disequilibrium models replace the
market-clearing condition with a non-linear,
short-side rule and allow for different specifications of price dynamics.
Author: Pantelis Karapanagiotis [aut, cre]
(<https://orcid.org/0000-0001-9871-1908>)
Maintainer: Pantelis Karapanagiotis <pikappa.devel@gmail.com>
Diff between diseq versions 0.1.5 dated 2021-03-02 and 0.2.1 dated 2021-04-14
diseq-0.1.5/diseq/R/derivatives_basic.R |only diseq-0.1.5/diseq/R/derivatives_deterministic_adjustment.R |only diseq-0.1.5/diseq/R/derivatives_directional.R |only diseq-0.1.5/diseq/R/derivatives_fiml.R |only diseq-0.1.5/diseq/R/derivatives_stochastic_adjustment.R |only diseq-0.1.5/diseq/R/system_fiml.R |only diseq-0.1.5/diseq/man/figures/equilibrium.png |only diseq-0.1.5/diseq/man/get_aggregate_demand.Rd |only diseq-0.1.5/diseq/man/get_aggregate_supply.Rd |only diseq-0.1.5/diseq/man/get_demand_descriptives.Rd |only diseq-0.1.5/diseq/man/get_demanded_quantities.Rd |only diseq-0.1.5/diseq/man/get_marginal_effect_at_mean.Rd |only diseq-0.1.5/diseq/man/get_mean_marginal_effect.Rd |only diseq-0.1.5/diseq/man/get_model_description.Rd |only diseq-0.1.5/diseq/man/get_normalized_shortages.Rd |only diseq-0.1.5/diseq/man/get_number_of_observations.Rd |only diseq-0.1.5/diseq/man/get_prefixed_const_variable.Rd |only diseq-0.1.5/diseq/man/get_prefixed_control_variables.Rd |only diseq-0.1.5/diseq/man/get_prefixed_independent_variables.Rd |only diseq-0.1.5/diseq/man/get_prefixed_price_variable.Rd |only diseq-0.1.5/diseq/man/get_prefixed_variance_variable.Rd |only diseq-0.1.5/diseq/man/get_relative_shortages.Rd |only diseq-0.1.5/diseq/man/get_shortage_probabilities.Rd |only diseq-0.1.5/diseq/man/get_supplied_quantities.Rd |only diseq-0.1.5/diseq/man/get_supply_descriptives.Rd |only diseq-0.2.1/diseq/DESCRIPTION | 36 diseq-0.2.1/diseq/MD5 | 162 - diseq-0.2.1/diseq/NAMESPACE | 36 diseq-0.2.1/diseq/NEWS.md | 58 diseq-0.2.1/diseq/R/data.R |only diseq-0.2.1/diseq/R/diseq_basic.R | 164 - diseq-0.2.1/diseq/R/diseq_deterministic_adjustment.R | 19 diseq-0.2.1/diseq/R/diseq_directional.R | 246 -- diseq-0.2.1/diseq/R/diseq_stochastic_adjustment.R | 70 diseq-0.2.1/diseq/R/disequilibrium_model.R | 243 +- diseq-0.2.1/diseq/R/equation_base.R | 81 diseq-0.2.1/diseq/R/equation_deterministic_adjustment.R | 23 diseq-0.2.1/diseq/R/equation_directional.R | 8 diseq-0.2.1/diseq/R/equilibrium_model.R | 222 -- diseq-0.2.1/diseq/R/gradient_basic.R |only diseq-0.2.1/diseq/R/gradient_deterministic_adjustment.R |only diseq-0.2.1/diseq/R/gradient_directional.R |only diseq-0.2.1/diseq/R/gradient_equilibrium.R |only diseq-0.2.1/diseq/R/gradient_stochastic_adjustment.R |only diseq-0.2.1/diseq/R/hessian_basic.R |only diseq-0.2.1/diseq/R/hessian_directional.R |only diseq-0.2.1/diseq/R/likelihood_basic.R |only diseq-0.2.1/diseq/R/likelihood_deterministic_adjustment.R |only diseq-0.2.1/diseq/R/likelihood_directional.R |only diseq-0.2.1/diseq/R/likelihood_equilibrium.R |only diseq-0.2.1/diseq/R/likelihood_stochastic_adjustment.R |only diseq-0.2.1/diseq/R/market_model.R | 990 +++++----- diseq-0.2.1/diseq/R/model_simulation.R | 418 ++-- diseq-0.2.1/diseq/R/system_base.R | 180 - diseq-0.2.1/diseq/R/system_basic.R | 43 diseq-0.2.1/diseq/R/system_deterministic_adjustment.R | 238 -- diseq-0.2.1/diseq/R/system_directional.R | 10 diseq-0.2.1/diseq/R/system_equilibrium.R |only diseq-0.2.1/diseq/R/system_stochastic_adjustment.R | 351 --- diseq-0.2.1/diseq/README.md | 27 diseq-0.2.1/diseq/build/partial.rdb |binary diseq-0.2.1/diseq/configure | 18 diseq-0.2.1/diseq/configure.ac | 2 diseq-0.2.1/diseq/data |only diseq-0.2.1/diseq/inst/doc/basic_usage.R | 70 diseq-0.2.1/diseq/inst/doc/basic_usage.Rmd | 70 diseq-0.2.1/diseq/inst/doc/basic_usage.html | 318 +-- diseq-0.2.1/diseq/inst/doc/market_clearing_assessment.R | 18 diseq-0.2.1/diseq/inst/doc/market_clearing_assessment.Rmd | 18 diseq-0.2.1/diseq/inst/doc/market_clearing_assessment.html | 258 +- diseq-0.2.1/diseq/man/aggregate_demand.Rd |only diseq-0.2.1/diseq/man/aggregate_supply.Rd |only diseq-0.2.1/diseq/man/demand_descriptives.Rd |only diseq-0.2.1/diseq/man/demanded_quantities.Rd |only diseq-0.2.1/diseq/man/diseq_basic-class.Rd | 2 diseq-0.2.1/diseq/man/diseq_deterministic_adjustment-class.Rd | 2 diseq-0.2.1/diseq/man/diseq_directional-class.Rd | 2 diseq-0.2.1/diseq/man/diseq_stochastic_adjustment-class.Rd | 2 diseq-0.2.1/diseq/man/equilibrium_model-class.Rd | 16 diseq-0.2.1/diseq/man/estimate.Rd | 39 diseq-0.2.1/diseq/man/figures/equilibrium_model.png |only diseq-0.2.1/diseq/man/has_shortage.Rd | 2 diseq-0.2.1/diseq/man/houses.Rd |only diseq-0.2.1/diseq/man/initialize_market_model.Rd | 12 diseq-0.2.1/diseq/man/marginal_effect_at_mean.Rd |only diseq-0.2.1/diseq/man/maximize_log_likelihood.Rd | 22 diseq-0.2.1/diseq/man/mean_marginal_effect.Rd |only diseq-0.2.1/diseq/man/model_description.Rd |only diseq-0.2.1/diseq/man/normalized_shortages.Rd |only diseq-0.2.1/diseq/man/number_of_observations.Rd |only diseq-0.2.1/diseq/man/plot.Rd | 16 diseq-0.2.1/diseq/man/prefixed_const_variable.Rd |only diseq-0.2.1/diseq/man/prefixed_control_variables.Rd |only diseq-0.2.1/diseq/man/prefixed_independent_variables.Rd |only diseq-0.2.1/diseq/man/prefixed_price_variable.Rd |only diseq-0.2.1/diseq/man/prefixed_variance_variable.Rd |only diseq-0.2.1/diseq/man/relative_shortages.Rd |only diseq-0.2.1/diseq/man/scores.Rd | 2 diseq-0.2.1/diseq/man/shortage_probabilities.Rd |only diseq-0.2.1/diseq/man/show.Rd | 20 diseq-0.2.1/diseq/man/summary.Rd | 20 diseq-0.2.1/diseq/man/supplied_quantities.Rd |only diseq-0.2.1/diseq/man/supply_descriptives.Rd |only diseq-0.2.1/diseq/src/equilibrium.cpp | 34 diseq-0.2.1/diseq/tests/testthat/helper-common.R | 262 +- diseq-0.2.1/diseq/tests/testthat/test-basic.R | 60 diseq-0.2.1/diseq/tests/testthat/test-deterministic_adjustment.R | 61 diseq-0.2.1/diseq/tests/testthat/test-directional.R | 58 diseq-0.2.1/diseq/tests/testthat/test-equilibrium.R | 86 diseq-0.2.1/diseq/tests/testthat/test-stochastic_adjustment.R | 58 diseq-0.2.1/diseq/vignettes/basic_usage.Rmd | 70 diseq-0.2.1/diseq/vignettes/market_clearing_assessment.Rmd | 18 112 files changed, 2226 insertions(+), 3035 deletions(-)
Title: Itrax Data Analysis Tools
Description: Parse, trim, join, visualise and analyse data from Itrax sediment core multi-parameter
scanners manufactured by Cox Analytical Systems, Sweden. Functions are provided for parsing
XRF-peak area files, line-scan optical images, and radiographic images, alongside accompanying metadata.
A variety of data wrangling tasks like trimming, joining and reducing XRF-peak area data are simplified.
Principle component analysis (PCA), cluster analysis and associated multivariate methods are
implemented with appropriate data transformation.
Author: Thomas Bishop
Maintainer: Thomas Bishop <tombishopemail@gmail.com>
Diff between itraxR versions 1.1 dated 2021-03-01 and 1.2 dated 2021-04-14
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++----- NAMESPACE | 3 +++ R/itrax_correlation.r | 18 ++++++++++++------ R/itrax_ordination.r | 13 ++++++++++--- R/itrax_restspectra.r |only R/itrax_section.r | 6 +++--- man/itrax_restspectra.Rd |only 8 files changed, 39 insertions(+), 21 deletions(-)
Title: Generate Treasury Total Returns from Yield Data
Description: Generate Total Returns (TR) from bond yield data with fixed maturity, e.g.
reported treasury yields. The generated TR series are very close to alternative series
that can be purchased (e.g. CRSP, Bloomberg), suggesting they are a high-quality
alternative for those, see Swinkels (2019) <doi:10.3390/data4030091>.
Author: Martin Geissmann [aut, cre]
Maintainer: Martin Geissmann <mg@econovo.ch>
Diff between treasuryTR versions 0.1.1 dated 2021-03-11 and 0.1.2 dated 2021-04-14
DESCRIPTION | 7 +--- MD5 | 12 +++--- README.md | 20 +++++++++++ inst/doc/treasuryTR.R | 3 + inst/doc/treasuryTR.Rmd | 3 + inst/doc/treasuryTR.html | 81 ++++++++++++++++++++++++----------------------- vignettes/treasuryTR.Rmd | 3 + 7 files changed, 79 insertions(+), 50 deletions(-)
Title: Correct Bias in DNA Methylation Analyses
Description: Implementation of the algorithms (with minor modifications)
to correct bias in quantitative DNA methylation analyses as described
by Moskalev et al. (2011) <doi:10.1093/nar/gkr213>.
Author: Lorenz A. Kapsner [cre, aut, cph]
(<https://orcid.org/0000-0003-1866-860X>),
Evgeny A. Moskalev [aut]
Maintainer: Lorenz A. Kapsner <lorenz.kapsner@gmail.com>
Diff between rBiasCorrection versions 0.2.8 dated 2021-03-28 and 0.2.9 dated 2021-04-14
DESCRIPTION | 6 MD5 | 18 R/calibration_plot.R | 272 +++++------ R/create_exampleplot.R | 233 +++++----- R/createbarerrorplots.R | 672 ++++++++++++++--------------- R/regression_utility.R | 555 ++++++++++++----------- R/utils.R | 546 +++++++++++------------ build/partial.rdb |binary inst/doc/rBiasCorrection_benchmarking.html | 4 inst/doc/rBiasCorrection_howto.html | 12 10 files changed, 1164 insertions(+), 1154 deletions(-)
More information about rBiasCorrection at CRAN
Permanent link
Title: Cache 'CRAN'-Like Metadata and R Packages
Description: Metadata and package cache for CRAN-like repositories.
This is a utility package to be used by package management tools
that want to take advantage of caching.
Author: Gábor Csárdi [aut, cre]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between pkgcache versions 1.2.0 dated 2021-03-01 and 1.2.1 dated 2021-04-14
pkgcache-1.2.0/pkgcache/tests |only pkgcache-1.2.1/pkgcache/DESCRIPTION | 11 +-- pkgcache-1.2.1/pkgcache/MD5 | 83 +----------------------- pkgcache-1.2.1/pkgcache/NEWS.md | 4 + pkgcache-1.2.1/pkgcache/README.md | 2 pkgcache-1.2.1/pkgcache/man/pkgcache-package.Rd | 2 6 files changed, 15 insertions(+), 87 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-06-08 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-30 0.3.0
2020-01-24 0.2.5
2019-06-03 0.2.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-09 0.3-3
2021-01-08 0.3-2
2021-01-07 0.3-1
2021-01-05 0.3-0
2020-11-30 0.2-1
2020-10-20 0.2-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-02-11 0.2.1
2021-01-04 0.2.0
2020-09-29 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-31 0.3.0
Title: Flexible Tool for Bias Detection, Visualization, and Mitigation
Description: Measure fairness metrics in one place for many models. Check how big is model's bias towards different races, sex, nationalities etc. Use measures such as Statistical Parity, Equal odds to detect the discrimination against unprivileged groups. Visualize the bias using heatmap, radar plot, biplot, bar chart (and more!). There are various pre-processing and post-processing bias mitigation algorithms implemented. Find more details in (Wiśniewski, Biecek (2021)) <arXiv:2104.00507>.
Author: Jakub Wiśniewski [aut, cre],
Przemysław Biecek [aut] (<https://orcid.org/0000-0001-8423-1823>)
Maintainer: Jakub Wiśniewski <jakwisn@gmail.com>
Diff between fairmodels versions 0.2.4 dated 2020-12-12 and 1.0.1 dated 2021-04-14
DESCRIPTION | 10 +- MD5 | 131 +++++++++++++++++----------------- NEWS.md | 14 +++ R/all_cutoffs.R | 24 ++++-- R/ceteris_paribus_cutoff.R | 15 +++ R/choose_metric.R | 19 +++- R/expand_fairness_object.R | 15 ++- R/fairness_check.R | 29 +++++-- R/fairness_heatmap.R | 3 R/fairness_pca.R | 3 R/fairness_radar.R | 23 ++++- R/group_metric.R | 19 +++- R/metric_scores.R | 19 +++- R/performance_and_fairness.R | 18 +++- R/plot_all_cutoffs.R | 28 ++++--- R/plot_ceteris_paribus_cutoff.R | 39 ++++++---- R/plot_chosen_metric.R | 19 +++- R/plot_fairness_heatmap.R | 4 - R/plot_fairness_object.R | 14 ++- R/plot_fairness_pca.R | 3 R/plot_fairness_radar.R | 26 +++++- R/plot_group_metric.R | 21 ++++- R/plot_metric_scores.R | 20 +++-- R/plot_performance_and_fairness.R | 19 +++- R/plot_stacked_metrics.R | 19 +++- R/print.R | 33 +++++--- R/resample.R | 38 ++++++++- R/stack_metrics.R | 18 +++- README.md | 9 +- inst/CITATION |only inst/WORDLIST | 2 man/all_cutoffs.Rd | 24 ++++-- man/ceteris_paribus_cutoff.Rd | 15 +++ man/choose_metric.Rd | 19 +++- man/expand_fairness_object.Rd | 15 ++- man/fairness_check.Rd | 23 +++-- man/fairness_heatmap.Rd | 3 man/fairness_pca.Rd | 3 man/fairness_radar.Rd | 23 ++++- man/group_metric.Rd | 19 +++- man/metric_scores.Rd | 19 +++- man/performance_and_fairness.Rd | 18 +++- man/plot_all_cutoffs.Rd | 28 ++++--- man/plot_ceteris_paribus_cutoff.Rd | 39 ++++++---- man/plot_chosen_metric.Rd | 19 +++- man/plot_fairness_heatmap.Rd | 4 - man/plot_fairness_object.Rd | 14 ++- man/plot_fairness_pca.Rd | 3 man/plot_fairness_radar.Rd | 26 +++++- man/plot_group_metric.Rd | 21 ++++- man/plot_metric_scores.Rd | 20 +++-- man/plot_performance_and_fairness.Rd | 19 +++- man/plot_stacked_barplot.Rd | 18 +++- man/plot_stacked_metrics.Rd | 18 +++- man/print_all_cutoffs.Rd | 3 man/print_ceteris_paribus_cutoff.Rd | 3 man/print_chosen_metric.Rd | 3 man/print_fairness_heatmap.Rd | 3 man/print_fairness_object.Rd | 3 man/print_fairness_pca.Rd | 3 man/print_fairness_radar.Rd | 3 man/print_group_metric.Rd | 3 man/print_metric_scores.Rd | 3 man/print_performance_and_fairness.Rd | 3 man/print_stacked_metrics.Rd | 3 man/resample.Rd | 38 ++++++++- tests/testthat/test_fairness_object.R | 8 ++ 67 files changed, 824 insertions(+), 319 deletions(-)
Title: Client for Dataverse 4+ Repositories
Description: Provides access to Dataverse APIs <https://dataverse.org/> (versions 4-5),
enabling data search, retrieval, and deposit. For Dataverse versions <= 3.0,
use the archived 'dvn' package <https://cran.r-project.org/package=dvn>.
Author: Will Beasley [aut, cre] (<https://orcid.org/0000-0002-5613-5006>),
Thomas J. Leeper [aut] (<https://orcid.org/0000-0003-4097-6326>),
Shiro Kuriwaki [aut] (<https://orcid.org/0000-0002-5687-2647>),
Philip Durbin [aut] (<https://orcid.org/0000-0002-9528-9470>),
Sebastian Karcher [aut] (<https://orcid.org/0000-0001-8249-7388>),
Jan Kanis [ctb],
Edward Jee [ctb]
Maintainer: Will Beasley <wibeasley@hotmail.com>
Diff between dataverse versions 0.3.7 dated 2021-03-08 and 0.3.8 dated 2021-04-14
DESCRIPTION | 77 ++++----- MD5 | 52 +++--- NEWS.md | 20 ++ R/get_dataset.R | 35 +--- R/get_dataverse.R | 27 --- R/get_file_by_id.R | 2 README.md | 10 - build/vignette.rds |binary inst/CITATION | 18 +- inst/doc/A-introduction.html | 13 + inst/doc/B-search.html | 115 +++++++------- inst/doc/C-download.html | 13 + man/get_dataset.Rd | 35 +--- man/get_dataverse.Rd | 28 --- tests/testthat/tests-dataset_files.R | 3 tests/testthat/tests-dataset_metadata.R | 6 tests/testthat/tests-dataverse_contents.R | 6 tests/testthat/tests-get_dataframe-dataframe-basketball.R | 9 - tests/testthat/tests-get_dataframe-original-basketball.R | 18 +- tests/testthat/tests-get_dataset.R | 3 tests/testthat/tests-get_dataverse.R | 6 tests/testthat/tests-get_file.R | 17 +- tests/testthat/tests-get_file_metadata.R | 8 tests/testthat/tests-list_datasets.R | 6 tests/testthat/tests-native-api.R | 12 - tests/testthat/tests-search.R | 30 +-- tests/testthat/tests-sword.R | 6 27 files changed, 289 insertions(+), 286 deletions(-)
Title: Prepare Figure Region for Base Graphics
Description: A figure region is prepared, creating a plot region with suitable background color, grid lines or shadings, and providing axes and labeling if not suppressed. Subsequently, information carrying graphics elements can be added (points, lines, barplot with add=TRUE and so forth).
Author: Ulrike Groemping
Maintainer: Ulrike Groemping <groemping@beuth-hochschule.de>
Diff between prepplot versions 0.7 dated 2018-04-05 and 1.0 dated 2021-04-14
DESCRIPTION | 8 +++--- MD5 | 17 +++++++------- R/prepplot.R | 4 +-- build/vignette.rds |binary inst/NEWS |only inst/doc/prepplotOverview.R | 27 ++++++++++++++-------- inst/doc/prepplotOverview.Rmd | 49 +++++++++++++++++++++++++---------------- inst/doc/prepplotOverview.pdf |binary man/prepplot.Rd | 4 +-- vignettes/prepplotOverview.Rmd | 49 +++++++++++++++++++++++++---------------- 10 files changed, 94 insertions(+), 64 deletions(-)
Title: Track Estimation using YAPS (Yet Another Positioning Solver)
Description: Estimate tracks of animals tagged with acoustic transmitters. 'yaps' was introduced in 2017 as a transparent open-source tool to estimate positions of fish (and other aquatic animals) tagged with acoustic transmitters. Based on registrations of acoustic transmitters on hydrophones positioned in a fixed array, 'yaps' enables users to synchronize the collected data (i.e. correcting for drift in the internal clocks of the hydrophones/receivers) and subsequently to estimate tracks of the tagged animals. The paper introducing 'yaps' is available in open access at Baktoft, Gjelland, Økland & Thygesen (2017) <doi:10.1038/s41598-017-14278-z>. Also check out our cookbook with a completely worked through example at Baktoft, Gjelland, Økland, Rehage, Rodemann, Corujo, Viadero & Thygesen (2019) <DOI:10.1101/2019.12.16.877688>. Additional tutorials will eventually make their way onto the project website at <https://baktoft.github.io/yaps/>.
Author: Henrik Baktoft [cre, aut] (<https://orcid.org/0000-0002-3644-4960>),
Karl Gjelland [aut] (<https://orcid.org/0000-0003-4036-4207>),
Uffe H. Thygesen [aut] (<https://orcid.org/0000-0002-4311-6324>),
Finn Økland [aut] (<https://orcid.org/0000-0002-1938-5460>)
Maintainer: Henrik Baktoft <hba@aqua.dtu.dk>
Diff between yaps versions 1.2.4 dated 2021-02-10 and 1.2.5 dated 2021-04-13
DESCRIPTION | 6 MD5 | 77 +-- NEWS.md | 13 R/checkInp.R | 11 R/getBbox.R | 2 R/getInp.R | 4 R/plotBbox.R | 13 R/prepTmb.R | 74 +++ R/runYaps.R | 53 +- R/syncPlotters.R | 6 R/testYaps.R | 8 R/zzz.R | 10 README.md | 129 +++-- man/applySync.Rd | 7 man/checkInp.Rd | 7 man/checkInpSync.Rd | 7 man/examples/example-yaps_ssu1.R | 7 man/fineTuneSyncModel.Rd | 7 man/getBbox.Rd | 2 man/getInp.Rd | 7 man/getInpSync.Rd | 7 man/getSyncCoverage.Rd | 221 +++++----- man/getSyncModel.Rd | 7 man/getToaYaps.Rd | 7 man/runYaps.Rd | 13 man/testYaps.Rd | 7 src/dist_mat_3d_est.h | 7 src/nll_mix-dist.h | 6 src/nll_pingtype_rbi.h | 6 src/nll_pingtype_sbi.h | 1 src/nll_pingtype_sbi_double.h |only src/nll_ss_est.h | 5 src/yaps_track.h | 7 tests/figs/syncmodel-plotters/plotsyncmodelcheck-by-sync-bin-hydro.svg | 114 ----- tests/figs/syncmodel-plotters/plotsyncmodelresids-hydro.svg | 159 ------- tests/figs/syncmodel-plotters/plotsyncmodelresids-sync-tag.svg | 159 ------- tests/testthat/test-runYaps.R | 28 - tests/testthat/test_out_nloptr_ref.RData |binary tests/testthat/test_out_ref.RData |binary tests/testthat/yaps_out_ref.RData |binary 40 files changed, 459 insertions(+), 745 deletions(-)
Title: The Unifed Distribution
Description: Probability functions, family for glm() and Stan code for working with the unifed distribution (Quijano Xacur, 2019; <doi:10.1186/s40488-019-0102-6>).
Author: Oscar Alberto Quijano Xacur [aut,cre]
Maintainer: Oscar Alberto Quijano Xacur <oscar.quijano@use.startmail.com>
Diff between unifed versions 1.1.3 dated 2020-06-19 and 1.1.5 dated 2021-04-13
ChangeLog | 8 + DESCRIPTION | 10 +- MD5 | 27 +++--- R/car.insurance.R |only R/dunifed.R | 2 R/unifed.deviance.R | 2 build/vignette.rds |binary data |only inst/CITATION | 8 - inst/doc/introduction_unifed.R | 32 +++---- inst/doc/introduction_unifed.Rmd | 45 ++++------ inst/doc/introduction_unifed.html | 160 ++++++++++++++++++++------------------ man/car.insurance.Rd |only man/unifed.deviance.Rd | 2 vignettes/bibliography.bib | 4 vignettes/introduction_unifed.Rmd | 45 ++++------ 16 files changed, 177 insertions(+), 168 deletions(-)
Title: Transformation Models with Mixed Effects
Description: Likelihood-based estimation of mixed-effects transformation models using the Template
Model Builder (TMB, Kristensen et al., 2016, <doi:10.18637/jss.v070.i05>). The technical details
of transformation models are given in Hothorn et al. (2018, <doi:10.1111/sjos.12291>). Likelihood
contributions of exact, randomly censored (left, right, interval) and truncated observations are
supported. The random effects are assumed to be normally distributed on the scale of the
transformation function, the marginal likelihood is evaluated using the Laplace approximation,
and the gradients are calculated with automatic differentiation (AD).
Author: Balint Tamasi [aut, cre] (<https://orcid.org/0000-0002-2629-7362>),
Torsten Hothorn [ctb] (<https://orcid.org/0000-0001-8301-0471>)
Maintainer: Balint Tamasi <balint.tamasi@uzh.ch>
Diff between tramME versions 0.1.0 dated 2021-03-30 and 0.1.1 dated 2021-04-13
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 4 ++++ build/vignette.rds |binary inst/doc/tramME.pdf |binary src/tramTMB.cpp | 1 + 6 files changed, 13 insertions(+), 8 deletions(-)
Title: Steve's 'R Markdown' Templates
Description: These are my collection of 'R Markdown' templates, mostly for compilation to PDF.
These are useful for all things academic and professional, if you are using 'R Markdown'
for things like your CV or your articles and manuscripts.
Author: Steven V. Miller
Maintainer: Steven V. Miller <steven.v.miller@gmail.com>
Diff between stevetemplates versions 0.4.0 dated 2021-03-05 and 0.5.0 dated 2021-04-13
DESCRIPTION | 7 +- MD5 | 28 +++++++---- R/anonms.R | 2 R/article2.R | 7 ++ R/html_article.R |only R/word.R |only README.md | 16 ++++++ inst/rmarkdown/templates/article2/resources/template.tex | 36 +++++++++++++++ inst/rmarkdown/templates/article2/skeleton/skeleton.Rmd | 2 inst/rmarkdown/templates/cv/resources/template.tex | 6 +- inst/rmarkdown/templates/html_article |only inst/rmarkdown/templates/word |only man/anonms.Rd | 2 man/article2.Rd | 8 +++ man/html_article.Rd |only man/word.Rd |only 16 files changed, 95 insertions(+), 19 deletions(-)
More information about stevetemplates at CRAN
Permanent link
Title: Model-Based Boosting
Description: Functional gradient descent algorithm
(boosting) for optimizing general risk functions utilizing
component-wise (penalised) least squares estimates or regression
trees as base-learners for fitting generalized linear, additive
and interaction models to potentially high-dimensional data.
Models and algorithms are described in \doi{10.1214/07-STS242},
a hands-on tutorial is available from \doi{10.1007/s00180-012-0382-5}.
The package allows user-specified loss functions and base-learners.
Author: Torsten Hothorn [cre, aut] (<https://orcid.org/0000-0001-8301-0471>),
Peter Buehlmann [aut] (<https://orcid.org/0000-0002-1782-6015>),
Thomas Kneib [aut] (<https://orcid.org/0000-0003-3390-0972>),
Matthias Schmid [aut] (<https://orcid.org/0000-0002-0788-0317>),
Benjamin Hofner [aut] (<https://orcid.org/0000-0003-2810-3186>),
Fabian Otto-Sobotka [ctb] (<https://orcid.org/0000-0002-9874-1311>),
Fabian Scheipl [ctb] (<https://orcid.org/0000-0001-8172-3603>),
Andreas Mayr [ctb] (<https://orcid.org/0000-0001-7106-9732>)
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between mboost versions 2.9-4 dated 2020-12-10 and 2.9-5 dated 2021-04-13
DESCRIPTION | 13 MD5 | 69 +-- R/btree.R | 20 build/partial.rdb |binary build/vignette.rds |binary cleanup |only inst/NEWS.Rd | 14 inst/doc/SurvivalEnsembles.R | 1 inst/doc/SurvivalEnsembles.Rnw | 1 inst/doc/SurvivalEnsembles.pdf |binary inst/doc/mboost.R | 686 +++++++++++++++++++++++++++++++++- inst/doc/mboost.Rnw | 667 ++++++++++++++++++++++++++++++++- inst/doc/mboost.pdf |binary inst/doc/mboost_illustrations.pdf |binary inst/doc/mboost_tutorial.R | 1 inst/doc/mboost_tutorial.Rnw | 1 inst/doc/mboost_tutorial.pdf |binary man/Family.Rd | 22 - man/baselearners.Rd | 29 - man/blackboost.Rd | 7 man/confint.Rd | 2 man/cvrisk.Rd | 4 man/gamboost.Rd | 2 man/glmboost.Rd | 2 man/mboost_fit.Rd | 2 man/mboost_package.Rd | 5 man/methods.Rd | 4 man/plot.Rd | 2 man/stabsel.Rd | 2 man/survFit.Rd | 3 vignettes/SurvivalEnsembles.Rnw | 1 vignettes/SurvivalEnsembles.Rout.save | 40 + vignettes/mboost.Rnw | 667 ++++++++++++++++++++++++++++++++- vignettes/mboost.Rout.save | 16 vignettes/mboost_tutorial.Rnw | 1 vignettes/mboost_tutorial.Rout.save | 124 ++---- 36 files changed, 2169 insertions(+), 239 deletions(-)
Title: Multivariate and Propensity Score Matching with Balance
Optimization
Description: Provides functions for multivariate and propensity score matching
and for finding optimal balance based on a genetic search algorithm.
A variety of univariate and multivariate metrics to
determine if balance has been obtained are also provided. For
details, see the paper by Jasjeet Sekhon
(2007, <doi:10.18637/jss.v042.i07>).
Author: Jasjeet Singh Sekhon <jas.sekhon@yale.edu>
Maintainer: Jasjeet Singh Sekhon <jas.sekhon@yale.edu>
Diff between Matching versions 4.9-7 dated 2020-02-06 and 4.9-9 dated 2021-04-13
DESCRIPTION | 19 +++++++++++-------- MD5 | 22 +++++++++++----------- README.md | 4 ++-- inst/CITATION | 8 ++++---- man/GenMatch.Rd | 2 +- man/Match.Rd | 22 +++++++++++----------- man/MatchBalance.Rd | 18 +++++++++--------- man/Matchby.Rd | 22 +++++++++++----------- man/balanceUV.Rd | 4 ++-- man/ks.boot.Rd | 8 ++++---- man/qqstats.Rd | 4 ++-- src/matching.cc | 2 ++ 12 files changed, 70 insertions(+), 65 deletions(-)
Title: Kernel Regression Smoothing with Local or Global Plug-in
Bandwidth
Description: Kernel regression smoothing with adaptive local or global plug-in
bandwidth selection.
Author: Eva Herrmann <eherrmann@mathematik.tu-darmstadt.de> (F77 & S original);
Packaged for R and enhanced by Martin Maechler
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between lokern versions 1.1-8.1 dated 2020-07-15 and 1.1-9 dated 2021-04-13
ChangeLog | 25 +++++++ DESCRIPTION | 8 +- MD5 | 33 +++++----- R/glkerns.R | 8 +- R/lokerns.R | 31 ++++++--- TODO | 6 + build |only man/KernS-methods.Rd | 24 +++++-- man/glkerns.Rd | 13 ++-- man/lokerns.Rd | 2 man/xSim.Rd | 2 src/auxkerns.f | 161 +++++++++++++++++++++++++++++++++------------------ src/glkerns.f | 97 ++++++++++++++++++------------ src/init.c | 23 ++++--- src/lokerns.f | 131 ++++++++++++++++++++++++----------------- src/monitor.c | 50 ++++++++++++--- tests/glk1.Rout.save | 12 +-- tests/lok1.Rout.save | 155 +++++++++---------------------------------------- 18 files changed, 432 insertions(+), 349 deletions(-)
Title: Presentation-Ready Data Summary and Analytic Result Tables
Description: Creates presentation-ready tables summarizing data
sets, regression models, and more. The code to create the tables is
concise and highly customizable. Data frames can be summarized with
any function, e.g. mean(), median(), even user-written functions.
Regression models are summarized and include the reference rows for
categorical variables. Common regression models, such as logistic
regression and Cox proportional hazards regression, are automatically
identified and the tables are pre-filled with appropriate column
headers.
Author: Daniel D. Sjoberg [aut, cre] (<https://orcid.org/0000-0003-0862-2018>),
Michael Curry [aut] (<https://orcid.org/0000-0002-0261-4044>),
Margie Hannum [aut] (<https://orcid.org/0000-0002-2953-0449>),
Joseph Larmarange [aut] (<https://orcid.org/0000-0001-7097-700X>),
Karissa Whiting [aut] (<https://orcid.org/0000-0002-4683-1868>),
Emily C. Zabor [aut] (<https://orcid.org/0000-0002-1402-4498>),
Esther Drill [ctb] (<https://orcid.org/0000-0002-3315-4538>),
Jessica Flynn [ctb] (<https://orcid.org/0000-0001-8310-6684>),
Jessica Lavery [ctb] (<https://orcid.org/0000-0002-2746-5647>),
Stephanie Lobaugh [ctb],
Gustavo Zapata Wainberg [ctb] (<https://orcid.org/0000-0002-2524-3637>)
Maintainer: Daniel D. Sjoberg <danield.sjoberg@gmail.com>
Diff between gtsummary versions 1.3.7 dated 2021-02-26 and 1.4.0 dated 2021-04-13
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files changed, 22671 insertions(+), 25307 deletions(-)
Title: Utility Functions for Large-scale Data
Description: Utility functions for large-scale data. For now, package 'bigutilsr'
mainly includes functions for outlier detection and unbiased PCA projection.
Author: Florian Privé [aut, cre]
Maintainer: Florian Privé <florian.prive.21@gmail.com>
Diff between bigutilsr versions 0.3.3 dated 2020-10-15 and 0.3.4 dated 2021-04-13
DESCRIPTION | 9 ++++----- MD5 | 6 +++--- README.md | 2 +- tests/testthat/test-OGK.R | 1 + 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Enhanced Fork-Based Parallelization
Description: Drop-in replacement for 'parallel::mclapply()' adding e.g.
tracebacks, crash dumps, retries, condition handling, improved seeding,
progress bars and faster inter process communication. Some of the internal
functions are also exported for other use: 'etry()' (extended try),
'copy2shm()/allocate_from_shm()' (copy to and allocate from POSIX shared
memory), 'char_map/map2char()' (split a character vector into its unique
elements and a mapping on these) and various semaphore related functions.
Author: Andreas Kersting [aut, cre, cph],
GfK SE [cph],
R Core team [ctb] ('etry()' and its print method borrow a lot from base
R)
Maintainer: Andreas Kersting <andreas.kersting@gfk.com>
Diff between bettermc versions 1.0.1 dated 2021-03-25 and 1.1.1 dated 2021-04-13
DESCRIPTION | 10 - MD5 | 60 ++++++----- NEWS.md | 26 +++++ R/compress_chars.R | 4 R/etry.R | 2 R/mclapply.R | 176 +++++++++++++++++++++++++++-------- R/sem.R | 4 R/vectors2shm.R | 26 ++--- R/zzz.R | 11 +- configure | 1 configure.win |only inst/WORDLIST | 3 man/char_map.Rd | 4 man/compress_chars.Rd | 4 man/copy2shm.Rd | 24 ++-- man/etry.Rd | 4 man/mclapply.Rd | 88 +++++++++++++---- man/sem.Rd | 4 man/semv.Rd | 4 src/Makevars.linux | 2 src/Makevars.macos |only src/Makevars.solaris | 2 src/Makevars.win |only src/copy2shm.c | 37 +++++-- src/copy2shm.c.windows |only src/include |only src/sem.c.windows |only src/semv.c.windows |only tests/testthat/test-copy2shm.R | 8 + tests/testthat/test-mclapply.R | 38 ++++--- tests/testthat/test-mclapply_retry.R | 48 +++++++++ tests/testthat/test-mclapply_seed.R | 21 ++++ tests/testthat/test-sem.R | 2 tests/testthat/test-semv.R | 3 34 files changed, 478 insertions(+), 138 deletions(-)
Title: National Statistical Office of Mongolia's Open Data API Handler
Description: National Statistical Office of Mongolia (NSO) is the national statistical service and an organization of Mongolian government. NSO provides open access to official data via its API <http://opendata.1212.mn/en/doc>. The package NSO1212 has functions for accessing the API service. The functions are compatible with the API v2.0 and get data sets and its detailed informations from the API.
Author: Makhgal Ganbold [aut, cre]
Maintainer: Makhgal Ganbold <makhgal@seas.num.edu.mn>
Diff between NSO1212 versions 1.1.0 dated 2020-05-13 and 1.2.0 dated 2021-04-13
DESCRIPTION | 13 +++----- MD5 | 32 ++++++++++---------- NAMESPACE | 1 NEWS | 6 +++ R/NSO1212-package.r | 4 +- R/all_tables.R | 29 +++++++++++++----- R/get_sector_info.R | 18 ++++++++--- R/get_subsector_info.R | 16 +++++++--- R/get_table.R | 71 ++++++++++++++++++++++++++++++++++++---------- R/get_table_info.R | 32 +++++++++++--------- README.md | 13 +++----- man/NSO1212.Rd | 4 +- man/all_tables.Rd | 15 +++++---- man/get_sector_info.Rd | 10 +++--- man/get_subsector_info.Rd | 8 +++-- man/get_table.Rd | 34 +++++++++++++++------- man/get_table_info.Rd | 24 +++++++-------- 17 files changed, 214 insertions(+), 116 deletions(-)
Title: Bayesian Inference of Non-Linear and Non-Gaussian State Space
Models
Description: Efficient methods for Bayesian inference of state space models
via particle Markov chain Monte Carlo (MCMC) and MCMC based on parallel
importance sampling type weighted estimators
(Vihola, Helske, and Franks, 2020, <doi:10.1111/sjos.12492>).
Gaussian, Poisson, binomial, negative binomial, and Gamma
observation densities and basic stochastic volatility models
with linear-Gaussian state dynamics,
as well as general non-linear Gaussian models and discretised
diffusion models are supported.
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>),
Matti Vihola [aut] (<https://orcid.org/0000-0002-8041-7222>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between bssm versions 1.1.3-2 dated 2021-02-26 and 1.1.4 dated 2021-04-13
DESCRIPTION | 8 - MD5 | 59 ++++--- NEWS | 7 R/RcppExports.R | 4 R/loglik.R | 11 - R/models.R | 15 +- R/priors.R | 321 +++++++++++++++++++++---------------------- R/run_mcmc.R | 11 + build/vignette.rds |binary inst/doc/bssm.Rmd | 6 inst/doc/bssm.html | 18 +- inst/doc/growth_model.html | 9 - inst/doc/psi_pf.html | 14 - inst/doc/sde_model.Rmd | 8 - inst/doc/sde_model.html | 22 -- man/logLik.Rd | 38 ----- man/logLik.nongaussian.Rd |only man/logLik.ssm_nlg.Rd | 4 man/logLik.ssm_sde.Rd | 2 man/priors.Rd | 10 + man/run_mcmc_ng.Rd | 11 + man/svm.Rd | 15 +- src/R_milstein.cpp | 24 --- src/RcppExports.cpp | 21 -- src/milstein.cpp | 58 ------- src/milstein_functions.h | 8 - src/model_ssm_ung.cpp | 9 - tests/testthat/test_models.R | 3 vignettes/bssm.Rmd | 6 vignettes/bssm.bib | 2 vignettes/sde_model.Rmd | 8 - 31 files changed, 308 insertions(+), 424 deletions(-)
Title: Tidy Dataframes and Expressions with Statistical Details
Description: Utilities for producing dataframes with rich details for the
most common types of statistical approaches and tests: parametric,
nonparametric, robust, and Bayesian t-test, one-way ANOVA, correlation
analyses, contingency table analyses, and meta-analyses. The
functions are pipe-friendly and provide a consistent syntax to work
with tidy data. These dataframes additionally contain expressions with
statistical details, and can be used in graphing packages. This
package also forms the statistical processing backend for
'ggstatsplot'.
Author: Indrajeet Patil [cre, aut, cph]
(<https://orcid.org/0000-0003-1995-6531>, @patilindrajeets)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between statsExpressions versions 1.0.0 dated 2021-03-11 and 1.0.1 dated 2021-04-13
statsExpressions-1.0.0/statsExpressions/build/statsExpressions.pdf |only statsExpressions-1.0.1/statsExpressions/DESCRIPTION | 18 statsExpressions-1.0.1/statsExpressions/LICENSE | 4 statsExpressions-1.0.1/statsExpressions/MD5 | 155 statsExpressions-1.0.1/statsExpressions/NAMESPACE | 205 - statsExpressions-1.0.1/statsExpressions/NEWS.md | 636 +-- statsExpressions-1.0.1/statsExpressions/R/bf_extractor.R | 156 statsExpressions-1.0.1/statsExpressions/R/contingency_table.R | 535 +-- statsExpressions-1.0.1/statsExpressions/R/corr_test.R | 209 - statsExpressions-1.0.1/statsExpressions/R/data.R | 324 - statsExpressions-1.0.1/statsExpressions/R/global_vars.R | 68 statsExpressions-1.0.1/statsExpressions/R/helpers_easystats.R | 90 statsExpressions-1.0.1/statsExpressions/R/helpers_expr_templates.R | 813 ++-- statsExpressions-1.0.1/statsExpressions/R/meta_analysis.R | 254 - statsExpressions-1.0.1/statsExpressions/R/one_sample_test.R | 412 +- statsExpressions-1.0.1/statsExpressions/R/oneway_anova.R | 756 ++-- statsExpressions-1.0.1/statsExpressions/R/reexports.R | 94 statsExpressions-1.0.1/statsExpressions/R/statsExpressions-package.R | 49 statsExpressions-1.0.1/statsExpressions/R/two_sample_test.R | 590 +-- statsExpressions-1.0.1/statsExpressions/README.md | 1456 ++++---- statsExpressions-1.0.1/statsExpressions/build/vignette.rds |binary statsExpressions-1.0.1/statsExpressions/inst/CITATION | 17 statsExpressions-1.0.1/statsExpressions/inst/WORDLIST | 145 statsExpressions-1.0.1/statsExpressions/inst/doc/stats_details.R | 16 statsExpressions-1.0.1/statsExpressions/inst/doc/stats_details.Rmd | 390 +- statsExpressions-1.0.1/statsExpressions/inst/doc/stats_details.html | 1304 +++---- statsExpressions-1.0.1/statsExpressions/man/bf_extractor.Rd | 96 statsExpressions-1.0.1/statsExpressions/man/contingency_table.Rd | 298 - 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Title: Linking Patient-Reported Outcomes Measures
Description: Perform scale linking to establish relationships between instruments
that measure similar constructs according to the PROsetta Stone methodology, as in Choi, Schalet, Cook, & Cella (2014) <doi:10.1037/a0035768>.
Author: Seung W. Choi [aut, cre] (<https://orcid.org/0000-0003-4777-5420>),
Sangdon Lim [aut] (<https://orcid.org/0000-0002-2988-014X>),
Benjamin D. Schalet [ctb],
Aaron J. Kaat [ctb],
David Cella [ctb]
Maintainer: Seung W. Choi <schoi@austin.utexas.edu>
Diff between PROsetta versions 0.2.1 dated 2020-11-25 and 0.3.0 dated 2021-04-13
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More information about mlr3spatiotempcv at CRAN
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Title: Tools to Visualize, Manipulate, and Summarize MCMC Output
Description: Performs key functions for MCMC analysis using minimal code - visualizes, manipulates, and summarizes MCMC output. Functions support simple and straightforward subsetting of model parameters within the calls, and produce presentable and 'publication-ready' output. MCMC output may be derived from Bayesian model output fit with 'Stan', 'NIMBLE', 'JAGS', and other software.
Author: Casey Youngflesh [aut, cre] (<https://orcid.org/0000-0001-6343-3311>),
Christian Che-Castaldo [aut] (<https://orcid.org/0000-0002-7670-2178>),
Tyler Hardy [ctb]
Maintainer: Casey Youngflesh <caseyyoungflesh@gmail.com>
Diff between MCMCvis versions 0.15.0 dated 2021-03-17 and 0.15.1 dated 2021-04-13
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 5 +++++ R/MCMCdiag.R | 2 +- R/MCMCplot.R | 25 ++++++++++++++++++++----- inst/doc/MCMCvis.Rmd | 2 +- inst/doc/MCMCvis.html | 14 +++++++------- man/MCMCdiag.Rd | 2 +- vignettes/MCMCvis.Rmd | 2 +- 9 files changed, 47 insertions(+), 27 deletions(-)
Title: Exploration and Graphics for RivEr Trends Confidence Intervals
Description: Collection of functions to evaluate uncertainty of results from
water quality analysis using the Weighted Regressions on Time Discharge and
Season (WRTDS) method. This package is an add-on to the EGRET package that
performs the WRTDS analysis. The WRTDS modeling
method was initially introduced and discussed in Hirsch et al. (2010) <doi:10.1111/j.1752-1688.2010.00482.x>,
and expanded in Hirsch and De Cicco (2015) <doi:10.3133/tm4A10>. The
paper describing the uncertainty and confidence interval calculations
is Hirsch et al. (2015) <doi:10.1016/j.envsoft.2015.07.017>.
Author: Laura DeCicco [aut, cre] (<https://orcid.org/0000-0002-3915-9487>),
Robert Hirsch [aut] (<https://orcid.org/0000-0002-4534-075X>),
Jennifer Murphy [ctb]
Maintainer: Laura DeCicco <ldecicco@usgs.gov>
Diff between EGRETci versions 2.0.3 dated 2019-03-15 and 2.0.4 dated 2021-04-13
EGRETci-2.0.3/EGRETci/R/runGroupBoot.R |only EGRETci-2.0.4/EGRETci/DESCRIPTION | 15 EGRETci-2.0.4/EGRETci/MD5 | 80 +- EGRETci-2.0.4/EGRETci/NAMESPACE | 7 EGRETci-2.0.4/EGRETci/R/ciData.R | 5 EGRETci-2.0.4/EGRETci/R/kalman_bootstrapping.R |only EGRETci-2.0.4/EGRETci/R/plotCIs.R | 339 +++++++---- EGRETci-2.0.4/EGRETci/R/predictionIntervals.R |only EGRETci-2.0.4/EGRETci/R/runGroupsBoot.R |only EGRETci-2.0.4/EGRETci/R/runPairsBoot.R | 82 +- EGRETci-2.0.4/EGRETci/R/wBTCode.R | 297 +++++---- EGRETci-2.0.4/EGRETci/README.md | 10 EGRETci-2.0.4/EGRETci/build/partial.rdb |only EGRETci-2.0.4/EGRETci/build/vignette.rds |binary EGRETci-2.0.4/EGRETci/data/Choptank_dailyBootOut.RData |only EGRETci-2.0.4/EGRETci/inst/CITATION | 2 EGRETci-2.0.4/EGRETci/inst/doc/EGRETci.Rmd | 15 EGRETci-2.0.4/EGRETci/inst/doc/EGRETci.html | 386 +++++++----- EGRETci-2.0.4/EGRETci/inst/doc/Enhancements.R | 67 +- EGRETci-2.0.4/EGRETci/inst/doc/Enhancements.Rmd | 182 ++---- EGRETci-2.0.4/EGRETci/inst/doc/Enhancements.html | 480 +++++++--------- EGRETci-2.0.4/EGRETci/man/EGRETci-package.Rd | 2 EGRETci-2.0.4/EGRETci/man/blockSample.Rd | 24 EGRETci-2.0.4/EGRETci/man/bootAnnual.Rd | 21 EGRETci-2.0.4/EGRETci/man/ciBands.Rd | 12 EGRETci-2.0.4/EGRETci/man/ciCalculations.Rd | 42 + EGRETci-2.0.4/EGRETci/man/example_data.Rd | 1 EGRETci-2.0.4/EGRETci/man/figures |only EGRETci-2.0.4/EGRETci/man/kalman.Rd |only EGRETci-2.0.4/EGRETci/man/makeAnnualPI.Rd |only EGRETci-2.0.4/EGRETci/man/makeDailyPI.Rd |only EGRETci-2.0.4/EGRETci/man/makeMonthPI.Rd |only EGRETci-2.0.4/EGRETci/man/monthSeqToDec.Rd |only EGRETci-2.0.4/EGRETci/man/pVal.Rd | 10 EGRETci-2.0.4/EGRETci/man/plotConcHistBoot.Rd | 36 - EGRETci-2.0.4/EGRETci/man/plotFluxHistBoot.Rd | 39 - EGRETci-2.0.4/EGRETci/man/plotHistogramTrend.Rd | 46 - EGRETci-2.0.4/EGRETci/man/runGroupsBoot.Rd | 33 - EGRETci-2.0.4/EGRETci/man/runPairsBoot.Rd | 33 - EGRETci-2.0.4/EGRETci/man/saveEGRETci.Rd | 8 EGRETci-2.0.4/EGRETci/man/setForBoot.Rd | 25 EGRETci-2.0.4/EGRETci/man/trendSetUp.Rd | 25 EGRETci-2.0.4/EGRETci/man/wBT.Rd | 48 + EGRETci-2.0.4/EGRETci/tests/testthat/tests_boot_tests.R | 21 EGRETci-2.0.4/EGRETci/tests/testthat/tests_kalman.R |only EGRETci-2.0.4/EGRETci/vignettes/EGRETci.Rmd | 15 EGRETci-2.0.4/EGRETci/vignettes/Enhancements.Rmd | 182 ++---- 47 files changed, 1451 insertions(+), 1139 deletions(-)
Title: Colorblind-Friendly Color Maps (Lite Version)
Description: Color maps designed to improve graph readability for readers with
common forms of color blindness and/or color vision deficiency. The color
maps are also perceptually-uniform, both in regular form and also when
converted to black-and-white for printing. This is the 'lite' version of the
'viridis' package that also contains 'ggplot2' bindings for discrete and
continuous color and fill scales and can be found at
<https://cran.r-project.org/package=viridis>.
Author: Simon Garnier [aut, cre],
Noam Ross [ctb, cph],
Bob Rudis [ctb, cph],
Marco Sciaini [ctb, cph],
Antônio Pedro Camargo [ctb, cph],
Cédric Scherer [ctb, cph]
Maintainer: Simon Garnier <garnier@njit.edu>
Diff between viridisLite versions 0.3.0 dated 2018-02-01 and 0.4.0 dated 2021-04-13
viridisLite-0.3.0/viridisLite/data |only viridisLite-0.4.0/viridisLite/DESCRIPTION | 36 +- viridisLite-0.4.0/viridisLite/MD5 | 20 - viridisLite-0.4.0/viridisLite/NAMESPACE | 5 viridisLite-0.4.0/viridisLite/NEWS.md |only viridisLite-0.4.0/viridisLite/R/viridis.R | 152 +++++++---- viridisLite-0.4.0/viridisLite/R/zzz.R |only viridisLite-0.4.0/viridisLite/inst |only viridisLite-0.4.0/viridisLite/man/figures/logo.png |only viridisLite-0.4.0/viridisLite/man/figures/maps.png |only viridisLite-0.4.0/viridisLite/man/figures/viridis-scales.png |binary viridisLite-0.4.0/viridisLite/man/viridis.Rd | 84 +++--- viridisLite-0.4.0/viridisLite/man/viridis.map.Rd | 50 ++- viridisLite-0.4.0/viridisLite/tests/testthat/test-palettes.R | 40 ++ 14 files changed, 255 insertions(+), 132 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Armadillo requires a C++11 compiler.
Author: Dirk Eddelbuettel, Romain Francois, Doug Bates and Binxiang Ni
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 0.10.2.2.0 dated 2021-03-09 and 0.10.4.0.0 dated 2021-04-13
RcppArmadillo-0.10.2.2.0/RcppArmadillo/inst/include/armadillo_bits/fn_syl_lyap.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/ChangeLog | 19 RcppArmadillo-0.10.4.0.0/RcppArmadillo/DESCRIPTION | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/MD5 | 259 +- RcppArmadillo-0.10.4.0.0/RcppArmadillo/build/partial.rdb |binary RcppArmadillo-0.10.4.0.0/RcppArmadillo/build/vignette.rds |binary RcppArmadillo-0.10.4.0.0/RcppArmadillo/configure | 18 RcppArmadillo-0.10.4.0.0/RcppArmadillo/configure.ac | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/NEWS.Rd | 34 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/doc/RcppArmadillo-intro.pdf |binary RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/doc/RcppArmadillo-sparseMatrix.pdf |binary RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/Col_meat.hpp | 50 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/Cube_bones.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/Cube_meat.hpp | 197 +- RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/MapMat_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/Mat_bones.hpp | 16 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/Mat_meat.hpp | 265 +- RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/Proxy.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/Row_meat.hpp | 50 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SizeCube_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SizeMat_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SpCol_meat.hpp | 14 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SpMat_bones.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SpMat_meat.hpp | 182 - RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SpRow_meat.hpp | 14 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SpSubview_col_list_meat.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/SpSubview_meat.hpp | 32 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/arma_config.hpp | 3 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/arma_rng.hpp | 540 ++++- RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/arma_version.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/auxlib_bones.hpp | 105 - RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/auxlib_meat.hpp | 911 +++------- RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/compiler_setup.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/config.hpp | 21 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/config.hpp.cmake |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/debug.hpp | 160 + RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/diagview_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/diskio_bones.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/diskio_meat.hpp | 416 ++++ RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/field_bones.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/field_meat.hpp | 100 - RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_as_scalar.hpp | 16 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_chol.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_det.hpp | 74 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_eig_gen.hpp | 14 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_eig_pair.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_eig_sym.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_eigs_gen.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_eigs_sym.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_expmat.hpp | 7 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_hess.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_inv.hpp | 42 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_log_det.hpp | 90 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_logmat.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_lu.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_mvnrnd.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_norm.hpp | 193 -- RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_orth_null.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_pinv.hpp | 37 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_polyfit.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_powmat.hpp | 59 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_princomp.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_qr.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_qz.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_randg.hpp | 48 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_randn.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_randu.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_rank.hpp | 11 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_reshape.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_roots.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_schur.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_solve.hpp | 30 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_spsolve.hpp | 22 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_sqrtmat.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_svd.hpp | 34 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_svds.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_sylvester.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_trimat_ind.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/fn_wishrnd.hpp | 32 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/glue_conv_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/glue_histc_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/glue_mvnrnd_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/glue_polyfit_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/glue_solve_meat.hpp | 41 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/glue_times_meat.hpp | 16 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/glue_toeplitz_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/gmm_diag_meat.hpp | 28 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/gmm_full_meat.hpp | 28 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/newarp_SparseGenRealShiftSolve_meat.hpp | 5 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_chol_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_cond_meat.hpp | 9 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_det_bones.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_det_meat.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_diagmat_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_diagvec_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_expmat_meat.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_inv_bones.hpp | 32 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_inv_meat.hpp | 283 ++- RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_log_det_bones.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_log_det_meat.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_logmat_meat.hpp | 10 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_norm_bones.hpp | 18 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_norm_meat.hpp | 134 - RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_orth_null_meat.hpp | 28 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_pinv_bones.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_pinv_meat.hpp | 165 - RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_powmat_bones.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_powmat_meat.hpp | 102 - RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_roots_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_shift_meat.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_sqrtmat_meat.hpp | 12 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_toeplitz_meat.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_trimat_meat.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/op_wishrnd_meat.hpp | 6 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/podarray_bones.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/podarray_meat.hpp | 10 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/running_stat_meat.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/running_stat_vec_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/sp_auxlib_meat.hpp | 66 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/spdiagview_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/spop_diagmat_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/spop_misc_meat.hpp | 2 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/spop_norm_bones.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/spop_norm_meat.hpp |only RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/spop_trimat_meat.hpp | 4 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_cube_each_meat.hpp | 22 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_cube_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_cube_slices_meat.hpp | 16 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_each_meat.hpp | 44 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_elem1_meat.hpp | 52 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_elem2_meat.hpp | 42 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_field_meat.hpp | 8 RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/subview_meat.hpp | 108 - RcppArmadillo-0.10.4.0.0/RcppArmadillo/inst/include/armadillo_bits/sympd_helper.hpp | 19 135 files changed, 3180 insertions(+), 2585 deletions(-)
Title: Nuclear Decay Data for Dosimetric Calculations - ICRP 107
Description: Nuclear Decay Data for Dosimetric Calculations from the
International Commission on Radiological Protection from ICRP
Publication 107. Ann. ICRP 38 (3). Eckerman, Keith and Endo, Akira 2008
<doi:10.1016/j.icrp.2008.10.004>
<https://www.icrp.org/publication.asp?id=ICRP%20Publication%20107>.
This is a database of the physical data needed in calculations of
radionuclide-specific protection and operational quantities. The
data is prescribed by the ICRP, the international authority on
radiation dose standards, for estimating dose from the intake of or
exposure to radionuclides in the workplace and the environment.
The database contains information on the half-lives, decay chains,
and yields and energies of radiations emitted in nuclear transformations
of 1252 radionuclides of 97 elements.
Author: Mark Hogue [aut, cre],
KF Eckerman [dtc, cph],
A Endo [dtc, cph]
Maintainer: Mark Hogue <mark.hogue.chp@gmail.com>
Diff between RadData versions 1.0.0 dated 2019-04-05 and 1.0.1 dated 2021-04-13
RadData-1.0.0/RadData/data/datalist |only RadData-1.0.1/RadData/DESCRIPTION | 13 +++++++------ RadData-1.0.1/RadData/MD5 | 19 ++++++++++--------- RadData-1.0.1/RadData/NEWS.md |only RadData-1.0.1/RadData/R/data.R | 2 +- RadData-1.0.1/RadData/README.md | 4 ++-- RadData-1.0.1/RadData/data/ICRP_07.NDX.rda |binary RadData-1.0.1/RadData/man/ICRP_07.BET.Rd | 6 ++++-- RadData-1.0.1/RadData/man/ICRP_07.NDX.Rd | 8 +++++--- RadData-1.0.1/RadData/man/ICRP_07.RAD.Rd | 6 ++++-- RadData-1.0.1/RadData/man/figures |only RadData-1.0.1/RadData/man/rad_codes.Rd | 6 ++++-- 12 files changed, 37 insertions(+), 27 deletions(-)
More information about promotionImpact at CRAN
Permanent link
Title: Modules to Import and Manipulate Data in 'Shiny'
Description: 'Shiny' modules to import data into an application or 'addin'
from various sources, and to manipulate them after that.
Author: Victor Perrier [aut, cre, cph],
Fanny Meyer [aut],
Zauad Shahreer Abeer [aut]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between datamods versions 1.1.2 dated 2021-03-27 and 1.1.3 dated 2021-04-13
DESCRIPTION | 6 MD5 | 62 - NAMESPACE | 218 +++--- NEWS.md | 35 R/doc.R | 46 - R/filter-data.R | 1082 +++++++++++++++--------------- R/import-copypaste.R | 300 ++++---- R/import-file.R | 518 +++++++------- R/import-googlesheets.R | 398 +++++------ R/import-modal.R | 788 +++++++++++----------- R/update-variables.R | 1298 ++++++++++++++++++------------------- R/utils-shiny.R | 356 +++++----- R/utils.R | 6 R/validation.R | 610 ++++++++--------- R/zzz.R | 4 inst/doc/i18n.Rmd | 194 ++--- inst/extdata/mtcars.csv | 66 - inst/i18n/fr.csv | 118 +-- man/filter-data.Rd | 372 +++++----- man/get_data_packages.Rd | 34 man/import-copypaste.Rd | 164 ++-- man/import-file.Rd | 166 ++-- man/import-globalenv.Rd | 220 +++--- man/import-googlesheets.Rd | 164 ++-- man/import-modal.Rd | 206 ++--- man/list_pkg_data.Rd | 42 - man/show_data.Rd | 144 ++-- man/update-variables.Rd | 178 ++--- tests/testthat.R | 8 tests/testthat/test-filter-data.R | 284 ++++---- tests/testthat/test-import-modal.R | 32 vignettes/i18n.Rmd | 194 ++--- 32 files changed, 4161 insertions(+), 4152 deletions(-)
Title: API Wrapper for 'Ipeadata'
Description: Allows direct access to the macroeconomic,
financial and regional database maintained by
Brazilian Institute for Applied Economic Research ('Ipea').
This R package uses the 'Ipeadata' API. For more information,
see <http://www.ipeadata.gov.br/>.
Author: Luiz Eduardo S. Gomes [aut, cre],
Jessyka A. P. Goltara [ctb]
Maintainer: Luiz Eduardo S. Gomes <gomes.leduardo@gmail.com>
Diff between ipeadatar versions 0.1.1 dated 2020-05-14 and 0.1.2 dated 2021-04-13
DESCRIPTION | 16 ++++++++-------- MD5 | 6 +++--- R/ipeadata_pkg.R | 7 +++++-- man/available_subjects.Rd | 3 +++ 4 files changed, 19 insertions(+), 13 deletions(-)
Title: Converting Transport Data from GTFS Format to GPS-Like Records
Description: Convert general transit feed specification (GTFS) data to global positioning system (GPS) records in 'data.table' format. It also has some functions to subset GTFS data in time and space and to convert both representations to simple feature format.
Author: Rafael H. M. Pereira [aut] (<https://orcid.org/0000-0003-2125-7465>),
Pedro R. Andrade [aut, cre] (<https://orcid.org/0000-0001-8675-4046>),
Joao Bazzo [aut] (<https://orcid.org/0000-0003-4536-5006>),
Marcin Stepniak [ctb],
Marcus Saraiva [ctb] (<https://orcid.org/0000-0001-6218-2338>),
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Pedro R. Andrade <pedro.andrade@inpe.br>
Diff between gtfs2gps versions 1.4-0 dated 2021-03-29 and 1.4-1 dated 2021-04-13
gtfs2gps-1.4-0/gtfs2gps/NEWS.md |only gtfs2gps-1.4-0/gtfs2gps/inst/extdata/berlin.zip |only gtfs2gps-1.4-0/gtfs2gps/man/figures/gtfs2gps_hex.png |only gtfs2gps-1.4-0/gtfs2gps/man/filter_by_day.Rd |only gtfs2gps-1.4-0/gtfs2gps/man/remove_by_route_id.Rd |only gtfs2gps-1.4-0/gtfs2gps/vignettes/sao_small-DESKTOP-V07AVEN.zip |only gtfs2gps-1.4-1/gtfs2gps/DESCRIPTION | 8 gtfs2gps-1.4-1/gtfs2gps/MD5 | 70 +- gtfs2gps-1.4-1/gtfs2gps/NAMESPACE | 2 gtfs2gps-1.4-1/gtfs2gps/R/RcppExports.R | 6 gtfs2gps-1.4-1/gtfs2gps/R/filter_gtfs.R | 100 ---- gtfs2gps-1.4-1/gtfs2gps/R/gps_as_sflinestring.R | 45 - gtfs2gps-1.4-1/gtfs2gps/R/gtfs2gps.R | 187 +++---- gtfs2gps-1.4-1/gtfs2gps/R/gtfs_as_sf.R | 3 gtfs2gps-1.4-1/gtfs2gps/R/merge_gtfs_feeds.R | 16 gtfs2gps-1.4-1/gtfs2gps/R/mod_updates.R | 27 - gtfs2gps-1.4-1/gtfs2gps/R/read_gtfs.R | 3 gtfs2gps-1.4-1/gtfs2gps/R/write_gtfs.R | 10 gtfs2gps-1.4-1/gtfs2gps/R/zzz.R | 6 gtfs2gps-1.4-1/gtfs2gps/inst/doc/intro_to_gtfs2gps.R | 4 gtfs2gps-1.4-1/gtfs2gps/inst/doc/intro_to_gtfs2gps.Rmd | 4 gtfs2gps-1.4-1/gtfs2gps/inst/doc/intro_to_gtfs2gps.html | 236 +--------- gtfs2gps-1.4-1/gtfs2gps/inst/extdata/saopaulo.zip |binary gtfs2gps-1.4-1/gtfs2gps/man/cpp_snap_points.Rd | 5 gtfs2gps-1.4-1/gtfs2gps/man/filter_by_route_id.Rd | 5 gtfs2gps-1.4-1/gtfs2gps/man/filter_week_days.Rd | 3 gtfs2gps-1.4-1/gtfs2gps/man/gtfs2gps.Rd | 40 - gtfs2gps-1.4-1/gtfs2gps/man/merge_gtfs_feeds.Rd | 2 gtfs2gps-1.4-1/gtfs2gps/src/RcppExports.cpp | 9 gtfs2gps-1.4-1/gtfs2gps/src/snap_points.cpp | 60 +- gtfs2gps-1.4-1/gtfs2gps/tests/testthat/test_filter_gtfs.R | 39 - gtfs2gps-1.4-1/gtfs2gps/tests/testthat/test_gps_as_sflinestring.R | 5 gtfs2gps-1.4-1/gtfs2gps/tests/testthat/test_gtfs2gps.R | 62 -- gtfs2gps-1.4-1/gtfs2gps/tests/testthat/test_merge_gtfs_feeds.R | 13 gtfs2gps-1.4-1/gtfs2gps/tests/testthat/test_snap_points.R | 10 gtfs2gps-1.4-1/gtfs2gps/tests/testthat/test_write_gtfs.R | 4 gtfs2gps-1.4-1/gtfs2gps/vignettes/intro_to_gtfs2gps.Rmd | 4 gtfs2gps-1.4-1/gtfs2gps/vignettes/intro_to_gtfs2gps_files/figure-gfm/unnamed-chunk-6-1.png |binary gtfs2gps-1.4-1/gtfs2gps/vignettes/intro_to_gtfs2gps_files/figure-gfm/unnamed-chunk-7-1.png |binary 39 files changed, 299 insertions(+), 689 deletions(-)
Title: Exploring 'COVID'-19 Statistics
Description: Provides easy-to-use programming API to access real time and historical data of 'COVID'-19 cases, vaccine and therapeutics data, and a Shiny app to help users exploring the data. Fetching data using API provided by <https://disease.sh> .
Author: Guangchuang Yu [cre, aut, cph]
(<https://orcid.org/0000-0002-6485-8781>),
Tianzhi Wu [aut],
Erqiang Hu [ctb],
Patrick Tung [ctb],
Xijin Ge [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between nCov2019 versions 0.4.3 dated 2021-04-08 and 0.4.4 dated 2021-04-13
DESCRIPTION | 6 ++--- MD5 | 12 +++++++---- R/query.R | 28 ++++++++++++++++++++++---- inst/doc/nCov2019.html | 46 +++++++++++++++++++++---------------------- inst/shinyapp/app.R | 31 ++++++++++++++++------------ man/get_global_data.Rd |only man/get_history_data.Rd |only man/get_therapeutics_data.Rd |only man/get_vaccine_data.Rd |only 9 files changed, 76 insertions(+), 47 deletions(-)
Title: Shiny App. Idiograms with Marks and Karyotype Indices
Description: Plot idiograms of karyotypes, plasmids, circular chr. having a set of data.frames for chromosome data and optionally mark data. Two styles of chromosomes can be used: without or with visible chromatids (when not circular). Supports micrometers, cM and Mb or any unit. Three styles of centromeres are available: triangular, rounded and inProtein; and six styles of marks are available: square (squareLeft), dots, cM (cMLeft), cenStyle, upArrow (downArrow), exProtein (inProtein); its legend (label) can be drawn inline or to the right of karyotypes. Idiograms can also be plotted in concentric circles. It is possible to calculate chromosome indices by Levan et al. (1964) <doi:10.1111/j.1601-5223.1964.tb01953.x>, karyotype indices of Watanabe et al. (1999) <doi:10.1007/PL00013869> and Romero-Zarco (1986) <doi:10.2307/1221906> and classify chromosomes by morphology Guerra (1986) and Levan et al. (1964).
Author: Fernando Roa [aut, cre],
Mariana PC Telles [ctb]
Maintainer: Fernando Roa <froao@unal.edu.co>
Diff between idiogramFISH versions 2.0.2 dated 2021-03-04 and 2.0.3 dated 2021-04-13
idiogramFISH-2.0.2/idiogramFISH/inst/shinyApps/iBoard/local.R |only idiogramFISH-2.0.2/idiogramFISH/inst/shinyApps/iBoard/www/README2.html |only idiogramFISH-2.0.2/idiogramFISH/inst/shinyApps/iBoard/www/README2.md |only idiogramFISH-2.0.3/idiogramFISH/DESCRIPTION | 10 idiogramFISH-2.0.3/idiogramFISH/MD5 | 102 idiogramFISH-2.0.3/idiogramFISH/NEWS.md | 12 idiogramFISH-2.0.3/idiogramFISH/R/genBankReadIF.R | 118 idiogramFISH-2.0.3/idiogramFISH/R/makedfMarkColor.R | 7 idiogramFISH-2.0.3/idiogramFISH/R/makedfMarkColorMycolors.R | 1 idiogramFISH-2.0.3/idiogramFISH/R/namesToColumns.R | 9 idiogramFISH-2.0.3/idiogramFISH/R/plotIdiograms.R | 105 idiogramFISH-2.0.3/idiogramFISH/R/runBoard.R | 23 idiogramFISH-2.0.3/idiogramFISH/README.md | 48 idiogramFISH-2.0.3/idiogramFISH/build/vignette.rds |binary idiogramFISH-2.0.3/idiogramFISH/inst/doc/AVignette.R | 48 idiogramFISH-2.0.3/idiogramFISH/inst/doc/AVignette.Rmd | 48 idiogramFISH-2.0.3/idiogramFISH/inst/doc/index.R | 2 idiogramFISH-2.0.3/idiogramFISH/inst/doc/index.Rmd | 6 idiogramFISH-2.0.3/idiogramFISH/inst/doc/index.html | 31 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/memory.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/obserColumnMod.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/obserDataframes.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/obserNuccore.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/obserPlot.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/obserPosButtons.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/obserPresets.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/obserSwap.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputDataframes.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputLogCode.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputMenu.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputNuccore.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputPanels.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputPlot.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputTabs.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/outputTabsetpanels.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/presetVals.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/reactiveV.R |only idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/server.R | 2258 ---------- idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/ui.R | 187 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/DESCRIPTION | 9 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/README2.Rmd | 13 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/cranmanualbookdown.svg | 2 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/cranversion.svg | 4 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/develmanualvignette.svg | 2 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/gitbadge.svg | 2 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/man/figures/pkgdownver.svg | 2 idiogramFISH-2.0.3/idiogramFISH/inst/shinyApps/iBoard/www/mystyle.css |only idiogramFISH-2.0.3/idiogramFISH/man/citrusSize.Rd | 128 idiogramFISH-2.0.3/idiogramFISH/man/figures/README-example-1.png |binary idiogramFISH-2.0.3/idiogramFISH/man/figures/README-example2-1.png |binary idiogramFISH-2.0.3/idiogramFISH/man/figures/README-unnamed-chunk-18-1.png |binary idiogramFISH-2.0.3/idiogramFISH/man/figures/README-unnamed-chunk-19-1.png |binary idiogramFISH-2.0.3/idiogramFISH/man/figures/circular.png |binary idiogramFISH-2.0.3/idiogramFISH/man/figures/cranmanualbookdown.svg | 2 idiogramFISH-2.0.3/idiogramFISH/man/figures/cranversion.svg | 4 idiogramFISH-2.0.3/idiogramFISH/man/figures/gitbadge.svg | 2 idiogramFISH-2.0.3/idiogramFISH/man/figures/manual.svg | 2 idiogramFISH-2.0.3/idiogramFISH/man/figures/shiny.jpg |binary idiogramFISH-2.0.3/idiogramFISH/man/genBankReadIF.Rd | 4 idiogramFISH-2.0.3/idiogramFISH/man/namesToColumns.Rd | 21 idiogramFISH-2.0.3/idiogramFISH/man/plotIdiograms.Rd | 236 - idiogramFISH-2.0.3/idiogramFISH/vignettes/AVignette.Rmd | 48 idiogramFISH-2.0.3/idiogramFISH/vignettes/index.Rmd | 6 63 files changed, 635 insertions(+), 2867 deletions(-)
Title: 'AWS' Java 'SDK' for R
Description: Make the compiled Java modules of the Amazon Web Services ('AWS') 'SDK' available to be used in downstream R packages interacting with 'AWS'. See <https://aws.amazon.com/sdk-for-java> for more information on the 'AWS' 'SDK' for Java.
Author: Gergely Daroczi <daroczig@rapporter.net>
Maintainer: Gergely Daroczi <daroczig@rapporter.net>
Diff between AWR versions 1.11.189 dated 2017-09-07 and 1.11.189-1 dated 2021-04-13
AWR-1.11.189-1/AWR/DESCRIPTION | 17 ++++--- AWR-1.11.189-1/AWR/MD5 | 14 +++-- AWR-1.11.189-1/AWR/NAMESPACE | 9 ++- AWR-1.11.189-1/AWR/R/check.R |only AWR-1.11.189-1/AWR/R/zzz.R | 73 ++++++------------------------ AWR-1.11.189-1/AWR/README.md | 99 +++++++++++++++++++++++++++++++++++------ AWR-1.11.189-1/AWR/man |only AWR-1.11.189/AWR/java |only 8 files changed, 126 insertions(+), 86 deletions(-)
Title: Data Sets for Keith McNulty's Handbook of Regression Modeling in
People Analytics
Description: Data sets for statistical inference modeling related to People Analytics.
Contains various data sets from the book 'Handbook of Regression Modeling in People Analytics'
by Keith McNulty (2020).
Author: Keith McNulty [aut, cre] (<https://orcid.org/0000-0002-2332-1654>)
Maintainer: Keith McNulty <keith.mcnulty@gmail.com>
Diff between peopleanalyticsdata versions 0.2.0 dated 2021-02-16 and 0.2.1 dated 2021-04-13
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 6 +++++- R/data-health_insurance.R | 8 ++++---- data/charity_donation.rda |binary data/health_insurance.rda |binary man/health_insurance.Rd | 8 ++++---- 7 files changed, 22 insertions(+), 18 deletions(-)
More information about peopleanalyticsdata at CRAN
Permanent link
Title: Download Map Data from GISCO API - Eurostat
Description: Tools to download data from the GISCO
(Geographic Information System of the Commission) Eurostat database
<https://ec.europa.eu/eurostat/web/gisco>. Global and European map data available.
This package is in no way officially related to or endorsed by Eurostat.
Author: Diego Hernangómez [aut, cre, cph]
(<https://orcid.org/0000-0001-8457-4658>),
EuroGeographics [cph] (for the administrative boundaries.),
Vincent Arel-Bundock [cph] (<https://orcid.org/0000-0003-2042-7063>,
for the gisco_countrycode dataset.)
Maintainer: Diego Hernangómez <diego.hernangomezherrero@gmail.com>
Diff between giscoR versions 0.2.2 dated 2020-11-23 and 0.2.4 dated 2021-04-13
giscoR-0.2.2/giscoR/inst/tinytest/test_download.R |only giscoR-0.2.2/giscoR/inst/tinytest/test_gisco_get_healthcare.R |only giscoR-0.2.2/giscoR/man/figures/README-example-1.png |only giscoR-0.2.2/giscoR/man/figures/README-example-2.png |only giscoR-0.2.4/giscoR/DESCRIPTION | 16 giscoR-0.2.4/giscoR/MD5 | 97 +- giscoR-0.2.4/giscoR/NEWS.md | 14 giscoR-0.2.4/giscoR/R/giscoR-package.R | 62 - giscoR-0.2.4/giscoR/R/gisco_attributions.R | 65 - giscoR-0.2.4/giscoR/R/gisco_bulk_download.R | 104 +- giscoR-0.2.4/giscoR/R/gisco_data.R | 276 +++--- giscoR-0.2.4/giscoR/R/gisco_get.R | 433 +++++----- giscoR-0.2.4/giscoR/R/gisco_get_airports.R | 53 - giscoR-0.2.4/giscoR/R/gisco_get_grid.R | 83 + giscoR-0.2.4/giscoR/R/gisco_get_healthcare.R | 61 - giscoR-0.2.4/giscoR/R/gisco_get_units.R | 175 ++-- giscoR-0.2.4/giscoR/R/utils_downloads.R | 281 +++--- giscoR-0.2.4/giscoR/R/utils_names.R | 57 - giscoR-0.2.4/giscoR/README.md | 186 +++- giscoR-0.2.4/giscoR/build |only giscoR-0.2.4/giscoR/data/gisco_countrycode.rda |binary giscoR-0.2.4/giscoR/inst/CITATION | 12 giscoR-0.2.4/giscoR/inst/doc |only giscoR-0.2.4/giscoR/inst/pkgdown |only giscoR-0.2.4/giscoR/inst/schemaorg.json |only giscoR-0.2.4/giscoR/inst/tinytest/test_1_apidownloads.R |only giscoR-0.2.4/giscoR/inst/tinytest/test_download_utils.R |only giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_attributions.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_bulk_download.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_airports.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_coastallines.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_communes.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_countries.R | 4 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_grid.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_lau.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_nuts.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_units.R | 2 giscoR-0.2.4/giscoR/inst/tinytest/test_gisco_get_urban_audit.R | 2 giscoR-0.2.4/giscoR/man/giscoR-package.Rd | 41 giscoR-0.2.4/giscoR/man/gisco_attributions.Rd | 42 giscoR-0.2.4/giscoR/man/gisco_bulk_download.Rd | 52 - giscoR-0.2.4/giscoR/man/gisco_check_access.Rd | 6 giscoR-0.2.4/giscoR/man/gisco_coastallines.Rd | 52 - giscoR-0.2.4/giscoR/man/gisco_countries.Rd | 29 giscoR-0.2.4/giscoR/man/gisco_countrycode.Rd | 52 - giscoR-0.2.4/giscoR/man/gisco_db.Rd | 2 giscoR-0.2.4/giscoR/man/gisco_get.Rd | 191 ++-- giscoR-0.2.4/giscoR/man/gisco_get_airports.Rd | 23 giscoR-0.2.4/giscoR/man/gisco_get_grid.Rd | 39 giscoR-0.2.4/giscoR/man/gisco_get_healthcare.Rd | 25 giscoR-0.2.4/giscoR/man/gisco_get_units.Rd | 117 +- giscoR-0.2.4/giscoR/man/gisco_nuts.Rd | 37 giscoR-0.2.4/giscoR/man/tgs00026.Rd | 20 giscoR-0.2.4/giscoR/vignettes |only 54 files changed, 1623 insertions(+), 1104 deletions(-)
Title: API Client for the 'ClimMob' Platform
Description: API client for 'ClimMob', an open source software for experimental
crowdsourcing citizen science under the 'tricot' approach <https://climmob.net/>.
Developed by van Etten et al. (2019) <doi:10.1017/S0014479716000739>, it turns the
research paradigm on its head; instead of a few researchers designing complicated
trials to compare several technologies in search of the best solutions for the
target environment, it enables many participants to carry out reasonably simple
experiments that taken together can offer even more information.
'ClimMobTools' enables project managers to deep explore and analyse their
'ClimMob' data in R.
Author: Kauê de Sousa [aut, cre] (<https://orcid.org/0000-0002-7571-7845>),
Jacob van Etten [aut] (<https://orcid.org/0000-0001-7554-2558>),
Brandon Madriz [ctb] (API Client implementation)
Maintainer: Kauê de Sousa <kaue.desousa@inn.no>
Diff between ClimMobTools versions 0.3.7 dated 2021-03-23 and 0.3.9 dated 2021-04-13
DESCRIPTION | 21 ++++++------ MD5 | 28 +++++++++------- NAMESPACE | 1 NEWS.md | 14 +++++++- R/AAA-getDataCM.R | 22 ++++++------- R/ClimMobTools.R | 2 + R/getProjectProgress.R |only R/getProjectsCM.R | 76 ++++++++++++++++++++++++++++++++++++---------- inst/doc/Overview.R | 9 ++--- inst/doc/Overview.Rmd | 13 +++---- inst/doc/Overview.html | 13 +++---- man/ClimMobTools.Rd | 15 +++++---- man/getDataCM.Rd | 15 ++++++--- man/getProjectProgress.Rd |only man/getProjectsCM.Rd | 23 ++++++++++--- vignettes/Overview.Rmd | 13 +++---- 16 files changed, 172 insertions(+), 93 deletions(-)
Title: Database Interface and 'MariaDB' Driver
Description: Implements a 'DBI'-compliant interface to 'MariaDB'
(<https://mariadb.org/>) and 'MySQL' (<https://www.mysql.com/>)
databases.
Author: Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
Jeroen Ooms [aut] (<https://orcid.org/0000-0002-4035-0289>),
David James [aut],
Saikat DebRoy [aut],
Hadley Wickham [aut],
Jeffrey Horner [aut],
R Consortium [fnd],
RStudio [cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between RMariaDB versions 1.1.0 dated 2021-01-07 and 1.1.1 dated 2021-04-13
RMariaDB-1.1.0/RMariaDB/src/workarounds |only RMariaDB-1.1.1/RMariaDB/DESCRIPTION | 8 RMariaDB-1.1.1/RMariaDB/MD5 | 293 +++++++++++++++++- RMariaDB-1.1.1/RMariaDB/NEWS.md | 35 +- RMariaDB-1.1.1/RMariaDB/src/Makevars.in | 2 RMariaDB-1.1.1/RMariaDB/src/Makevars.win | 2 RMariaDB-1.1.1/RMariaDB/src/MariaRow.cpp | 10 RMariaDB-1.1.1/RMariaDB/src/MariaRow.h | 1 RMariaDB-1.1.1/RMariaDB/src/result.cpp | 1 RMariaDB-1.1.1/RMariaDB/src/vendor |only RMariaDB-1.1.1/RMariaDB/tests/testthat/test-queries.R | 12 11 files changed, 339 insertions(+), 25 deletions(-)
Title: Coloured Formatting for Columns
Description: Provides 'pillar' and 'colonnade' generics designed
for formatting columns of data using the full range of colours
provided by modern terminals.
Author: Kirill Müller [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between pillar versions 1.5.1 dated 2021-03-05 and 1.6.0 dated 2021-04-13
DESCRIPTION | 13 MD5 | 242 ++++++++------- NAMESPACE | 68 ++++ NEWS.md | 38 ++ R/char.R |only R/ctl_colonnade.R | 57 ++- R/ctl_compound.R | 8 R/ctl_new_pillar.R | 3 R/ctl_pillar.R | 5 R/ctl_pillar_component.R | 2 R/deprecated.R | 6 R/dim.R | 2 R/empty-data.R | 12 R/extent.R | 13 R/glimpse.R | 4 R/multi.R | 22 - R/num.R |only R/ornament.R | 8 R/pillar-package.R | 2 R/scientific.R | 36 +- R/shaft-.R | 119 +++++-- R/shaft-simple.R | 17 - R/sigfig.R | 203 ++++++++++-- R/styles.R | 7 R/tbl-format-header.R | 22 - R/tbl-format-setup.R | 13 R/tbl-format.R | 2 R/tbl.R | 2 R/type-sum.R | 15 R/type.R | 34 +- R/utils.R | 52 ++- R/vctr.R |only R/vctrs.R | 11 R/zzz.R | 31 + build/vignette.rds |binary inst/WORDLIST | 35 +- inst/doc/debugme.html | 9 inst/doc/digits.R |only inst/doc/digits.Rmd |only inst/doc/digits.html |only inst/doc/extending.R | 2 inst/doc/extending.Rmd | 6 inst/doc/extending.html | 38 +- inst/doc/numbers.R |only inst/doc/numbers.Rmd |only inst/doc/numbers.html |only inst/doc/printing.R | 20 - inst/doc/printing.Rmd | 2 inst/doc/printing.html | 53 +-- man/align.Rd | 4 man/char.Rd |only man/ctl_new_pillar.Rd | 3 man/deprecated.Rd | 2 man/format_type_sum.Rd | 24 - man/new_pillar.Rd | 6 man/new_pillar_shaft.Rd | 11 man/num.Rd |only man/pillar-package.Rd | 2 man/pillar_shaft.Rd | 16 - man/type_sum.Rd | 2 tests/testthat/_snaps/ctl_colonnade.md | 427 ++++++++++++++++++++------- tests/testthat/_snaps/ctl_colonnade_1.md | 266 ++++++++-------- tests/testthat/_snaps/ctl_colonnade_2.md | 282 ++++++++--------- tests/testthat/_snaps/ctl_new_pillar.md | 5 tests/testthat/_snaps/format_asis.md | 3 tests/testthat/_snaps/format_character.md | 44 -- tests/testthat/_snaps/format_decimal.md | 31 - tests/testthat/_snaps/format_factor.md | 6 tests/testthat/_snaps/format_integer.md | 9 tests/testthat/_snaps/format_integer64.md | 78 ++-- tests/testthat/_snaps/format_list.md | 9 tests/testthat/_snaps/format_lubridate.md | 2 tests/testthat/_snaps/format_multi.md | 220 ------------- tests/testthat/_snaps/format_multi_fuzz.md | 190 +++--------- tests/testthat/_snaps/format_multi_fuzz_2.md | 207 +++---------- tests/testthat/_snaps/format_numeric.md | 44 +- tests/testthat/_snaps/format_rowid.md | 3 tests/testthat/_snaps/format_scientific.md | 41 +- tests/testthat/_snaps/format_time.md | 3 tests/testthat/_snaps/glimpse.md | 10 tests/testthat/_snaps/num.md |only tests/testthat/_snaps/ornament.md | 12 tests/testthat/_snaps/tbl-format-body.md | 10 tests/testthat/_snaps/title.md | 15 tests/testthat/_snaps/type_sum.md | 21 - tests/testthat/_snaps/vctr.md |only tests/testthat/helper-foo-tbl.R | 11 tests/testthat/helper-methods.R |only tests/testthat/helper-output.R | 2 tests/testthat/helper-size-sum.R |only tests/testthat/helper-tbl-sum.R |only tests/testthat/helper-type-sum.R | 62 +-- tests/testthat/helper-unknown-rows.R | 27 + tests/testthat/test-ctl_colonnade.R | 100 +++--- tests/testthat/test-ctl_colonnade_1.R | 30 - tests/testthat/test-ctl_colonnade_2.R | 30 - tests/testthat/test-ctl_new_pillar.R | 6 tests/testthat/test-distribute.R | 3 tests/testthat/test-format_asis.R | 6 tests/testthat/test-format_character.R | 38 +- tests/testthat/test-format_date.R | 4 tests/testthat/test-format_decimal.R | 48 +-- tests/testthat/test-format_factor.R | 8 tests/testthat/test-format_integer.R | 10 tests/testthat/test-format_integer64.R | 20 - tests/testthat/test-format_list.R | 10 tests/testthat/test-format_list_of.R | 10 tests/testthat/test-format_logical.R | 4 tests/testthat/test-format_lubridate.R | 6 tests/testthat/test-format_multi.R | 194 +++++++----- tests/testthat/test-format_multi_fuzz.R | 30 - tests/testthat/test-format_multi_fuzz_2.R | 30 - tests/testthat/test-format_numeric.R | 18 - tests/testthat/test-format_rowid.R | 6 tests/testthat/test-format_scientific.R | 23 - tests/testthat/test-format_survival.R | 8 tests/testthat/test-format_time.R | 14 tests/testthat/test-glimpse.R | 11 tests/testthat/test-num.R |only tests/testthat/test-obj-sum.R | 2 tests/testthat/test-ornament.R | 16 - tests/testthat/test-tbl-format-header.R | 3 tests/testthat/test-tbl-format-setup.R | 2 tests/testthat/test-tbl-format.R | 27 + tests/testthat/test-title.R | 14 tests/testthat/test-type_sum.R | 19 - tests/testthat/test-vctr.R |only tests/testthat/test-zzx-format_character.R | 4 vignettes/digits.Rmd |only vignettes/extending.Rmd | 6 vignettes/numbers.Rmd |only vignettes/printing.Rmd | 2 132 files changed, 2153 insertions(+), 1953 deletions(-)
Title: Calculation of Covariance Between Markers for Half-Sib Families
Description: The theoretical covariance between pairs of markers is calculated
from either paternal haplotypes and maternal linkage disequilibrium (LD) or
vise versa. A genetic map is required. Grouping of markers is based on the
correlation matrix and a representative marker is suggested for each group.
Employing the correlation matrix, optimal sample size can be derived for
association studies based on a SNP-BLUP approach.
The implementation relies on paternal half-sib families and biallelic
markers. If maternal half-sib families are used, the roles of sire/dam are
swapped. Multiple families can be considered.
Wittenburg, Bonk, Doschoris, Reyer (2020) "Design of Experiments for
Fine-Mapping Quantitative Trait Loci in Livestock Populations"
<doi:10.1186/s12863-020-00871-1>.
Carlson, Eberle, Rieder, Yi, Kruglyak, Nickerson (2004) "Selecting a
maximally informative set of single-nucleotide polymorphisms for association
analyses using linkage disequilibrium" <doi:10.1086/381000>.
Author: Dörte Wittenburg [aut, cre],
Michael Doschoris [aut],
Jan Klosa [ctb]
Maintainer: Dörte Wittenburg <wittenburg@fbn-dummerstorf.de>
Diff between hscovar versions 0.4.0 dated 2020-08-06 and 0.4.2 dated 2021-04-13
DESCRIPTION | 14 ++++++------ MD5 | 33 ++++++++++++++-------------- NEWS.md | 4 +++ R/covmat.R | 60 ++++++++++++++++++++++++++-------------------------- R/functions.R | 18 +++++++++------ R/powercalc.R | 14 ++++++------ R/tagSNP.R | 8 +++++- R/testdata.R | 5 +--- build |only man/CovMat.Rd | 43 ++++++++++++++++++------------------- man/H.sire.Rd | 4 ++- man/matLD.Rd | 4 ++- man/pos.chr.Rd | 4 ++- man/pwr.normtest.Rd | 6 ++--- man/pwr.snpblup.Rd | 6 ++--- man/simpleM.Rd | 2 - man/tagSNP.Rd | 8 +++++- man/testdata.Rd | 5 +--- 18 files changed, 130 insertions(+), 108 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-13 0.1.8
Title: Light Gradient Boosting Machine
Description: Tree based algorithms can be improved by introducing boosting frameworks.
'LightGBM' is one such framework, based on Ke, Guolin et al. (2017) <https://papers.nips.cc/paper/6907-lightgbm-a-highly-efficient-gradient-boosting-decision>.
This package offers an R interface to work with it.
It is designed to be distributed and efficient with the following advantages:
1. Faster training speed and higher efficiency.
2. Lower memory usage.
3. Better accuracy.
4. Parallel learning supported.
5. Capable of handling large-scale data.
In recognition of these advantages, 'LightGBM' has been widely-used in many winning solutions of machine learning competitions.
Comparison experiments on public datasets suggest that 'LightGBM' can outperform existing boosting frameworks on both efficiency and accuracy, with significantly lower memory consumption. In addition, parallel experiments suggest that in certain circumstances, 'LightGBM' can achieve a linear speed-up in training time by using multiple machines.
Author: Guolin Ke [aut, cre],
Damien Soukhavong [aut],
James Lamb [aut],
Qi Meng [aut],
Thomas Finley [aut],
Taifeng Wang [aut],
Wei Chen [aut],
Weidong Ma [aut],
Qiwei Ye [aut],
Tie-Yan Liu [aut],
Yachen Yan [ctb],
Microsoft Corporation [cph],
Dropbox, Inc. [cph],
Jay Loden [cph],
Dave Daeschler [cph],
Giampaolo Rodola [cph],
Alberto Ferreira [ctb],
Daniel Lemire [ctb],
Victor Zverovich [cph],
IBM Corporation [ctb]
Maintainer: Guolin Ke <guolin.ke@microsoft.com>
Diff between lightgbm versions 3.2.0 dated 2021-03-22 and 3.2.1 dated 2021-04-13
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- README.md | 10 +++++----- configure | 18 +++++++++--------- configure.ac | 2 +- src/include/LightGBM/config.h | 2 +- src/include/LightGBM/utils/chunked_array.hpp | 2 +- src/network/socket_wrapper.hpp | 2 +- src/treelearner/linear_tree_learner.cpp | 2 +- src/treelearner/serial_tree_learner.cpp | 9 +++++---- src/treelearner/serial_tree_learner.h | 2 +- tests/testthat/test_basic.R | 9 +++++++-- 12 files changed, 47 insertions(+), 41 deletions(-)
Title: API Client for Fantasy Football League Platforms
Description: Helps access various Fantasy Football APIs by handling
authentication and rate-limiting, forming appropriate calls, and
returning tidy dataframes which can be easily connected to other data
sources.
Author: Tan Ho [aut, cre],
Tony ElHabr [ctb],
Joe Sydlowski [ctb]
Maintainer: Tan Ho <tan@tanho.ca>
Diff between ffscrapr versions 1.3.0 dated 2021-03-07 and 1.4.0 dated 2021-04-13
ffscrapr-1.3.0/ffscrapr/R/dp_import.R |only ffscrapr-1.3.0/ffscrapr/man/figures/logo-no-gradient.png |only ffscrapr-1.3.0/ffscrapr/man/figures/logo-no-hexfill.png |only ffscrapr-1.3.0/ffscrapr/tests/testthat/test-dp_import.R |only ffscrapr-1.4.0/ffscrapr/DESCRIPTION | 49 - ffscrapr-1.4.0/ffscrapr/MD5 | 162 +++-- ffscrapr-1.4.0/ffscrapr/NAMESPACE | 14 ffscrapr-1.4.0/ffscrapr/NEWS.md | 25 ffscrapr-1.4.0/ffscrapr/R/0_cache.R | 6 ffscrapr-1.4.0/ffscrapr/R/0_generics.R | 52 + ffscrapr-1.4.0/ffscrapr/R/1_import_dp.R |only ffscrapr-1.4.0/ffscrapr/R/1_import_nflfastr.R |only ffscrapr-1.4.0/ffscrapr/R/espn__helpers.R | 12 ffscrapr-1.4.0/ffscrapr/R/espn_scoring.R | 23 ffscrapr-1.4.0/ffscrapr/R/espn_scoringhistory.R |only ffscrapr-1.4.0/ffscrapr/R/espn_starterpositions.R |only ffscrapr-1.4.0/ffscrapr/R/flea_scoringhistory.R |only ffscrapr-1.4.0/ffscrapr/R/flea_starterpositions.R |only ffscrapr-1.4.0/ffscrapr/R/mfl_connect.R | 1 ffscrapr-1.4.0/ffscrapr/R/mfl_draft.R | 11 ffscrapr-1.4.0/ffscrapr/R/mfl_playerscores.R | 66 +- ffscrapr-1.4.0/ffscrapr/R/mfl_scoring.R | 4 ffscrapr-1.4.0/ffscrapr/R/mfl_scoringhistory.R |only ffscrapr-1.4.0/ffscrapr/R/mfl_starterpositions.R |only ffscrapr-1.4.0/ffscrapr/R/mfl_transactions.R | 7 ffscrapr-1.4.0/ffscrapr/R/sleeper_league.R | 3 ffscrapr-1.4.0/ffscrapr/R/sleeper_playerscores.R | 4 ffscrapr-1.4.0/ffscrapr/R/sleeper_scoring.R | 8 ffscrapr-1.4.0/ffscrapr/R/sleeper_scoringhistory.R |only ffscrapr-1.4.0/ffscrapr/R/sleeper_starterpositions.R |only ffscrapr-1.4.0/ffscrapr/R/sleeper_transactions.R | 4 ffscrapr-1.4.0/ffscrapr/R/sysdata.rda |only ffscrapr-1.4.0/ffscrapr/R/zzz.R | 18 ffscrapr-1.4.0/ffscrapr/README.md | 16 ffscrapr-1.4.0/ffscrapr/build/vignette.rds |binary ffscrapr-1.4.0/ffscrapr/inst/doc/espn_basics.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/espn_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/espn_basics.html | 73 +- ffscrapr-1.4.0/ffscrapr/inst/doc/espn_getendpoint.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/espn_getendpoint.Rmd | 28 ffscrapr-1.4.0/ffscrapr/inst/doc/espn_getendpoint.html | 31 - ffscrapr-1.4.0/ffscrapr/inst/doc/ffscrapr_caching.html | 9 ffscrapr-1.4.0/ffscrapr/inst/doc/ffscrapr_scoringhistory.R |only ffscrapr-1.4.0/ffscrapr/inst/doc/ffscrapr_scoringhistory.Rmd |only ffscrapr-1.4.0/ffscrapr/inst/doc/ffscrapr_scoringhistory.html |only ffscrapr-1.4.0/ffscrapr/inst/doc/fleaflicker_basics.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/fleaflicker_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/fleaflicker_basics.html | 89 +-- ffscrapr-1.4.0/ffscrapr/inst/doc/fleaflicker_getendpoint.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/fleaflicker_getendpoint.Rmd | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/fleaflicker_getendpoint.html | 9 ffscrapr-1.4.0/ffscrapr/inst/doc/mfl_basics.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/mfl_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/mfl_basics.html | 103 +-- ffscrapr-1.4.0/ffscrapr/inst/doc/mfl_getendpoint.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/mfl_getendpoint.Rmd | 7 ffscrapr-1.4.0/ffscrapr/inst/doc/mfl_getendpoint.html | 25 ffscrapr-1.4.0/ffscrapr/inst/doc/sleeper_basics.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/sleeper_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/sleeper_basics.html | 89 +-- ffscrapr-1.4.0/ffscrapr/inst/doc/sleeper_getendpoint.R | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/sleeper_getendpoint.Rmd | 6 ffscrapr-1.4.0/ffscrapr/inst/doc/sleeper_getendpoint.html | 27 ffscrapr-1.4.0/ffscrapr/man/dp_cleannames.Rd | 2 ffscrapr-1.4.0/ffscrapr/man/dp_playerids.Rd | 2 ffscrapr-1.4.0/ffscrapr/man/dp_values.Rd | 2 ffscrapr-1.4.0/ffscrapr/man/ff_connect.Rd | 2 ffscrapr-1.4.0/ffscrapr/man/ff_playerscores.Rd | 9 ffscrapr-1.4.0/ffscrapr/man/ff_scoring.Rd | 2 ffscrapr-1.4.0/ffscrapr/man/ff_scoringhistory.Rd |only ffscrapr-1.4.0/ffscrapr/man/ff_starter_positions.Rd |only ffscrapr-1.4.0/ffscrapr/man/ffscrapr-package.Rd | 77 +- ffscrapr-1.4.0/ffscrapr/man/figures/ffscrapr.svg | 287 ++++------ ffscrapr-1.4.0/ffscrapr/man/figures/logo.png |binary ffscrapr-1.4.0/ffscrapr/man/mfl_connect.Rd | 3 ffscrapr-1.4.0/ffscrapr/man/nflfastr_rosters.Rd |only ffscrapr-1.4.0/ffscrapr/man/nflfastr_weekly.Rd |only ffscrapr-1.4.0/ffscrapr/man/parse_raw_rds.Rd |only ffscrapr-1.4.0/ffscrapr/tests/testthat/setup.R | 6 ffscrapr-1.4.0/ffscrapr/tests/testthat/test-ff_playerscores.R | 1 ffscrapr-1.4.0/ffscrapr/tests/testthat/test-ff_rosters.R | 2 ffscrapr-1.4.0/ffscrapr/tests/testthat/test-ff_scoringhistory.R |only ffscrapr-1.4.0/ffscrapr/tests/testthat/test-ff_starterpositions.R |only ffscrapr-1.4.0/ffscrapr/tests/testthat/test-ff_starters.R | 2 ffscrapr-1.4.0/ffscrapr/tests/testthat/test-ff_transactions.R | 4 ffscrapr-1.4.0/ffscrapr/tests/testthat/test-import_dp.R |only ffscrapr-1.4.0/ffscrapr/tests/testthat/test-import_nflfastr.R |only ffscrapr-1.4.0/ffscrapr/vignettes/espn_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/vignettes/espn_getendpoint.Rmd | 28 ffscrapr-1.4.0/ffscrapr/vignettes/ffscrapr_scoringhistory.Rmd |only ffscrapr-1.4.0/ffscrapr/vignettes/fleaflicker_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/vignettes/fleaflicker_getendpoint.Rmd | 6 ffscrapr-1.4.0/ffscrapr/vignettes/mfl_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/vignettes/mfl_getendpoint.Rmd | 7 ffscrapr-1.4.0/ffscrapr/vignettes/sleeper_basics.Rmd | 6 ffscrapr-1.4.0/ffscrapr/vignettes/sleeper_getendpoint.Rmd | 6 96 files changed, 864 insertions(+), 667 deletions(-)
Title: Anchored Kmedoids for Longitudinal Data Clustering
Description: Advances a novel adaptation of longitudinal k-means clustering
technique (Genolini et al. (2015) <doi:10.18637/jss.v065.i04>)
for grouping trajectories based on the similarities of their
long-term trends and determines the optimal solution based
on either the average silhouette width (Rousseeuw P. J. 1987)
or the Calinski-Harabatz criterion (Calinski and Harabatz (1974)
<doi:10.1080/03610927408827101>). Includes functions to extract
descriptive statistics and generate a visualisation of the
resulting groups, drawing methods from the 'ggplot2' library (Wickham H. (2016)
<doi:10.1007/978-3-319-24277-4>). The package also includes a number of
other useful functions for exploring and manipulating longitudinal
data prior to the clustering process.
Author: Monsuru Adepeju [cre, aut],
Samuel Langton [aut],
Jon Bannister [aut]
Maintainer: Monsuru Adepeju <monsuur2010@yahoo.com>
Diff between akmedoids versions 0.1.5 dated 2020-01-09 and 1.3.0 dated 2021-04-13
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Title: Read and Write Sparse Matrices in 'SVMLight' and 'LibSVM'
Formats
Description: Read and write labelled sparse matrices in text format as used by
software such as 'SVMLight', 'LibSVM', 'ThunderSVM', 'LibFM', 'xLearn', 'XGBoost', 'LightGBM',
and others. Supports labelled data for regression, classification (binary, multi-class, multi-label),
and ranking (with 'qid' field), and can handle header metadata and comments in files.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between readsparse versions 0.1.2 dated 2021-04-07 and 0.1.2-1 dated 2021-04-12
readsparse-0.1.2-1/readsparse/DESCRIPTION | 8 readsparse-0.1.2-1/readsparse/MD5 | 15 - readsparse-0.1.2-1/readsparse/R/RcppExports.R | 4 readsparse-0.1.2-1/readsparse/R/read_sparse.R | 34 ++- readsparse-0.1.2-1/readsparse/man/read.sparse.Rd | 18 - readsparse-0.1.2-1/readsparse/src/RcppExports.cpp | 10 readsparse-0.1.2-1/readsparse/src/Rwrapper.cpp | 111 ++++++---- readsparse-0.1.2-1/readsparse/tests/testthat/test-read-write.R | 46 +++- readsparse-0.1.2/readsparse/src/python_streams.h |only 9 files changed, 165 insertions(+), 81 deletions(-)
Title: Building Augmented Data to Run Multi-State Models with 'msm'
Package
Description: A fast and general method for restructuring classical longitudinal data into
augmented ones. The reason for this is to facilitate the modeling of longitudinal data under
a multi-state framework using the 'msm' package.
Author: Francesco Grossetti [aut, cre]
(<https://orcid.org/0000-0002-5130-7745>)
Maintainer: Francesco Grossetti <francesco.grossetti@unibocconi.it>
Diff between msmtools versions 2.0.0 dated 2021-04-07 and 2.0.1 dated 2021-04-12
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 12 +++++++++++- README.md | 2 +- inst/doc/msmtools.Rmd | 18 +++++++++--------- inst/doc/msmtools.html | 22 +++++++++++----------- vignettes/msmtools.Rmd | 18 +++++++++--------- 7 files changed, 51 insertions(+), 41 deletions(-)
Title: Regularized Mediation Analysis
Description: Mediation analysis for multiple mediators by penalized structural equation models with different types of penalties depending on whether there are multiple mediators and only one exposure and one outcome variable (using sparse group lasso) or multiple exposures, multiple mediators, and multiple outcome variables (using lasso, L1, penalties).
Author: Jason Sinnwell [aut, cre] (<https://orcid.org/0000-0003-1964-5522>),
Daniel Schaid [aut] (<https://orcid.org/0000-0003-1457-6433>)
Maintainer: Jason Sinnwell <sinnwell.jason@mayo.edu>
Diff between regmed versions 1.1.0 dated 2020-06-05 and 2.0.4 dated 2021-04-12
regmed-1.1.0/regmed/R/get.best.R |only regmed-1.1.0/regmed/R/getFit.regmed.grid.R |only regmed-1.1.0/regmed/R/lavaan.model.R |only regmed-1.1.0/regmed/R/plot.regmed.R |only regmed-1.1.0/regmed/R/reFitBestFit.R |only regmed-1.1.0/regmed/R/regmed_dat_check.R |only regmed-1.1.0/regmed/R/regmed_gridData.R |only regmed-1.1.0/regmed/R/regmed_grid_update.R |only regmed-1.1.0/regmed/R/regmed_init.R |only regmed-1.1.0/regmed/R/trim.best.R |only regmed-1.1.0/regmed/README.md |only regmed-1.1.0/regmed/data/regmed_example.RData |only regmed-1.1.0/regmed/inst/doc/regmed_demo.R |only regmed-1.1.0/regmed/inst/doc/regmed_demo.Rmd |only regmed-1.1.0/regmed/inst/doc/regmed_demo.html |only regmed-1.1.0/regmed/man/get.best.Rd |only regmed-1.1.0/regmed/man/getFit.regmed.grid.Rd |only regmed-1.1.0/regmed/man/lavaan.model.Rd |only regmed-1.1.0/regmed/man/plot.regmed.Rd |only regmed-1.1.0/regmed/man/regmed_example.Rd |only regmed-1.1.0/regmed/man/summary.regmed.Rd |only regmed-1.1.0/regmed/man/trim.best.Rd |only regmed-1.1.0/regmed/tests/test.regmed.R |only regmed-1.1.0/regmed/tests/test.regmed.Rout.save |only regmed-1.1.0/regmed/vignettes/regmed_demo.Rmd |only regmed-2.0.4/regmed/DESCRIPTION | 22 +-- regmed-2.0.4/regmed/MD5 | 110 ++++++++++++------- regmed-2.0.4/regmed/NAMESPACE | 24 +++- regmed-2.0.4/regmed/R/RcppExports.R | 4 regmed-2.0.4/regmed/R/mvregmed.dat.check.R |only regmed-2.0.4/regmed/R/mvregmed.edges.R |only regmed-2.0.4/regmed/R/mvregmed.fit.R |only regmed-2.0.4/regmed/R/mvregmed.graph.attributes.R |only regmed-2.0.4/regmed/R/mvregmed.grid.R |only regmed-2.0.4/regmed/R/mvregmed.grid.bestfit.R |only regmed-2.0.4/regmed/R/mvregmed.grid.data.R |only regmed-2.0.4/regmed/R/mvregmed.grid.update.R |only regmed-2.0.4/regmed/R/mvregmed.init.R |only regmed-2.0.4/regmed/R/mvregmed.lavaan.dat.R |only regmed-2.0.4/regmed/R/mvregmed.lavaan.model.R |only regmed-2.0.4/regmed/R/plot.mvregmed.edges.R |only regmed-2.0.4/regmed/R/plot.mvregmed.grid.R |only regmed-2.0.4/regmed/R/plot.regmed.edges.R |only regmed-2.0.4/regmed/R/print.regmed.R | 6 - regmed-2.0.4/regmed/R/regmed.dat.check.R |only regmed-2.0.4/regmed/R/regmed.edges.R |only regmed-2.0.4/regmed/R/regmed.fit.R | 19 +-- regmed-2.0.4/regmed/R/regmed.grid.R | 23 +-- regmed-2.0.4/regmed/R/regmed.grid.bestfit.R |only regmed-2.0.4/regmed/R/regmed.grid.data.R |only regmed-2.0.4/regmed/R/regmed.grid.update.R |only regmed-2.0.4/regmed/R/regmed.init.R |only regmed-2.0.4/regmed/R/regmed.lavaan.dat.R |only regmed-2.0.4/regmed/R/regmed.lavaan.model.R |only regmed-2.0.4/regmed/R/regmed.prefilter.R |only regmed-2.0.4/regmed/R/summary.lavaan.R |only regmed-2.0.4/regmed/R/summary.mvregmed.R |only regmed-2.0.4/regmed/R/summary.regmed.R | 5 regmed-2.0.4/regmed/build/partial.rdb |binary regmed-2.0.4/regmed/build/vignette.rds |binary regmed-2.0.4/regmed/data/medsim.RData |only regmed-2.0.4/regmed/inst/NEWS.Rd | 11 + regmed-2.0.4/regmed/inst/doc/regmed.R |only regmed-2.0.4/regmed/inst/doc/regmed.Rmd |only regmed-2.0.4/regmed/inst/doc/regmed.html |only regmed-2.0.4/regmed/man/medsim.Rd |only regmed-2.0.4/regmed/man/mvregmed.dat.check.Rd |only regmed-2.0.4/regmed/man/mvregmed.edges.Rd |only regmed-2.0.4/regmed/man/mvregmed.fit.Rd |only regmed-2.0.4/regmed/man/mvregmed.graph.attributes.Rd |only regmed-2.0.4/regmed/man/mvregmed.grid.Rd |only regmed-2.0.4/regmed/man/mvregmed.grid.bestfit.Rd |only regmed-2.0.4/regmed/man/mvregmed.grid.data.Rd |only regmed-2.0.4/regmed/man/mvregmed.grid.update.Rd |only regmed-2.0.4/regmed/man/mvregmed.init.Rd |only regmed-2.0.4/regmed/man/mvregmed.lavaan.dat.Rd |only regmed-2.0.4/regmed/man/mvregmed.lavaan.model.Rd |only regmed-2.0.4/regmed/man/plot.mvregmed.grid.Rd |only regmed-2.0.4/regmed/man/plot.regmed.grid.Rd | 10 - regmed-2.0.4/regmed/man/regmed-package.Rd | 6 - regmed-2.0.4/regmed/man/regmed.edges.Rd |only regmed-2.0.4/regmed/man/regmed.fit.Rd | 32 +---- regmed-2.0.4/regmed/man/regmed.grid.Rd | 33 ++--- regmed-2.0.4/regmed/man/regmed.grid.bestfit.Rd |only regmed-2.0.4/regmed/man/regmed.lavaan.dat.Rd |only regmed-2.0.4/regmed/man/regmed.lavaan.model.Rd |only regmed-2.0.4/regmed/man/regmed.prefilter.Rd |only regmed-2.0.4/regmed/man/summary.mvregmed.Rd |only regmed-2.0.4/regmed/src/RcppExports.cpp | 26 ++++ regmed-2.0.4/regmed/src/mvregmed.cpp |only regmed-2.0.4/regmed/tests/testthat |only regmed-2.0.4/regmed/tests/testthat.R |only regmed-2.0.4/regmed/vignettes/regmed.Rmd |only 93 files changed, 201 insertions(+), 130 deletions(-)
Title: Helper Functions for 'mlr3'
Description: Frequently used helper functions and assertions
used in 'mlr3' and its companion packages. Comes with helper functions
for functional programming, for printing, to work with 'data.table',
as well as some generally useful 'R6' classes. This package also
supersedes the package 'BBmisc'.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3misc versions 0.8.0 dated 2021-03-19 and 0.9.0 dated 2021-04-12
DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++++----------- NAMESPACE | 2 ++ NEWS.md | 8 +++++++- R/count_missing.R |only R/encapsulate.R | 2 +- R/purrr_map.R | 24 ++++++++++++++++-------- R/reorder_vector.R | 27 +++++++-------------------- man/count_missing.Rd |only man/encapsulate.Rd | 2 +- man/reorder_vector.Rd | 13 ++++++------- src/count_missing.c |only src/init.c | 2 ++ tests/testthat/test_count_missing.R |only tests/testthat/test_map.R | 4 ++++ tests/testthat/test_reorder_vector.R | 16 ++++++++-------- 16 files changed, 72 insertions(+), 60 deletions(-)
Title: A Multi-Modal Simulator for Spearheading Single-Cell Omics
Analyses
Description: A novel, multi-modal simulation engine for
studying dynamic cellular processes at single-cell resolution. 'dyngen'
is more flexible than current single-cell simulation engines. It
allows better method development and benchmarking, thereby stimulating
development and testing of novel computational methods. Cannoodt et
al. (2020) <doi:10.1101/2020.02.06.936971>.
Author: Robrecht Cannoodt [aut, cre, cph]
(<https://orcid.org/0000-0003-3641-729X>),
Wouter Saelens [aut] (<https://orcid.org/0000-0002-7114-6248>)
Maintainer: Robrecht Cannoodt <rcannood@gmail.com>
Diff between dyngen versions 1.0.0 dated 2021-02-23 and 1.0.1 dated 2021-04-12
dyngen-1.0.0/dyngen/R/rnorm_bounded.R |only dyngen-1.0.1/dyngen/DESCRIPTION | 6 dyngen-1.0.1/dyngen/MD5 | 31 + dyngen-1.0.1/dyngen/NAMESPACE | 2 dyngen-1.0.1/dyngen/NEWS.md | 5 dyngen-1.0.1/dyngen/R/4_kinetics.R | 157 +++++----- dyngen-1.0.1/dyngen/R/7_experiment.R | 6 dyngen-1.0.1/dyngen/R/caching.R | 8 dyngen-1.0.1/dyngen/R/package.R | 5 dyngen-1.0.1/dyngen/R/random_generators.R |only dyngen-1.0.1/dyngen/README.md | 3 dyngen-1.0.1/dyngen/build/vignette.rds |binary dyngen-1.0.1/dyngen/man/dyngen.Rd | 5 dyngen-1.0.1/dyngen/man/generate_kinetics.Rd | 5 dyngen-1.0.1/dyngen/man/rnorm_bounded.Rd | 2 dyngen-1.0.1/dyngen/man/runif_subrange.Rd |only dyngen-1.0.1/dyngen/tests/testthat/test-generate_dataset.R | 32 +- dyngen-1.0.1/dyngen/tests/testthat/test-generate_partitions.R | 2 18 files changed, 160 insertions(+), 109 deletions(-)
Title: Radiation Safety
Description: Provides functions for radiation safety, also known as
"radiation protection" and "radiological control". The science of
radiation protection is called "health physics" and its engineering
functions are called "radiological engineering". Functions in this
package cover many of the computations needed by radiation safety
professionals. Examples include: obtaining updated calibration and
source check values for radiation monitors to account for radioactive
decay in a reference source, simulating instrument readings to better
understand measurement uncertainty, correcting instrument readings
for geometry and ambient atmospheric conditions. Many of these
functions are described in Johnson and Kirby (2011, ISBN-13:
978-1609134198). Utilities are also included for developing inputs
and processing outputs with radiation transport codes, such as MCNP,
a general-purpose Monte Carlo N-Particle code that can be used for
neutron, photon, electron, or coupled neutron/photon/electron transport
(Werner et. al. (2018) <doi:10.2172/1419730>).
Author: Mark Hogue <mark.hogue.chp@gmail.com>
Maintainer: Mark Hogue <mark.hogue.chp@gmail.com>
Diff between radsafer versions 2.2.4 dated 2021-01-04 and 2.2.5 dated 2021-04-12
DESCRIPTION | 10 MD5 | 10 R/RN_info.R | 17 + build/vignette.rds |binary inst/doc/Introduction_to_radsafer.html | 364 +++++++-------------------------- man/RN_info.Rd | 2 6 files changed, 112 insertions(+), 291 deletions(-)
Title: Tools for Analyzing Cross-National Military Deployment and
Basing Data
Description: These functions generate data frames on troop deployments and military basing using U.S. Department of Defense data on overseas military deployments. This package provides functions for pulling country-year troop deployment and basing data. Subsequent versions will hopefully include cross-national data on deploying countries.
Author: Michael Flynn [aut, cre] (<https://orcid.org/0000-0002-6064-740X>)
Maintainer: Michael Flynn <meflynn@ksu.edu>
Diff between troopdata versions 0.1.2 dated 2021-03-02 and 0.1.3 dated 2021-04-12
DESCRIPTION | 8 +-- MD5 | 11 ++-- NEWS.md | 5 ++ R/get_troopdata.R | 4 - README.md | 74 +++++++++++++++++------------- data/troopdata.rda |binary man/figures/README-unnamed-chunk-10-1.png |only 7 files changed, 59 insertions(+), 43 deletions(-)
Title: Interface to the 'Microsoft 365' Suite of Cloud Services
Description: An interface to the 'Microsoft 365' (formerly known as 'Office 365') suite of cloud services, building on the framework supplied by the 'AzureGraph' package. Enables access from R to data stored in 'Teams', 'SharePoint Online' and 'OneDrive', including the ability to list drive folder contents, upload and download files, send messages, and retrieve data lists. Also provides a full-featured 'Outlook' email client, with the ability to send emails and manage emails and mail folders.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between Microsoft365R versions 2.0.0 dated 2021-02-26 and 2.1.0 dated 2021-04-12
DESCRIPTION | 10 ++-- MD5 | 58 ++++++++++++++++++---------- NAMESPACE | 6 ++ NEWS.md | 18 +++++++- R/Microsoft365R.R | 9 ++++ R/add_methods.R | 6 ++ R/build_email_request.R |only R/client.R | 28 ++++++++++++- R/make_email_attachments.R |only R/ms_drive.R | 7 +++ R/ms_drive_item.R | 13 +++--- R/ms_outlook.R |only R/ms_outlook_attachment.R |only R/ms_outlook_email.R |only R/ms_outlook_folder.R |only R/ms_outlook_object.R |only README.md | 43 +++++++++++++++++++- build/vignette.rds |binary inst/doc/auth.Rmd | 31 ++++++++++++-- inst/doc/auth.html | 40 +++++++++++++------ inst/doc/outlook.Rmd |only inst/doc/outlook.html |only man/client.Rd | 15 +++++++ man/ms_outlook.Rd |only man/ms_outlook_attachment.Rd |only man/ms_outlook_email.Rd |only man/ms_outlook_folder.Rd |only tests/testthat/test01_onedrive.R | 20 +++++++++ tests/testthat/test02_business_onedrive.R | 33 +++++++++++++-- tests/testthat/test03_sharepoint.R | 8 ++- tests/testthat/test04_teams.R | 9 ++-- tests/testthat/test04a_channel.R | 4 + tests/testthat/test05_outlook.R |only tests/testthat/test05a_outlook_folder.R |only tests/testthat/test05b_outlook_email.R |only tests/testthat/test05c_outlook_attachment.R |only tests/testthat/test05d_outlook_send.R |only tests/testthat/test05e_outlook_copymove.R |only vignettes/auth.Rmd | 31 ++++++++++++-- vignettes/outlook.Rmd |only 40 files changed, 317 insertions(+), 72 deletions(-)
Title: 'ggplot2' Based Plots with Statistical Details
Description: Extension of 'ggplot2', 'ggstatsplot' creates graphics with
details from statistical tests included in the plots themselves. It
provides an easier syntax to generate information-rich plots for
statistical analysis of continuous (violin plots, scatterplots,
histograms, dot plots, dot-and-whisker plots) or categorical (pie and
bar charts) data. Currently, it supports the most common types of
statistical approaches and tests: parametric, nonparametric, robust,
and Bayesian versions of t-test/ANOVA, correlation analyses,
contingency table analysis, meta-analysis, and regression analyses.
Author: Indrajeet Patil [cre, aut, cph]
(<https://orcid.org/0000-0003-1995-6531>, @patilindrajeets)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between ggstatsplot versions 0.7.1 dated 2021-03-11 and 0.7.2 dated 2021-04-12
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Title: Wrangle Campaign Finance Data
Description: Explore and normalize American campaign finance
data. Created by the Investigative Reporting Workshop to facilitate
work on The Accountability Project, an effort to collect public data
into a central, standard database that is more easily searched:
<https://publicaccountability.org/>.
Author: Kiernan Nicholls [aut, cre, cph],
Investigative Reporting Workshop [cph],
Yanqi Xu [aut],
Schuyler Erle [cph]
Maintainer: Kiernan Nicholls <kiernann@protonmail.com>
Diff between campfin versions 1.0.6 dated 2021-03-04 and 1.0.7 dated 2021-04-12
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 5 +++++ R/use-diary.R | 5 +++-- build/vignette.rds |binary inst/doc/normalize-geography.html | 10 +++++----- inst/templates/template_diary.Rmd | 2 +- tests/testthat/test-non-ascii.R | 25 +++++++++++++++---------- 8 files changed, 39 insertions(+), 28 deletions(-)
Title: Predictive Data Analysis System
Description: Perform a supervised data analysis on a database through a 'shiny' graphical interface. It includes methods such as K-Nearest Neighbors, Decision Trees, ADA Boosting, Extreme Gradient Boosting, Random Forest, Neural Networks, Deep Learning, Support Vector Machines and Bayesian Methods.
Author: Oldemar Rodriguez [aut, cre],
Andrés Navarro [ctb, prg],
Diego Jiménez [ctb, prg],
Joseline Quirós [ctb, prg]
Maintainer: Oldemar Rodriguez <oldemar.rodriguez@ucr.ac.cr>
Diff between predictoR versions 1.1.7 dated 2021-03-04 and 1.1.9 dated 2021-04-12
DESCRIPTION | 30 ++++++---- MD5 | 8 +- inst/application/global.R | 95 +++++++++----------------------- inst/application/server.R | 135 +++++++++++++++++++--------------------------- inst/application/ui.R | 21 ++----- 5 files changed, 113 insertions(+), 176 deletions(-)
Title: Lattice Options and Add-Ins
Description: Various plots and functions that make use of the lattice/trellis plotting framework.
The plots, which include loaPlot(), RgoogleMapsPlot() and trianglePlot(), use panelPal(), a function that
extends 'lattice' and 'hexbin' package methods to automate plot subscript and panel-to-panel
and panel-to-key synchronization/management.
Author: Karl Ropkins
Maintainer: Karl Ropkins <karl.ropkins@gmail.com>
Diff between loa versions 0.2.46.3 dated 2021-01-16 and 0.2.47.1 dated 2021-04-12
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS | 7 +++++++ R/cond.handlers.R | 3 +-- R/formulaHandler.R | 19 ++++++++++++++++--- R/loaPlot.R | 24 +++++++++++++++--------- R/panelPal.R | 2 +- R/plot.argument.handlers.R | 3 ++- man/loa-package.Rd | 4 ++-- 9 files changed, 56 insertions(+), 30 deletions(-)
Title: Generalised Joint Regression Modelling
Description: Routines for fitting various joint (and univariate) regression models, with several types of covariate effects, in the presence of equations' errors association, endogeneity, non-random sample selection or partial observability.
Author: Giampiero Marra <giampiero.marra@ucl.ac.uk> and Rosalba Radice <rosalba.radice@city.ac.uk>
Maintainer: Giampiero Marra <giampiero.marra@ucl.ac.uk>
Diff between GJRM versions 0.2-3 dated 2020-09-07 and 0.2-4 dated 2021-04-12
ChangeLog | 4 DESCRIPTION | 6 MD5 | 149 - NAMESPACE | 3 R/BCDF.r | 4 R/BiCDF.r | 19 R/Cop1Cop2.r | 9 R/CopulaCLM.r | 31 R/SemiParBIV.r | 62 R/ass.dp.r | 29 R/ass.ms.r | 29 R/bCopulaCLMgHsCont.R | 13 R/bcont.R | 4 R/bcont23.R | 2 R/bcont3.R | 2 R/bcont32.R | 2 R/bcontROB.R | 6 R/bcontSurv.R | 14 R/bcontSurvG.R | 4 R/bcontSurvGDep.R | 4 R/bcontSurvGDepA.R | 4 R/bcontSurvGcont2Surv.R | 4 R/bcontSurvGunivMIXED_ExcessHazard_LeftTruncation.R |only R/bcontSurvGunivMIXED_LeftTruncation.R | 149 - R/bdiscrcont.R | 10 R/bdiscrcont12.R | 10 R/bdiscrcont13.R | 2 R/bdiscrcont23.R | 2 R/bdiscrdiscr.R | 2 R/bdiscrdiscr11.R | 2 R/bdiscrdiscr12.R | 2 R/bprobgHs.r | 7 R/bprobgHsCont.r | 6 R/bprobgHsCont3.r | 2 R/bprobgHsCont3binTW.r | 2 R/bprobgHsContSS.r | 2 R/bprobgHsDiscr1.r | 2 R/bprobgHsDiscr2.r | 2 R/bprobgHsSS.r | 4 R/bprobgHstwoParC.r | 4 R/copgHs.r | 142 + R/copgHs2.r | 22 R/copgHs3.r | 72 R/copgHsAT.r | 40 R/copgHsCond.r | 26 R/copgHsCont.r | 1677 +++++++++++++++++++- R/copulaSampleSel.r | 15 R/distrHs.r | 98 - R/distrHsAT.r | 24 R/enu.tr.R | 24 R/esp.tr.R | 37 R/gamlss.R | 64 R/gjrm.r | 23 R/hazsurv.plot.r | 831 +++++---- R/jc.probs1.r | 2 R/jc.probs2.r | 2 R/jc.probs3.r | 2 R/jc.probs4.r | 2 R/jc.probs5.r | 2 R/jc.probs7.r | 2 R/pp.r | 18 R/pream.wm.r | 21 R/print.SemiParBIV.r | 7 R/print.copulaSampleSel.r | 7 R/print.gamlss.r | 6 R/pscr.r | 27 R/r.resp.R | 4 R/resp.check.R | 7 R/sim.resp.R | 4 R/survExcInd.r | 18 R/susutsn.r | 2 R/teta.tr.R | 6 man/GJRM-package.Rd | 17 man/bprobgHsContUniv.Rd | 1 man/gjrm.Rd | 10 man/hazsurv.plot.Rd | 181 +- 76 files changed, 3084 insertions(+), 973 deletions(-)
Title: The 'Tidymodels' Extension for GARCH Models
Description: Garch framework for use with the 'tidymodels' ecosystem. It includes both univariate and
multivariate methods from the 'rugarch' and 'rmgarch' packages. These models include DCC-Garch, Copula Garch
and Go-GARCH among others.
Author: Alberto Almuiña [aut, cre]
Maintainer: Alberto Almuiña <albertogonzalezalmuinha@gmail.com>
Diff between garchmodels versions 0.1.0 dated 2021-04-10 and 0.1.1 dated 2021-04-12
DESCRIPTION | 8 ++-- MD5 | 22 ++++++----- NEWS.md | 12 +++++- R/parsnip-garch_reg.R | 57 ++++++++++++++++++++--------- R/parsnip-garch_reg_data.R | 8 ++++ README.md | 10 +++-- build/vignette.rds |binary inst/doc/getting-started.html | 16 ++++---- inst/doc/tuning_univariate_algorithms.R |only inst/doc/tuning_univariate_algorithms.Rmd |only inst/doc/tuning_univariate_algorithms.html |only man/garch_reg.Rd | 14 ++++--- man/rugarch_fit_impl.Rd | 3 + vignettes/tuning_univariate_algorithms.Rmd |only 14 files changed, 102 insertions(+), 48 deletions(-)
Title: Fast Wild Cluster Bootstrap Inference for Linear Regression
Models
Description: Implementation of the fast algorithm for wild cluster bootstrap
inference developed in Roodman et al (2019, STATA Journal) for
linear regression models
<https://journals.sagepub.com/doi/full/10.1177/1536867X19830877>,
which makes it feasible to quickly calculate bootstrap test
statistics based on a large number of bootstrap draws even for
large samples - as long as the number of bootstrapping clusters
is not too large. Multiway clustering, regression weights,
bootstrap weights, fixed effects and subcluster bootstrapping
are supported. Further, both restricted (WCR) and unrestricted
(WCU) bootstrap are supported. Methods are provided for a variety
of fitted models, including 'lm()', 'feols()'
(from package 'fixest') and 'felm()' (from package 'lfe').
Author: Alexander Fischer [aut, cre],
David Roodman [aut],
Achim Zeileis [ctb] (Author of included sandwich fragments),
Nathaniel Graham [ctb] (Contributor to included sandwich fragments),
Susanne Koell [ctb] (Contributor to included sandwich fragments),
Laurent Berge [ctb] (Author of included fixest fragments),
Sebastian Krantz [ctb]
Maintainer: Alexander Fischer <alexander-fischer1801@t-online.de>
Diff between fwildclusterboot versions 0.3.2 dated 2021-02-26 and 0.3.3 dated 2021-04-12
DESCRIPTION | 10 +++--- MD5 | 33 ++++++++++---------- NAMESPACE | 1 NEWS.md | 4 +- R/boot_algo2.R | 51 +++++++++++++++++++++++-------- R/boottest_felm.R | 31 ++++++------------ R/boottest_fixest.R | 30 ++++++------------ R/boottest_lm.R | 27 ++++------------ R/create_data.R | 2 - R/invert_p_val2.R | 36 +++++++++++++++++---- README.md | 20 +++++------- inst/CITATION |only inst/doc/fwildclusterboot.html | 43 +++++++++++++++----------- inst/tinytest/test_error_warning.R | 7 +++- man/boot_algo2.Rd | 11 ++++-- man/boottest.felm.Rd | 2 - man/boottest.lm.Rd | 2 - man/figures/README-unnamed-chunk-4-1.png |binary 18 files changed, 172 insertions(+), 138 deletions(-)
More information about fwildclusterboot at CRAN
Permanent link
Title: Date-Time Types and Tools
Description: Provides a comprehensive library for date-time manipulations
using a new family of orthogonal date-time classes (durations, time
points, zoned-times, and calendars) that partition responsibilities so
that the complexities of time zones are only considered when they are
really needed. Capabilities include: date-time parsing, formatting,
arithmetic, extraction and updating of components, and rounding.
Author: Davis Vaughan [aut, cre],
Howard Hinnant [cph] (Author of the included date library),
RStudio [cph, fnd]
Maintainer: Davis Vaughan <davis@rstudio.com>
Diff between clock versions 0.1.0 dated 2021-03-31 and 0.2.0 dated 2021-04-12
DESCRIPTION | 8 MD5 | 97 +++-- NAMESPACE | 15 NEWS.md |only R/date.R | 357 ++++++++++++++-------- R/duration.R | 3 R/naive-time.R | 2 R/posixt.R | 270 ++++++++++++++++ R/sys-time.R | 6 R/utils.R | 63 +++ R/zoned-time.R | 15 inst/doc/clock.html | 28 + inst/doc/faq.R | 26 + inst/doc/faq.Rmd | 44 ++ inst/doc/faq.html | 225 ++++++++----- inst/include/clock |only man/as-zoned-time-Date.Rd | 97 +++++ man/as_date.Rd |only man/as_date_time.Rd |only man/as_duration.Rd | 2 man/as_sys_time.Rd | 4 man/as_zoned_time.Rd | 2 man/date-formatting.Rd |only man/date-time-parse.Rd | 28 + man/date-today.Rd |only man/date-zone.Rd | 23 - man/date_format.Rd | 160 --------- man/date_parse.Rd | 33 +- man/format.clock_zoned_time.Rd | 15 man/posixt-formatting.Rd |only src/cpp11.cpp | 3 src/duration.cpp | 5 src/exported.cpp |only src/failure.h |only src/format.cpp | 15 src/gregorian-year-month-day.cpp | 37 +- src/parse.h | 54 --- src/time-point.cpp | 13 src/zoned-time.cpp | 25 - tests/testthat/_snaps/date.md | 45 ++ tests/testthat/_snaps/gregorian-year-day.md | 3 tests/testthat/_snaps/gregorian-year-month-day.md | 3 tests/testthat/_snaps/naive-time.md | 58 +++ tests/testthat/_snaps/posixt.md | 52 ++- tests/testthat/_snaps/sys-time.md | 10 tests/testthat/helper-format.R | 17 - tests/testthat/test-date.R | 163 +++++++++- tests/testthat/test-gregorian-year-month-day.R | 18 + tests/testthat/test-naive-time.R | 56 +++ tests/testthat/test-posixt.R | 108 ++++++ tests/testthat/test-sys-time.R | 17 + tests/testthat/test-time-point.R | 16 tests/testthat/test-zoned-time.R | 28 + vignettes/faq.Rmd | 44 ++ 54 files changed, 1690 insertions(+), 623 deletions(-)
Title: US Baby Names 1880-2017
Description: US baby names provided by the SSA. This package contains all
names used for at least 5 children of either sex.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between babynames versions 1.0.0 dated 2019-01-12 and 1.0.1 dated 2021-04-12
babynames-1.0.0/babynames/data/datalist |only babynames-1.0.0/babynames/tests/testthat/test-data_applicants_first_last.txt |only babynames-1.0.0/babynames/tests/testthat/test-data_babynames_first_last.txt |only babynames-1.0.0/babynames/tests/testthat/test-data_babynames_first_last_1990.txt |only babynames-1.0.0/babynames/tests/testthat/test-data_births_first_last.txt |only babynames-1.0.0/babynames/tests/testthat/test-data_lifetables_first_last.txt |only babynames-1.0.0/babynames/tests/testthat/test-data_lifetables_first_last_1990s.txt |only babynames-1.0.1/babynames/DESCRIPTION | 30 ++-- babynames-1.0.1/babynames/MD5 | 26 +-- babynames-1.0.1/babynames/NEWS.md | 4 babynames-1.0.1/babynames/R/data.R | 2 babynames-1.0.1/babynames/README.md | 4 babynames-1.0.1/babynames/man/applicants.Rd | 6 babynames-1.0.1/babynames/man/babynames.Rd | 6 babynames-1.0.1/babynames/man/births.Rd | 6 babynames-1.0.1/babynames/man/lifetables.Rd | 6 babynames-1.0.1/babynames/tests/testthat/_snaps |only babynames-1.0.1/babynames/tests/testthat/test-data.R | 71 ++-------- 18 files changed, 67 insertions(+), 94 deletions(-)
Title: Apply Sojourn Methods for Processing ActiGraph Accelerometer
Data
Description: Provides a simple way for utilizing Sojourn methods for
accelerometer processing, as detailed in Lyden K, Keadle S,
Staudenmayer J, & Freedson P (2014) <doi:10.1249/MSS.0b013e3182a42a2d>,
Ellingson LD, Schwabacher IJ, Kim Y, Welk GJ, & Cook DB (2016)
<doi:10.1249/MSS.0000000000000915>, and Hibbing PR, Ellingson LD,
Dixon PM, & Welk GJ (2018) <doi:10.1249/MSS.0000000000001486>. The
accompanying Sojourn.Data package, if not available on CRAN, can
be accessed from <https://github.com/paulhibbing/Sojourn.Data>.
Author: Paul R. Hibbing [aut, cre],
Kate Lyden [aut],
Isaac J. Schwabacher [aut]
Maintainer: Paul R. Hibbing <paulhibbing@gmail.com>
Diff between Sojourn versions 0.1.0 dated 2019-05-06 and 1.0.2 dated 2021-04-12
DESCRIPTION | 22 +++---- MD5 | 67 +++++++++++---------- NEWS.md | 13 ++++ R/RcppExports.R |only R/SIP_Functions.R | 11 +-- R/SIP_Soj_3x.R | 13 ++-- R/Sojourn.R | 1 R/Utils.R | 4 - R/compute_bouts_info.R | 2 R/read_AP.R | 6 + R/soj_1x_original.R | 17 ++--- R/soj_3x_original.R | 138 +++++++++++++++++++++++---------------------- R/youth_apply_sojourn.R | 19 +++--- R/youth_get_sojourns.R | 15 ++-- R/youth_sojourn_tree.R | 131 +++++++++++++++++++++++++----------------- README.md | 13 ++-- man/SIP_ag.Rd | 6 + man/SIP_ap.Rd | 6 + man/Sojourn.Rd | 1 man/acf.lag1.alt.Rd | 2 man/apply_youth_sojourn.Rd | 18 +++-- man/compute.bouts.info.Rd | 2 man/enhance_actigraph.Rd | 4 - man/example_data.Rd | 6 + man/find.transitions.Rd | 2 man/get_youth_sojourns.Rd | 15 +++- man/prep.nnetinputs.Rd | 2 man/read_AP.Rd | 6 + man/replace.na.Rd | 2 man/soj_1x_original.Rd | 21 ++++-- man/soj_3x_original.Rd | 4 - man/sojourn_3x_SIP.Rd | 8 +- man/youth_name_test.Rd | 9 ++ man/youth_network_shape.Rd | 14 +++- man/youth_sojourn_tree.Rd | 10 ++- 35 files changed, 357 insertions(+), 253 deletions(-)
Title: Visualization of Spatial and Spatio-Temporal Objects in Google
Earth
Description: Writes sp-class, spacetime-class, raster-class and similar spatial and spatio-temporal objects to KML following some basic cartographic rules.
Author: Tomislav Hengl [cre, aut],
Andrea Gilardi [ctb],
Pierre Roudier [ctb],
Dylan Beaudette [ctb],
Edzer Pebesma [ctb],
Michael Blaschek [ctb]
Maintainer: Tomislav Hengl <tom.hengl@opengeohub.org>
Diff between plotKML versions 0.6-1 dated 2020-03-09 and 0.8-0 dated 2021-04-12
.Rinstignore |only DESCRIPTION | 40 - MD5 | 153 ++--- NAMESPACE | 108 +-- R/AAA-classes.R | 378 ++++++------- R/AAAA.R | 608 ++++++++++----------- R/ZZZ.R | 2 R/aesthetics.R | 252 ++++++--- R/altitude.R | 12 R/attributes.R | 52 + R/export_metadata.R | 2 R/getWikiMedia.ImageInfo.R | 4 R/kml.tiles.R | 8 R/layer-sf.R |only R/layer.Raster.R | 12 R/layer.RasterBrick.R | 11 R/layer.SpatialPixels.R | 12 R/legend.bar.R | 16 R/legend.whitening.R | 14 R/plotKML-sf.R |only R/plotKML-stars.R |only R/plotKML.GDALobj.R | 6 R/plotKML.SpatialPredictions.R | 192 +++--- R/readGPX.R | 2 R/spPhoto.R | 2 R/vect2rast.R | 12 build/partial.rdb |only build/vignette.rds |binary data/datalist | 38 - data/eberg_contours.rda |binary data/eberg_zones.rda |binary demo/plotKML.R | 50 - inst/CITATION | 4 inst/doc/jss1079.R | 285 ++++------ inst/doc/jss1079.Rnw | 29 - inst/doc/jss1079.pdf |binary inst/sf_stars_examples.R |only man/HRprec08.Rd | 4 man/HRtemp08.Rd | 2 man/LST.Rd | 2 man/SAGA_pal.Rd | 10 man/SpatialMaxEntOutput.Rd | 2 man/SpatialPhotoOverlay.Rd | 2 man/SpatialPredictions.Rd | 72 +- man/SpatialSamplingPattern.Rd | 2 man/baranja.Rd | 182 +++--- man/bigfoot.Rd | 124 ++-- man/check_projection.Rd | 2 man/eberg.Rd | 8 man/geopath.rd | 77 +- man/getWikimedia.Rd | 11 man/gpxbtour.Rd | 2 man/kml.tiles.Rd | 96 +-- man/kml_compress.Rd | 88 +-- man/kml_layer.Rd | 145 +++-- man/kml_legend.bar.Rd | 2 man/kml_screen.Rd | 2 man/layer.Raster.Rd | 2 man/layer.STIDF.Rd | 2 man/layer.STTDF.Rd | 2 man/layer.SpatialLines.Rd | 84 +-- man/layer.SpatialPhotoOverlay.Rd | 2 man/layer.SpatialPixels.Rd | 2 man/legend.whitening.Rd | 4 man/metadata2SLD.Rd | 2 man/metadata2SLD.SpatialPixels.Rd | 4 man/normalizeFilename.Rd | 2 man/plotKML-package.Rd | 4 man/plotKML.GDALobj.Rd | 104 +-- man/plotKML.Rd | 1051 ++++++++++++++++++-------------------- man/plotKML.env.Rd | 8 man/readGPX.Rd | 62 +- man/readKML.GBIFdensity.Rd | 4 man/reproject.Rd | 6 man/spMetadata.Rd | 2 man/spPhoto.Rd | 10 man/vect2rast.Rd | 8 man/whitening.Rd | 6 tests |only vignettes/jss1079.Rnw | 29 - vignettes/jss1079.bib | 12 81 files changed, 2387 insertions(+), 2164 deletions(-)
Title: Flights that Departed NYC in 2013
Description: Airline on-time data for all flights departing NYC in 2013.
Also includes useful 'metadata' on airlines, airports, weather, and
planes.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between nycflights13 versions 1.0.1 dated 2019-09-16 and 1.0.2 dated 2021-04-12
nycflights13-1.0.1/nycflights13/data/datalist |only nycflights13-1.0.2/nycflights13/DESCRIPTION | 17 +++++++++-------- nycflights13-1.0.2/nycflights13/MD5 | 21 ++++++++++----------- nycflights13-1.0.2/nycflights13/NEWS.md | 4 ++++ nycflights13-1.0.2/nycflights13/R/airport.R | 2 +- nycflights13-1.0.2/nycflights13/R/planes.R | 2 +- nycflights13-1.0.2/nycflights13/R/weather.R | 2 +- nycflights13-1.0.2/nycflights13/man/airlines.Rd | 6 ++++-- nycflights13-1.0.2/nycflights13/man/airports.Rd | 8 +++++--- nycflights13-1.0.2/nycflights13/man/flights.Rd | 6 ++++-- nycflights13-1.0.2/nycflights13/man/planes.Rd | 8 +++++--- nycflights13-1.0.2/nycflights13/man/weather.Rd | 6 ++++-- 12 files changed, 48 insertions(+), 34 deletions(-)
Title: Interval and Enum-Type Representation of Vectors
Description: Enum-type representation of vectors and representation
of intervals, including a method of coercing variables in data frames.
Author: Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between inum versions 1.0-3 dated 2021-02-08 and 1.0-4 dated 2021-04-12
DESCRIPTION | 8 +- MD5 | 10 +- R/inum.R | 6 + inst/NEWS.Rd | 8 ++ tests/bugfixes.R | 27 ++++++++ tests/bugfixes.Rout.save | 157 ++++++++++++++++++++++++++++++++++++++++++++++- 6 files changed, 203 insertions(+), 13 deletions(-)
Title: Geographically-Weighted Models
Description: Techniques from a particular branch of spatial statistics,termed geographically-weighted (GW) models. GW models suit situations when data are not described well by some global model, but where there are spatial regions where a suitably localised calibration provides a better description. 'GWmodel' includes functions to calibrate: GW summary statistics (Brunsdon et al., 2002)<doi: 10.1016/s0198-9715(01)00009-6>, GW principal components analysis (Harris et al., 2011)<doi: 10.1080/13658816.2011.554838>, GW discriminant analysis (Brunsdon et al., 2007)<doi: 10.1111/j.1538-4632.2007.00709.x> and various forms of GW regression (Brunsdon et al., 1996)<doi: 10.1111/j.1538-4632.1996.tb00936.x>; some of which are provided in basic and robust (outlier resistant) forms.
Author: Binbin Lu[aut], Paul Harris[aut], Martin Charlton[aut], Chris Brunsdon[aut], Tomoki Nakaya[aut], Daisuke Murakami[aut],Isabella Gollini[ctb], Yigong Hu[ctb], Fiona H Evans[ctb]
Maintainer: Binbin Lu <binbinlu@whu.edu.cn>
Diff between GWmodel versions 2.2-4 dated 2021-02-17 and 2.2-5 dated 2021-04-12
DESCRIPTION | 8 - MD5 | 14 +- R/RcppExports.R | 61 ++++++++++- R/gwr.basic.r | 4 R/zzz.r | 2 man/GWmodel-package.Rd | 4 src/GWmodel.cpp | 266 +++++++------------------------------------------ src/RcppExports.cpp | 20 +-- 8 files changed, 124 insertions(+), 255 deletions(-)
Title: The Full Bayesian Evidence Test, Full Bayesian Significance Test
and the e-Value
Description: Provides access to a range of functions for computing and visualizing the Full Bayesian Significance Test (FBST) and the e-value for testing a sharp hypothesis against its alternative, and the Full Bayesian Evidence Test (FBET) and the (generalized) Bayesian evidence value for testing a composite (or interval) hypothesis against its alternative. The methods are widely applicable as long as a posterior MCMC sample is available. For details on the computation and theory of the FBST see <arXiv:2005.13181>.
Author: Riko Kelter
Maintainer: Riko Kelter <riko.kelter@uni-siegen.de>
Diff between fbst versions 1.4 dated 2021-03-09 and 1.5 dated 2021-04-12
fbst-1.4/fbst/inst/doc/fbet-vignette.R |only fbst-1.4/fbst/inst/doc/fbet-vignette.Rmd |only fbst-1.4/fbst/inst/doc/fbet-vignette.html |only fbst-1.4/fbst/inst/doc/my-vignette.R |only fbst-1.4/fbst/inst/doc/my-vignette.Rmd |only fbst-1.4/fbst/inst/doc/my-vignette.html |only fbst-1.4/fbst/vignettes/fbet-vignette.Rmd |only fbst-1.4/fbst/vignettes/my-vignette.Rmd |only fbst-1.5/fbst/DESCRIPTION | 10 +-- fbst-1.5/fbst/MD5 | 26 ++++---- fbst-1.5/fbst/R/fbst.R | 96 +++++++++++++++--------------- fbst-1.5/fbst/build/partial.rdb |binary fbst-1.5/fbst/build/vignette.rds |binary fbst-1.5/fbst/inst/doc/fbet.R |only fbst-1.5/fbst/inst/doc/fbet.Rmd |only fbst-1.5/fbst/inst/doc/fbet.html |only fbst-1.5/fbst/inst/doc/fbst.R |only fbst-1.5/fbst/inst/doc/fbst.Rmd |only fbst-1.5/fbst/inst/doc/fbst.html |only fbst-1.5/fbst/vignettes/fbet.Rmd |only fbst-1.5/fbst/vignettes/fbst.Rmd |only fbst-1.5/fbst/vignettes/library.bib | 25 +++++++ 22 files changed, 94 insertions(+), 63 deletions(-)
Title: Create, Modify and Analyse Phylogenetic Trees
Description: Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of node support;
calculation of ancestor-descendant relationships;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <http://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.
Author: Martin R. Smith [aut, cre, cph]
(<https://orcid.org/0000-0001-5660-1727>),
Emmanuel Paradis [cph] (<https://orcid.org/0000-0003-3092-2199>)
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between TreeTools versions 1.4.2 dated 2021-01-26 and 1.4.3 dated 2021-04-12
DESCRIPTION | 6 +- MD5 | 82 +++++++++++++++++---------------- NAMESPACE | 10 ++++ NEWS.md | 12 ++++ R/ArtificialExtinction.R | 10 ++-- R/Information.R | 24 ++++----- R/Splits.R | 2 R/Support.R | 10 +++- R/TreeNumber.R | 11 ++-- R/as.multiPhylo.R |only R/helper_functions.R | 8 ++- R/parse_files.R | 65 +++++++++++++++++++------- R/phylo.R | 42 +++++++++++++--- R/tree_display.R | 24 ++++++++- R/tree_information.R | 9 +++ R/tree_numbering.R | 28 ++++++----- R/tree_rearrangement.R | 19 +++++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/filesystem-navigation.html | 13 ++++- inst/doc/load-data.html | 13 ++++- inst/doc/load-trees.Rmd | 2 inst/doc/load-trees.html | 21 +++++--- man/AddTip.Rd | 10 ++++ man/CladisticInfo.Rd | 5 ++ man/LabelSplits.Rd | 5 +- man/ReadCharacters.Rd | 37 ++++++++++++-- man/RootTree.Rd | 8 ++- man/SortTree.Rd | 16 +++++- man/TreeNumber.Rd | 7 -- man/TreesMatchingSplit.Rd | 6 +- man/UnshiftTree.Rd | 8 ++- man/as.multiPhylo.Rd |only man/figures/Stemwardness.png |binary tests/testthat/Rplots.pdf |only tests/testthat/test-TreeNumber.R | 7 ++ tests/testthat/test-as.multiPhylo.R |only tests/testthat/test-helper_functions.R | 5 +- tests/testthat/test-information.R | 6 ++ tests/testthat/test-phylo.R | 22 ++++++++ tests/testthat/test-tree_display.R | 9 +++ tests/testthat/test-tree_information.R | 5 ++ tests/testthat/test-tree_rearrange.R | 48 ++++++++++++++++--- vignettes/load-trees.Rmd | 2 44 files changed, 455 insertions(+), 162 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-25 0.1.1
2020-02-29 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-27 0.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-09-14 0.1.0
Title: Tidy Temporal Data Frames and Tools
Description: Provides a 'tbl_ts' class (the 'tsibble') for
temporal data in an data- and model-oriented format. The 'tsibble'
provides tools to easily manipulate and analyse temporal data, such as
filling in time gaps and aggregating over calendar periods.
Author: Earo Wang [aut, cre] (<https://orcid.org/0000-0001-6448-5260>),
Di Cook [aut, ths] (<https://orcid.org/0000-0002-3813-7155>),
Rob Hyndman [aut, ths] (<https://orcid.org/0000-0002-2140-5352>),
Mitchell O'Hara-Wild [aut] (<https://orcid.org/0000-0001-6729-7695>),
Tyler Smith [ctb],
Wil Davis [ctb]
Maintainer: Earo Wang <earo.wang@gmail.com>
Diff between tsibble versions 1.0.0 dated 2021-02-20 and 1.0.1 dated 2021-04-12
DESCRIPTION | 6 +++--- MD5 | 26 +++++++++++++------------- NAMESPACE | 1 + NEWS.md | 4 ++++ R/as-tsibble.R | 2 +- R/utils.R | 9 +++++++++ R/yearmonth.R | 27 ++++++++++++++------------- build/tsibble.pdf |binary build/vignette.rds |binary inst/doc/faq.html | 10 +++++++++- inst/doc/implicit-na.html | 12 ++++++++++-- inst/doc/intro-tsibble.html | 10 +++++++++- man/year-month.Rd | 4 +++- tests/testthat/test-yearmonth.R | 4 ++++ 14 files changed, 80 insertions(+), 35 deletions(-)
Title: Mandallaz' Model-Assisted Small Area Estimators
Description: An S4 implementation of the unbiased extension of
the model- assisted synthetic-regression estimator proposed by
Mandallaz (2013) <DOI:10.1139/cjfr-2012-0381>, Mandallaz et al. (2013)
<DOI:10.1139/cjfr-2013-0181> and Mandallaz (2014)
<DOI:10.1139/cjfr-2013-0449>. It yields smaller variances than the
standard bias correction, the generalised regression estimator.
Author: Andreas Dominik Cullmann [aut, cre],
Daniel Mandallaz [ctb],
Alexander Francis Massey [ctb]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between maSAE versions 2.0.2 dated 2020-11-02 and 2.0.3 dated 2021-04-12
maSAE-2.0.2/maSAE/inst/doc/A_Taxonomy_of_Estimators.pdf |only maSAE-2.0.2/maSAE/inst/doc/A_Taxonomy_of_Estimators.tex |only maSAE-2.0.2/maSAE/inst/doc/forestinventory_and_maSAE.R |only maSAE-2.0.2/maSAE/inst/doc/forestinventory_and_maSAE.Rmd |only maSAE-2.0.2/maSAE/inst/doc/forestinventory_and_maSAE.html |only maSAE-2.0.2/maSAE/vignettes/A_Taxonomy_of_Estimators.tex |only maSAE-2.0.2/maSAE/vignettes/forestinventory_and_maSAE.Rmd |only maSAE-2.0.2/maSAE/vignettes/tex |only maSAE-2.0.3/maSAE/DESCRIPTION | 6 - maSAE-2.0.3/maSAE/MD5 | 63 ++++++++++---- maSAE-2.0.3/maSAE/NEWS.md | 4 maSAE-2.0.3/maSAE/R/allClasses.R | 2 maSAE-2.0.3/maSAE/R/maSAE-package.R | 6 - maSAE-2.0.3/maSAE/README.md | 7 - maSAE-2.0.3/maSAE/build/partial.rdb |only maSAE-2.0.3/maSAE/build/vignette.rds |binary maSAE-2.0.3/maSAE/inst/compare_to_forestinventory |only maSAE-2.0.3/maSAE/inst/doc/maSAE.pdf |binary maSAE-2.0.3/maSAE/inst/old_doc |only maSAE-2.0.3/maSAE/man/maSAE-package.Rd | 6 - maSAE-2.0.3/maSAE/man/saeObj-class.Rd | 2 21 files changed, 64 insertions(+), 32 deletions(-)
Title: Explore and Visualize Your Data Interactively
Description: A 'shiny' gadget to create 'ggplot2' figures interactively with drag-and-drop to map your variables to different aesthetics.
You can quickly visualize your data accordingly to their type, export in various formats,
and retrieve the code to reproduce the plot.
Author: Fanny Meyer [aut],
Victor Perrier [aut, cre],
Ian Carroll [ctb] (Faceting support),
Xiangnan Dang [ctb] (Facets rows and cols, X/Y limits)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between esquisse versions 0.3.1 dated 2020-09-27 and 1.0.0 dated 2021-04-12
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Title: Methods for Analysing 'EQ-5D' Data and Calculating 'EQ-5D' Index
Scores
Description: EQ-5D is a popular health related quality of life instrument used
in the clinical and economic evaluation of health care. Developed by the
EuroQol group <https://euroqol.org/>, the instrument consists of two
components: health state description and evaluation. For the description
component a subject self-rates their health in terms of five dimensions;
mobility, self-care, usual activities, pain/discomfort, and
anxiety/depression using either a three-level (EQ-5D-3L,
<https://euroqol.org/eq-5d-instruments/eq-5d-3l-about/>) or a five-level
(EQ-5D-5L, <https://euroqol.org/eq-5d-instruments/eq-5d-5l-about/>)
scale. Frequently the scores on these five dimensions are converted to a
single utility index using country specific value sets, which can be used
in the clinical and economic evaluation of health care as well as in
population health surveys. The eq5d package provides methods to calculate
index scores from a subject's dimension scores. 28 TTO and 11 VAS EQ-5D-3L
value sets including those for countries in Szende et al (2007)
<doi:10.1007/1-4020-5511-0> and Szende et al (2014)
<doi:10.1007/978-94-007-7596-1>, 27 EQ-5D-5L EQ-VT value sets from the
EuroQol website, the EQ-5D-5L crosswalk value sets developed by
van Hout et al. (2012) <doi:10.1016/j.jval.2012.02.008> as well as the
crosswalk value set for Russia. Two EQ-5D-Y value sets are also included.
Methods are also included for the analysis of EQ-5D profiles along with a
shiny web tool to enable the calculation, visualisation and automated
statistical analysis of EQ-5D data via a web browser using EQ-5D dimension
scores stored in CSV or Excel files.
Author: Fraser Morton [aut, cre],
Jagtar Singh Nijjar [aut]
Maintainer: Fraser Morton <fraser.morton@glasgow.ac.uk>
Diff between eq5d versions 0.8.1 dated 2021-02-09 and 0.9.0 dated 2021-04-12
DESCRIPTION | 15 +++-- MD5 | 79 ++++++++++++++++--------------- NAMESPACE | 1 NEWS.md | 8 +++ R/data.R | 38 +++++++++++---- R/eq5d.R | 19 +++++-- R/eq5dds.R | 9 +-- R/eq5dlfs.R | 12 ++-- R/eq5dlss.R | 6 +- R/eq5dy.R |only R/eqpchc.R | 4 - R/helpers.R | 26 +++++++--- README.md | 49 ++++++++++--------- data/cw.RData |binary data/tto.RData |binary data/vt.RData |binary data/y.RData |only inst/doc/eq5d.R | 5 + inst/doc/eq5d.Rmd | 11 ++-- inst/doc/eq5d.html | 88 ++++++++++++++++++----------------- inst/shiny/server.R | 23 +++++++-- man/CW.Rd | 9 ++- man/TTO.Rd | 12 +++- man/VT.Rd | 10 ++- man/Y.Rd |only man/eq5d-package.Rd | 20 ++++--- man/eq5d.Rd | 3 - man/eq5dy.Rd |only man/getDimensionsFromHealthStates.Rd | 2 man/getHealthStates.Rd | 4 + man/getHealthStatesFromDimensions.Rd | 2 man/lfs.Rd | 2 tests/testthat/test-eq5d.R | 2 tests/testthat/test-eq5d3l.R | 6 ++ tests/testthat/test-eq5d5l.R | 7 ++ tests/testthat/test-eq5dcf.R | 2 tests/testthat/test-eq5dcw.R | 8 +++ tests/testthat/test-eq5dds.R | 2 tests/testthat/test-eq5dlfs.R | 2 tests/testthat/test-eq5dlss.R | 2 tests/testthat/test-eq5dy.R |only tests/testthat/test-eqpchc.R | 1 vignettes/eq5d.Rmd | 11 ++-- 43 files changed, 318 insertions(+), 182 deletions(-)
Title: Utilities from 'Seminar fuer Statistik' ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH Zurich,
some of which were ported from S-plus in the 1990s.
For graphics, have pretty (Log-scale) axes, an enhanced Tukey-Anscombe
plot, combining histogram and boxplot, 2d-residual plots, a 'tachoPlot()',
pretty arrows, etc.
For robustness, have a robust F test and robust range().
For system support, notably on Linux, provides 'Sys.*()' functions with
more access to system and CPU information.
Finally, miscellaneous utilities such as simple efficient prime numbers,
integer codes, Duplicated(), toLatex.numeric() and is.whole().
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>),
Werner Stahel [ctb] (Functions: compresid2way(), f.robftest(), last(),
p.scales(), p.dnorm()),
Andreas Ruckstuhl [ctb] (Functions: p.arrows(), p.profileTraces(),
p.res.2x()),
Christian Keller [ctb] (Functions: histBxp(), p.tachoPlot()),
Kjetil Halvorsen [ctb] (Functions: KSd(), ecdf.ksCI()),
Alain Hauser [ctb] (Functions: cairoSwd(), is.whole(),
toLatex.numeric()*),
Christoph Buser [ctb] (to function Duplicated()),
Lorenz Gygax [ctb] (to function p.res.2fact()),
Bill Venables [ctb] (Functions: empty.dimnames(), primes()),
Tony Plate [ctb] (to inv.seq()),
Isabelle Fl<fc>ckiger [ctb],
Marcel Wolbers [ctb],
Markus Keller [ctb],
Sandrine Dudoit [ctb],
Jane Fridlyand [ctb],
Greg Snow [ctb] (to loessDemo()),
Henrik Aa. Nielsen [ctb] (to loessDemo()),
Vincent Carey [ctb],
Ben Bolker [ctb],
Philippe Grosjean [ctb],
Fr<e9>d<e9>ric Ibanez [ctb],
Caterina Savi [ctb],
Charles Geyer [ctb],
Jens Oehlschl<e4>gel [ctb]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between sfsmisc versions 1.1-10 dated 2021-03-29 and 1.1-11 dated 2021-04-12
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- R/Defunct.R | 12 ++++++++++++ R/Deprecated.R | 16 ---------------- R/sessionInfo-ext.R | 12 +++++++----- inst/NEWS.Rd | 21 ++++++++++++++++++++- man/posdefify.Rd | 2 ++ man/sessionInfoX.Rd | 6 ++++-- tests/posdef.R | 11 +++++++++-- tests/posdef.Rout.save | 21 +++++++++++++++------ 10 files changed, 83 insertions(+), 46 deletions(-)
Title: 'Rcpp' Interface to 'PostgreSQL'
Description: Fully 'DBI'-compliant 'Rcpp'-backed interface to
'PostgreSQL' <https://www.postgresql.org/>, an open-source relational
database.
Author: Hadley Wickham [aut],
Jeroen Ooms [aut],
Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
RStudio [cph],
R Consortium [fnd],
Tomoaki Nishiyama [ctb] (Code for encoding vectors into strings derived
from RPostgreSQL)
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between RPostgres versions 1.3.1 dated 2021-01-19 and 1.3.2 dated 2021-04-12
DESCRIPTION | 10 MD5 | 1668 ++++++++++++++++++++++++++++++++++++++++++++++- NEWS.md | 15 R/PqConnection.R | 3 R/PqResult.R | 6 R/Redshift.R | 4 R/quote.R | 5 R/tables.R | 2 README.md | 2 build/vignette.rds |binary configure | 17 inst/doc/work-queue.R | 312 ++++---- inst/doc/work-queue.Rmd | 2 inst/doc/work-queue.html | 478 ++++--------- man/Redshift.Rd | 4 man/postgres-query.Rd | 6 man/postgres-tables.Rd | 2 man/quote.Rd | 5 src/Makevars.in | 2 src/Makevars.win | 2 src/vendor |only vignettes/work-queue.Rmd | 2 22 files changed, 2006 insertions(+), 541 deletions(-)
Title: Estimation of Model-Based Predictions, Contrasts and Means
Description: Implements a general interface for model-based
estimations for a wide variety of models (see support list of insight;
Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), used
in the computation of marginal means, contrast analysis and
predictions.
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>,
@Dom_Makowski),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [ctb] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between modelbased versions 0.5.1 dated 2021-01-27 and 0.6.0 dated 2021-04-12
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Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-18 1.1
Title: Multivariate Fay Herriot Models for Small Area Estimation
Description: Implements multivariate Fay-Herriot models for small area estimation. It uses empirical best linear unbiased prediction (EBLUP) estimator. Multivariate models consider the correlation of several target variables and borrow strength from auxiliary variables to improve the effectiveness of a domain sample size. Models which accommodated by this package are univariate model with several target variables (model 0), multivariate model (model 1), autoregressive multivariate model (model 2), and heteroscedastic autoregressive multivariate model (model 3). Functions provide EBLUP estimators and mean squared error (MSE) estimator for each model. These models were developed by Roberto Benavent and Domingo Morales (2015) <doi:10.1016/j.csda.2015.07.013>.
Author: Novia Permatasari, Azka Ubaidillah
Maintainer: Novia Permatasari <16.9335@stis.ac.id>
Diff between msae versions 0.1.2 dated 2020-06-05 and 0.1.3 dated 2021-04-12
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- R/data1.R | 12 +++++++----- R/data2.R | 14 ++++++++------ R/data3.R | 14 ++++++++------ data/datasae1.rda |binary data/datasae2.rda |binary data/datasae3.rda |binary man/datasae1.Rd | 12 +++++++----- man/datasae2.Rd | 14 ++++++++------ man/datasae3.Rd | 14 ++++++++------ 11 files changed, 59 insertions(+), 47 deletions(-)
Title: Simulation and Analysis Tools for Clinical Dose Response
Modeling
Description: Bayesian and ML Emax model fitting, graphics and simulation for clinical dose
response. The summary data from the dose response meta-analyses in
Thomas, Sweeney, and Somayaji (2014) <doi:10.1080/19466315.2014.924876> and
Thomas and Roy (2016) <doi:10.1080/19466315.2016.1256229>
Wu, Banerjee, Jin, Menon, Martin, and Heatherington(2017) <doi:10.1177/0962280216684528>
are included
in the package. The prior distributions for the Bayesian analyses default to
the posterior predictive distributions derived from these references.
Author: Neal Thomas [aut, cre] (<https://orcid.org/0000-0002-1915-8487>),
Jing Wu [aut],
Mike K. Smith [aut]
Maintainer: Neal Thomas <snthomas99@gmail.com>
Diff between clinDR versions 2.3 dated 2020-07-01 and 2.3.5 dated 2021-04-12
DESCRIPTION | 20 +-- MD5 | 63 +++++----- NAMESPACE | 12 + R/fitEmaxB.R | 24 +-- R/generic.R | 10 + R/runShiny.R |only inst/NEWS | 6 inst/shiny |only inst/tests/extraGraphics/pdfoutput/output.densityplot_new.pdf |binary inst/tests/extraGraphics/pdfoutput/output.densityplot_old.pdf |binary inst/tests/extraGraphics/pdfoutput/output.emaxsimBobj_new.pdf |binary inst/tests/extraGraphics/pdfoutput/output.emaxsimBobj_old.pdf |binary inst/tests/extraGraphics/pdfoutput/output.emaxsimobj_new.pdf |binary inst/tests/extraGraphics/pdfoutput/output.emaxsimobj_old.pdf |binary inst/tests/extraGraphics/pdfoutput/output.fitEmaxB_new.pdf |binary inst/tests/extraGraphics/pdfoutput/output.fitEmaxB_old.pdf |binary inst/tests/extraGraphics/pdfoutput/output.fitEmax_new.pdf |binary inst/tests/extraGraphics/pdfoutput/output.fitEmax_old.pdf |binary inst/tests/extraGraphics/pdfoutput/output.plotB_new.pdf |binary inst/tests/extraGraphics/pdfoutput/output.plotB_old.pdf |binary inst/tests/extraGraphics/pdfoutput/output.plotD_new.pdf |binary inst/tests/extraGraphics/pdfoutput/output.plotD_old.pdf |binary inst/tests/test.fitEmaxB.R | 6 inst/tests/test.fitEmaxBlocalParm.R | 34 ++++- inst/tests/test.shinyapp.R |only man/clinDR-package.Rd | 2 man/emaxPrior.control.Rd | 2 man/fitEmaxB.Rd | 17 ++ man/mcmc.control.Rd | 2 man/metaData.Rd | 2 man/plot.emaxsim.Rd | 3 man/runShiny.Rd |only 32 files changed, 134 insertions(+), 69 deletions(-)
Title: Graphics in the Context of Analyzing High-Throughput Data
Description: Additional options for making graphics in the context of analyzing high-throughput data are available here.
This includes automatic segmenting of the current device (eg window) to accommodate multiple new plots,
automatic checking for optimal location of legends in plots, small histograms to insert as legends,
histograms re-transforming axis labels to linear when plotting log2-transformed data,
a violin-plot <doi:10.1080/00031305.1998.10480559> function for a wide variety of input-formats,
principal components analysis (PCA) <doi:10.1080/14786440109462720> with bag-plots <doi:10.1080/00031305.1999.10474494> to highlight and compare the center areas for groups of samples,
generic MA-plots (differential- versus average-value plots) <doi:10.1093/nar/30.4.e15>,
staggered count plots and generation of mouse-over interactive html pages.
Author: Wolfgang Raffelsberger [aut, cre]
Maintainer: Wolfgang Raffelsberger <w.raffelsberger@gmail.com>
Diff between wrGraph versions 1.2.2 dated 2021-03-03 and 1.2.3 dated 2021-04-11
DESCRIPTION | 7 MD5 | 44 ++-- NAMESPACE | 2 R/MAplotW.R | 451 ++++++++++++++++++++++++++++++----------- R/VolcanoPlotW.R | 321 +++++++++++++++++++---------- R/addBagPlot.R | 2 R/histW.R | 80 ++++--- R/imageW.R | 31 +- R/legendHist.R | 34 +-- R/plotPCAw.R | 70 +++--- R/vioplotW.R | 92 +++++--- build/vignette.rds |binary inst/doc/wrGraphVignette1.R | 43 ++- inst/doc/wrGraphVignette1.Rmd | 70 +++--- inst/doc/wrGraphVignette1.html | 288 +++++++++++++------------- man/MAplotW.Rd | 75 ++++-- man/VolcanoPlotW.Rd | 38 ++- man/addBagPlot.Rd | 2 man/histW.Rd | 19 + man/imageW.Rd | 9 man/plotPCAw.Rd | 3 man/vioplotW.Rd | 11 - vignettes/wrGraphVignette1.Rmd | 70 +++--- 23 files changed, 1122 insertions(+), 640 deletions(-)
Title: Spatial Objects of the Czech Republic
Description: Administrative regions and other spatial objects of the Czech Republic.
Author: Jindra Lacko
Maintainer: Jindra Lacko <jindra.lacko@gmail.com>
Diff between RCzechia versions 1.6.7 dated 2021-03-03 and 1.7.0 dated 2021-04-11
DESCRIPTION | 9 +-- MD5 | 60 ++++++++++++------------- NEWS.md | 6 ++ R/casti.R | 6 +- R/geocode.R | 76 +++++++++++++++++++------------- R/kraje.R | 4 - R/obce_body.R | 4 - R/obce_polygony.R | 4 - R/okresy.R | 4 - R/orp_polygony.R | 6 +- R/republika.R | 4 - R/revgeo.R | 31 ++++++++----- R/sysdata.rda |binary R/volebni_okrsky.R | 4 - build/vignette.rds |binary inst/doc/vignette.R | 4 - inst/doc/vignette.Rmd | 4 - inst/doc/vignette.html | 16 +++--- man/casti.Rd | 4 - man/geocode.Rd | 10 ++-- man/kraje.Rd | 2 man/obce_body.Rd | 2 man/obce_polygony.Rd | 2 man/okresy.Rd | 2 man/orp_polygony.Rd | 4 - man/republika.Rd | 2 man/revgeo.Rd | 2 tests/testthat/test-1-data-structures.R | 33 +++++++++---- tests/testthat/test-2-code.R | 28 +++++++---- tests/testthat/test-3-integrace.R | 9 ++- vignettes/vignette.Rmd | 4 - 31 files changed, 199 insertions(+), 147 deletions(-)
Title: A Report Templating System
Description: Facilitating the creation of reproducible statistical
report templates. Once created, rapport templates can be exported to
various external formats (HTML, LaTeX, PDF, ODT etc.) with pandoc as the
converter backend.
Author: Aleksandar Blagotić <alex@rapporter.net> and Gergely Daróczi
<daroczig@rapporter.net>
Maintainer: Gergely Daróczi <daroczig@rapporter.net>
Diff between rapport versions 1.0 dated 2015-11-18 and 1.1 dated 2021-04-11
rapport-1.0/rapport/data/ius2008.rda |only rapport-1.0/rapport/inst/tests |only rapport-1.1/rapport/DESCRIPTION | 13 - rapport-1.1/rapport/INSTALL | 4 rapport-1.1/rapport/MD5 | 129 ++++------ rapport-1.1/rapport/NAMESPACE | 2 rapport-1.1/rapport/NEWS | 7 rapport-1.1/rapport/R/export.R | 6 rapport-1.1/rapport/R/print.methods.R | 8 rapport-1.1/rapport/R/rapport.R | 4 rapport-1.1/rapport/R/rp_helpers.R | 4 rapport-1.1/rapport/R/template.R | 6 rapport-1.1/rapport/data/ius2008.R |only rapport-1.1/rapport/demo/rapport.R | 4 rapport-1.1/rapport/inst/CITATION | 4 rapport-1.1/rapport/inst/includes/javascripts/custom.js | 2 rapport-1.1/rapport/inst/templates/Example.rapport | 16 - rapport-1.1/rapport/inst/templates/deprecated/Example.rapport | 16 - rapport-1.1/rapport/man/as.character.rapport.inputs.Rd | 3 rapport-1.1/rapport/man/as.character.rapport.meta.Rd | 3 rapport-1.1/rapport/man/as.yaml.bool.Rd | 3 rapport-1.1/rapport/man/check.input.value.Rd | 10 rapport-1.1/rapport/man/check.input.value.class.Rd | 10 rapport-1.1/rapport/man/check.report.chunks.Rd | 3 rapport-1.1/rapport/man/check.tpl.Rd | 11 rapport-1.1/rapport/man/extract.meta.Rd | 16 - rapport-1.1/rapport/man/get.tags.Rd | 9 rapport-1.1/rapport/man/guess.input.Rd | 3 rapport-1.1/rapport/man/guess.input.description.Rd | 3 rapport-1.1/rapport/man/guess.input.label.Rd | 3 rapport-1.1/rapport/man/guess.input.name.Rd | 3 rapport-1.1/rapport/man/guess.l.Rd | 11 rapport-1.1/rapport/man/guess.old.input.length.Rd | 3 rapport-1.1/rapport/man/guess.old.input.type.Rd | 3 rapport-1.1/rapport/man/inputs-deprecated.Rd | 3 rapport-1.1/rapport/man/is.rapport.Rd | 3 rapport-1.1/rapport/man/ius2008.Rd | 3 rapport-1.1/rapport/man/print.rapport.Rd | 3 rapport-1.1/rapport/man/print.rapport.info.Rd | 3 rapport-1.1/rapport/man/print.rapport.inputs.Rd | 3 rapport-1.1/rapport/man/print.rapport.meta.Rd | 3 rapport-1.1/rapport/man/rapport-helpers.Rd | 3 rapport-1.1/rapport/man/rapport-package.Rd | 7 rapport-1.1/rapport/man/rapport.Rd | 19 + rapport-1.1/rapport/man/rapport.body.Rd | 3 rapport-1.1/rapport/man/rapport.check.template.Rd | 3 rapport-1.1/rapport/man/rapport.docx.Rd | 3 rapport-1.1/rapport/man/rapport.example.Rd | 3 rapport-1.1/rapport/man/rapport.export.Rd | 20 + rapport-1.1/rapport/man/rapport.header.Rd | 11 rapport-1.1/rapport/man/rapport.html.Rd | 3 rapport-1.1/rapport/man/rapport.info.Rd | 3 rapport-1.1/rapport/man/rapport.inputs.Rd | 3 rapport-1.1/rapport/man/rapport.ls.Rd | 3 rapport-1.1/rapport/man/rapport.meta.Rd | 3 rapport-1.1/rapport/man/rapport.odt.Rd | 3 rapport-1.1/rapport/man/rapport.path.Rd | 3 rapport-1.1/rapport/man/rapport.path.add.Rd | 3 rapport-1.1/rapport/man/rapport.path.remove.Rd | 3 rapport-1.1/rapport/man/rapport.path.reset.Rd | 3 rapport-1.1/rapport/man/rapport.pdf.Rd | 3 rapport-1.1/rapport/man/rapport.read.Rd | 3 rapport-1.1/rapport/man/rapport.renew.Rd | 3 rapport-1.1/rapport/man/rapport.rerun.Rd | 3 rapport-1.1/rapport/man/rapport.tangle.Rd | 3 65 files changed, 231 insertions(+), 229 deletions(-)
Title: Functions for Tabular Reporting
Description: Create pretty tables for 'HTML', 'PDF', 'Microsoft Word' and 'Microsoft PowerPoint'
documents from 'R Markdown'. Functions are provided to let users create tables, modify and format
their content. It also extends package 'officer' that does not contain any feature for customized
tabular reporting.
Author: David Gohel [aut, cre],
Clementine Jager [ctb],
Quentin Fazilleau [ctb],
Maxim Nazarov [ctb] (rmarkdown for docx output),
Titouan Robert [ctb],
Michael Barrowman [ctb] (inline footnotes),
Atsushi Yasumoto [ctb] (support for bookdown cross reference),
Paul Julian [ctb] (support for gam objects)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.6.4 dated 2021-03-10 and 0.6.5 dated 2021-04-11
DESCRIPTION | 9 +++----- MD5 | 49 ++++++++++++++++++++++++----------------------- NAMESPACE | 1 NEWS.md | 8 +++++++ R/01_fpstruct.R | 22 +++++++++++++++++++-- R/05_content.R | 50 ++++++++++++++++++++++++++++++++++++++++++++++++ R/html_str.R | 7 ++++++ R/latex_chunks.R | 3 ++ R/printers.R | 7 +++++- man/as_b.Rd | 1 man/as_bracket.Rd | 1 man/as_chunk.Rd | 1 man/as_equation.Rd |only man/as_highlight.Rd | 1 man/as_i.Rd | 1 man/as_image.Rd | 1 man/as_sub.Rd | 1 man/as_sup.Rd | 1 man/colorize.Rd | 1 man/flextable_to_rmd.Rd | 6 ++++- man/gg_chunk.Rd | 1 man/hyperlink_text.Rd | 1 man/linerange.Rd | 1 man/lollipop.Rd | 1 man/minibar.Rd | 1 man/plot_chunk.Rd | 1 26 files changed, 144 insertions(+), 33 deletions(-)
Title: Doubly Truncated Data Analysis
Description: Implementation of different algorithms for analyzing
randomly truncated data, one-sided and two-sided (i.e. doubly)
truncated data. It also computes the kernel density and hazard functions
using different bandwidth selectors.
Several real data sets are included.
Author: Carla Moreira, Jacobo de Unã-Álvarez and Rosa Crujeiras
Maintainer: Carla Moreira <carlamgmm@gmail.com>
Diff between DTDA versions 2.1-2 dated 2020-02-19 and 3.0 dated 2021-04-11
DESCRIPTION | 15 MD5 | 42 NAMESPACE | 10 R/densityDT.R |only R/efron.petrosian.R | 931 ++++++---- R/hazardDT.R |only R/lynden.R | 739 +++++--- R/rsim.DT.R |only R/shen.R | 4413 ++++++++++++++++++++++++++++--------------------- data/ACS.rda |only data/ACSred.rda |only data/AIDS.DT.rda |only data/ChildCancer.rda |only data/EqSRounded.rda |only data/PDearly.rda |only data/PDlate.rda |only man/ACS.Rd |only man/ACSred.Rd |only man/AIDS.DT.Rd |only man/AIDS.Rd | 6 man/ChildCancer.Rd |only man/DTDA-package.Rd | 45 man/EqSRounded.Rd |only man/PDearly.Rd |only man/PDlate.Rd |only man/Quasars.Rd | 27 man/densityDT.Rd |only man/efron.petrosian.Rd | 13 man/hazardDT.Rd |only man/lynden.Rd | 8 man/rsim.DT.Rd |only man/shen.Rd | 11 32 files changed, 3773 insertions(+), 2487 deletions(-)
Title: R Interface to the US Census Bureau International Data Base API
Description: Use R to make requests to the US Census Bureau's International Data Base API.
Results are returned as R data frames. For more information about the IDB API, visit
<https://www.census.gov/data/developers/data-sets/international-database.html>.
Author: Kyle Walker [aut, cre]
Maintainer: Kyle Walker <kyle.walker@tcu.edu>
Diff between idbr versions 0.3 dated 2018-04-15 and 1.0 dated 2021-04-11
idbr-0.3/idbr/R/idb.R |only idbr-0.3/idbr/R/idbr_package.R |only idbr-1.0/idbr/DESCRIPTION | 16 +-- idbr-1.0/idbr/LICENSE | 2 idbr-1.0/idbr/MD5 | 37 ++++--- idbr-1.0/idbr/NAMESPACE | 26 +++-- idbr-1.0/idbr/R/IDBr_package.R |only idbr-1.0/idbr/R/get_idb.R |only idbr-1.0/idbr/R/helpers.R | 66 ++++++------- idbr-1.0/idbr/R/idb-deprecated.R |only idbr-1.0/idbr/R/reference.R | 42 ++++---- idbr-1.0/idbr/R/variables5.R | 38 +++---- idbr-1.0/idbr/R/zzz.R | 49 +++++---- idbr-1.0/idbr/README.md | 185 ++++++++++++++++++------------------- idbr-1.0/idbr/man/get_idb.Rd |only idbr-1.0/idbr/man/idb1.Rd | 131 +++++++++++++------------- idbr-1.0/idbr/man/idb5.Rd | 116 ++++++++++++----------- idbr-1.0/idbr/man/idb_api_key.Rd | 44 ++++---- idbr-1.0/idbr/man/idb_concepts.Rd | 22 ++-- idbr-1.0/idbr/man/idb_variables.Rd | 22 ++-- idbr-1.0/idbr/man/idbr.Rd | 41 ++++---- idbr-1.0/idbr/man/variables5.Rd | 53 +++++----- idbr-1.0/idbr/tools |only 23 files changed, 458 insertions(+), 432 deletions(-)
Title: Search and Retrieve Spatial Data from 'GUGiK'
Description: Automatic open data acquisition from resources of Polish Head Office
of Geodesy and Cartography ('Główny Urząd Geodezji i Kartografii')
(<www.gugik.gov.pl>).
Available datasets include various types of numeric, raster and vector data,
such as orthophotomaps, digital elevation models (digital terrain models,
digital surface model, point clouds), state register of borders, spatial
databases, geometries of cadastral parcels, 3D models of buildings, and more.
It is also possible to geocode addresses or objects using the geocodePL_get()
function.
Author: Krzysztof Dyba [aut, cre] (<https://orcid.org/0000-0002-8614-3816>),
Jakub Nowosad [aut] (<https://orcid.org/0000-0002-1057-3721>),
Maciej Beręsewicz [ctb] (<https://orcid.org/0000-0002-8281-4301>),
GUGiK [ctb] (source of the data)
Maintainer: Krzysztof Dyba <adres7@gmail.com>
Diff between rgugik versions 0.2.1 dated 2020-12-15 and 0.3.0 dated 2021-04-11
rgugik-0.2.1/rgugik/R/orto_request.R |only rgugik-0.2.1/rgugik/man/orto_request.Rd |only rgugik-0.2.1/rgugik/tests/testthat/test-orto_request.R |only rgugik-0.3.0/rgugik/DESCRIPTION | 6 rgugik-0.3.0/rgugik/MD5 | 104 - rgugik-0.3.0/rgugik/NAMESPACE | 1 rgugik-0.3.0/rgugik/R/DEM_request.R | 20 rgugik-0.3.0/rgugik/R/borders_download.R | 3 rgugik-0.3.0/rgugik/R/borders_get.R | 2 rgugik-0.3.0/rgugik/R/county_names.R | 4 rgugik-0.3.0/rgugik/R/emuia_download.R | 5 rgugik-0.3.0/rgugik/R/geocodePL_get.R | 3 rgugik-0.3.0/rgugik/R/geodb_download.R | 5 rgugik-0.3.0/rgugik/R/geonames_download.R | 3 rgugik-0.3.0/rgugik/R/minmaxDTM_get.R | 2 rgugik-0.3.0/rgugik/R/models3D_download.R | 3 rgugik-0.3.0/rgugik/R/ortho_request.R |only rgugik-0.3.0/rgugik/R/parcel_get.R | 2 rgugik-0.3.0/rgugik/R/pointDTM100_download.R | 5 rgugik-0.3.0/rgugik/R/pointDTM_get.R | 2 rgugik-0.3.0/rgugik/R/tile_download.R | 19 rgugik-0.3.0/rgugik/R/topodb_download.R | 3 rgugik-0.3.0/rgugik/R/utils.R | 6 rgugik-0.3.0/rgugik/README.md | 382 +++--- rgugik-0.3.0/rgugik/build/vignette.rds |binary rgugik-0.3.0/rgugik/inst/CITATION |only rgugik-0.3.0/rgugik/inst/doc/DEM.Rmd | 62 - rgugik-0.3.0/rgugik/inst/doc/DEM.html | 370 +----- rgugik-0.3.0/rgugik/inst/doc/orthophotomap.Rmd | 13 rgugik-0.3.0/rgugik/inst/doc/orthophotomap.html | 302 ----- rgugik-0.3.0/rgugik/inst/doc/topodb.Rmd | 912 ++++++++-------- rgugik-0.3.0/rgugik/inst/doc/topodb.html | 417 +------ rgugik-0.3.0/rgugik/man/DEM_request.Rd | 15 rgugik-0.3.0/rgugik/man/borders_download.Rd | 4 rgugik-0.3.0/rgugik/man/borders_get.Rd | 4 rgugik-0.3.0/rgugik/man/county_names.Rd | 2 rgugik-0.3.0/rgugik/man/emuia_download.Rd | 4 rgugik-0.3.0/rgugik/man/geocodePL_get.Rd | 6 rgugik-0.3.0/rgugik/man/geodb_download.Rd | 4 rgugik-0.3.0/rgugik/man/geonames_download.Rd | 4 rgugik-0.3.0/rgugik/man/minmaxDTM_get.Rd | 4 rgugik-0.3.0/rgugik/man/models3D_download.Rd | 4 rgugik-0.3.0/rgugik/man/ortho_request.Rd |only rgugik-0.3.0/rgugik/man/parcel_get.Rd | 4 rgugik-0.3.0/rgugik/man/pointDTM100_download.Rd | 4 rgugik-0.3.0/rgugik/man/pointDTM_get.Rd | 4 rgugik-0.3.0/rgugik/man/tile_download.Rd | 10 rgugik-0.3.0/rgugik/man/topodb_download.Rd | 4 rgugik-0.3.0/rgugik/tests/testthat/test-ortho_request.R |only rgugik-0.3.0/rgugik/tests/testthat/test-tile_download.R | 12 rgugik-0.3.0/rgugik/tests/testthat/test-utils.R |only rgugik-0.3.0/rgugik/vignettes/DEM.Rmd | 62 - rgugik-0.3.0/rgugik/vignettes/DEM.Rmd.orig | 25 rgugik-0.3.0/rgugik/vignettes/orthophotomap.Rmd | 13 rgugik-0.3.0/rgugik/vignettes/orthophotomap.Rmd.orig | 12 rgugik-0.3.0/rgugik/vignettes/topodb.Rmd | 912 ++++++++-------- rgugik-0.3.0/rgugik/vignettes/topodb.Rmd.orig | 7 57 files changed, 1602 insertions(+), 2174 deletions(-)
Title: Parallel Programming Tools for 'Rcpp'
Description: High level functions for parallel programming with 'Rcpp'.
For example, the 'parallelFor()' function can be used to convert the work of
a standard serial "for" loop into a parallel one and the 'parallelReduce()'
function can be used for accumulating aggregate or other values.
Author: JJ Allaire [aut],
Romain Francois [aut, cph],
Kevin Ushey [aut, cre],
Gregory Vandenbrouck [aut],
Marcus Geelnard [aut, cph] (TinyThread library,
https://tinythreadpp.bitsnbites.eu/),
Hamada S. Badr [ctb] (<https://orcid.org/0000-0002-9808-2344>),
RStudio [cph],
Intel [aut, cph] (Intel TBB library,
https://www.threadingbuildingblocks.org/),
Microsoft [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between RcppParallel versions 5.0.3 dated 2021-02-24 and 5.1.1 dated 2021-04-11
RcppParallel-5.0.3/RcppParallel/R/build.R |only RcppParallel-5.0.3/RcppParallel/inst/include/tbb/machine/xbox360_ppc.h |only RcppParallel-5.0.3/RcppParallel/inst/lib |only RcppParallel-5.0.3/RcppParallel/man/RcppParallelFlags.Rd |only RcppParallel-5.1.1/RcppParallel/DESCRIPTION | 26 RcppParallel-5.1.1/RcppParallel/MD5 | 1220 ++++--- RcppParallel-5.1.1/RcppParallel/NAMESPACE | 8 RcppParallel-5.1.1/RcppParallel/R/RcppParallel-package.R |only RcppParallel-5.1.1/RcppParallel/R/flags.R |only RcppParallel-5.1.1/RcppParallel/R/hooks.R | 23 RcppParallel-5.1.1/RcppParallel/R/options.R | 82 RcppParallel-5.1.1/RcppParallel/R/platform.R |only RcppParallel-5.1.1/RcppParallel/R/skeleton.R | 51 RcppParallel-5.1.1/RcppParallel/cleanup | 2 RcppParallel-5.1.1/RcppParallel/cleanup.win | 2 RcppParallel-5.1.1/RcppParallel/configure | 2 RcppParallel-5.1.1/RcppParallel/configure.win | 2 RcppParallel-5.1.1/RcppParallel/inst/NEWS | 23 RcppParallel-5.1.1/RcppParallel/inst/include/RcppParallel.h | 18 RcppParallel-5.1.1/RcppParallel/inst/include/RcppParallel/Common.h | 31 RcppParallel-5.1.1/RcppParallel/inst/include/RcppParallel/RMatrix.h | 2 RcppParallel-5.1.1/RcppParallel/inst/include/RcppParallel/TBB.h | 202 + RcppParallel-5.1.1/RcppParallel/inst/include/RcppParallel/TinyThread.h | 27 RcppParallel-5.1.1/RcppParallel/inst/include/index.html | 2 RcppParallel-5.1.1/RcppParallel/inst/include/serial/tbb/parallel_for.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/serial/tbb/tbb_annotate.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/aggregator.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/aligned_space.h | 10 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/atomic.h | 12 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/blocked_range.h | 29 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/blocked_range2d.h | 28 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/blocked_range3d.h | 37 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/blocked_rangeNd.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/cache_aligned_allocator.h | 92 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/combinable.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/compat/condition_variable | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/compat/ppl.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/compat/thread | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/compat/tuple | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_hash_map.h | 371 +- RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_lru_cache.h | 78 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_map.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_priority_queue.h | 76 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_queue.h | 29 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_set.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_unordered_map.h | 243 + RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_unordered_set.h | 234 + RcppParallel-5.1.1/RcppParallel/inst/include/tbb/concurrent_vector.h | 95 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/critical_section.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/enumerable_thread_specific.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/flow_graph.h | 1717 ++++------ RcppParallel-5.1.1/RcppParallel/inst/include/tbb/flow_graph_abstractions.h | 14 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/flow_graph_opencl_node.h | 703 +--- RcppParallel-5.1.1/RcppParallel/inst/include/tbb/global_control.h | 18 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/index.html | 2 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_aggregator_impl.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_allocator_traits.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_concurrent_queue_impl.h | 33 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_concurrent_skip_list_impl.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_concurrent_unordered_impl.h | 257 + RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_async_msg_impl.h | 120 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_body_impl.h | 155 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_cache_impl.h | 66 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_impl.h | 1152 ++---- RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_indexer_impl.h | 76 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_item_buffer_impl.h | 8 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_join_impl.h | 137 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_node_impl.h | 390 +- RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_streaming_node.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_tagged_buffer_impl.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_trace_impl.h | 117 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_flow_graph_types_impl.h | 22 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_mutex_padding.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_node_handle_impl.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_range_iterator.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_tbb_hash_compare_impl.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_tbb_strings.h | 19 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_tbb_trace_impl.h | 13 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_tbb_windef.h | 8 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_template_helpers.h | 119 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_x86_eliding_mutex_impl.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/internal/_x86_rtm_rw_mutex_impl.h | 16 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/iterators.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/gcc_arm.h |only RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/gcc_generic.h | 95 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/gcc_ia32_common.h | 9 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/gcc_itsx.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/ibm_aix51.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/icc_generic.h | 8 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/linux_common.h | 37 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/linux_ia32.h | 12 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/linux_ia64.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/linux_intel64.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/mac_ppc.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/macos_common.h | 19 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/mic_common.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/msvc_armv7.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/msvc_ia32_common.h | 11 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/sunos_sparc.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/windows_api.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/windows_ia32.h | 16 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/machine/windows_intel64.h | 10 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/memory_pool.h | 18 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/mutex.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/null_mutex.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/null_rw_mutex.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_do.h | 8 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_for.h | 26 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_for_each.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_invoke.h | 31 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_reduce.h | 166 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_scan.h | 74 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_sort.h | 25 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/parallel_while.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/partitioner.h | 173 - RcppParallel-5.1.1/RcppParallel/inst/include/tbb/pipeline.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/queuing_mutex.h | 20 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/queuing_rw_mutex.h | 21 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/reader_writer_lock.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/recursive_mutex.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/runtime_loader.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/scalable_allocator.h | 77 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/spin_mutex.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/spin_rw_mutex.h | 19 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/task.h | 97 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/task_arena.h | 172 - RcppParallel-5.1.1/RcppParallel/inst/include/tbb/task_group.h | 60 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/task_scheduler_init.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/task_scheduler_observer.h | 24 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb.h | 18 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_allocator.h | 25 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_config.h | 288 - RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_disable_exceptions.h | 10 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_exception.h | 83 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_machine.h | 26 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_profiling.h | 100 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_stddef.h | 52 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbb_thread.h | 18 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tbbmalloc_proxy.h | 9 RcppParallel-5.1.1/RcppParallel/inst/include/tbb/tick_count.h | 6 RcppParallel-5.1.1/RcppParallel/inst/include/tthread/tinythread.h | 4 RcppParallel-5.1.1/RcppParallel/man/RcppParallel-package.Rd | 34 RcppParallel-5.1.1/RcppParallel/man/RcppParallel.package.skeleton.Rd | 96 RcppParallel-5.1.1/RcppParallel/man/flags.Rd |only RcppParallel-5.1.1/RcppParallel/man/setThreadOptions.Rd | 61 RcppParallel-5.1.1/RcppParallel/src/Makevars.in | 64 RcppParallel-5.1.1/RcppParallel/src/init.cpp | 2 RcppParallel-5.1.1/RcppParallel/src/options.cpp | 37 RcppParallel-5.1.1/RcppParallel/src/tbb/CHANGES | 369 ++ RcppParallel-5.1.1/RcppParallel/src/tbb/Doxyfile |only RcppParallel-5.1.1/RcppParallel/src/tbb/LICENSE |only RcppParallel-5.1.1/RcppParallel/src/tbb/Makefile | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/README.md |only RcppParallel-5.1.1/RcppParallel/src/tbb/build/AIX.gcc.inc | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/AIX.inc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/build/BSD.clang.inc |only RcppParallel-5.1.1/RcppParallel/src/tbb/build/BSD.inc |only RcppParallel-5.1.1/RcppParallel/src/tbb/build/FreeBSD.clang.inc | 99 RcppParallel-5.1.1/RcppParallel/src/tbb/build/FreeBSD.gcc.inc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/build/FreeBSD.inc | 63 RcppParallel-5.1.1/RcppParallel/src/tbb/build/Makefile.rml | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/Makefile.tbb | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/Makefile.tbbmalloc | 46 RcppParallel-5.1.1/RcppParallel/src/tbb/build/Makefile.tbbproxy | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/Makefile.test | 9 RcppParallel-5.1.1/RcppParallel/src/tbb/build/OpenBSD.clang.inc 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RcppParallel-5.1.1/RcppParallel/src/tbb/build/common_rules.inc | 9 RcppParallel-5.1.1/RcppParallel/src/tbb/build/detect.js | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/build/generate_tbbvars.bat | 128 RcppParallel-5.1.1/RcppParallel/src/tbb/build/generate_tbbvars.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/index.html | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/ios.clang.inc | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/build/ios.macos.inc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/build/linux.clang.inc | 17 RcppParallel-5.1.1/RcppParallel/src/tbb/build/linux.gcc.inc | 32 RcppParallel-5.1.1/RcppParallel/src/tbb/build/linux.icc.inc | 14 RcppParallel-5.1.1/RcppParallel/src/tbb/build/linux.inc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/build/linux.pathcc.inc | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/build/linux.xl.inc | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/build/macos.clang.inc | 29 RcppParallel-5.1.1/RcppParallel/src/tbb/build/macos.gcc.inc | 35 RcppParallel-5.1.1/RcppParallel/src/tbb/build/macos.icc.inc | 17 RcppParallel-5.1.1/RcppParallel/src/tbb/build/macos.inc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/build/mic.icc.inc | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/build/mic.linux.inc | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/mic.linux.launcher.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/mic.offload.inc | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/test_launcher.bat | 144 RcppParallel-5.1.1/RcppParallel/src/tbb/build/test_launcher.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/version_info_aix.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/version_info_android.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/version_info_linux.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/version_info_macos.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/version_info_sunos.sh | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/version_info_windows.js | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/build/vs2013/index.html | 2 RcppParallel-5.1.1/RcppParallel/src/tbb/build/vs2013/makefile.sln | 160 RcppParallel-5.1.1/RcppParallel/src/tbb/build/vs2013/tbb.vcxproj | 1 RcppParallel-5.1.1/RcppParallel/src/tbb/build/vs2013/tbbmalloc.vcxproj | 1 RcppParallel-5.1.1/RcppParallel/src/tbb/build/windows.cl.inc | 26 RcppParallel-5.1.1/RcppParallel/src/tbb/build/windows.gcc.inc | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/build/windows.icl.inc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/build/windows.inc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/cmake |only RcppParallel-5.1.1/RcppParallel/src/tbb/doc |only RcppParallel-5.1.1/RcppParallel/src/tbb/include/index.html | 2 RcppParallel-5.1.1/RcppParallel/src/tbb/include/serial/tbb/parallel_for.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/serial/tbb/tbb_annotate.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/aggregator.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/aligned_space.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/atomic.h | 12 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/blocked_range.h | 20 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/blocked_range2d.h | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/blocked_range3d.h | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/blocked_rangeNd.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/cache_aligned_allocator.h | 92 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/combinable.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/compat/condition_variable | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/compat/ppl.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/compat/thread | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/compat/tuple | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_hash_map.h | 360 +- RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_lru_cache.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_map.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_priority_queue.h | 76 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_queue.h | 29 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_set.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_unordered_map.h | 243 + RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_unordered_set.h | 234 + RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/concurrent_vector.h | 86 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/critical_section.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/enumerable_thread_specific.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/flow_graph.h | 997 +++-- RcppParallel-5.1.1/RcppParallel/src/tbb/include/tbb/flow_graph_abstractions.h | 6 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RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/mac64-tbb-export.lst | 15 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/mailbox.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/market.cpp | 88 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/market.h | 17 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/mutex.cpp | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/observer_proxy.cpp | 68 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/observer_proxy.h | 11 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/pipeline.cpp | 55 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/private_server.cpp | 34 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/queuing_mutex.cpp | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/queuing_rw_mutex.cpp | 16 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/reader_writer_lock.cpp | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/recursive_mutex.cpp | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/scheduler.cpp | 129 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/scheduler.h | 115 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/scheduler_common.h | 17 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/scheduler_utility.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/semaphore.cpp | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/semaphore.h | 18 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/spin_mutex.cpp | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/spin_rw_mutex.cpp | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/task.cpp | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/task_group_context.cpp | 12 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/task_stream.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/task_stream_extended.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_assert_impl.h | 17 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_environment.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_main.cpp | 86 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_main.h | 9 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_misc.cpp | 56 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_misc.h | 14 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_misc_ex.cpp | 14 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_resource.rc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_statistics.cpp | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_statistics.h | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_thread.cpp | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tbb_version.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tls.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tools_api/disable_warnings.h | 22 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tools_api/ittnotify.h | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tools_api/ittnotify_config.h | 17 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tools_api/ittnotify_static.c | 13 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tools_api/ittnotify_static.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tools_api/ittnotify_types.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/tools_api/legacy/ittnotify.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/win32-tbb-export.def | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/win32-tbb-export.lst | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/win64-gcc-tbb-export.def | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/win64-gcc-tbb-export.lst | 14 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/win64-tbb-export.def | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/win64-tbb-export.lst | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/winrt-tbb-export.lst | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbb/x86_rtm_rw_mutex.cpp | 19 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/Customize.h | 91 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/MapMemory.h | 116 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/Statistics.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/Synchronize.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/TypeDefinitions.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/backend.cpp | 427 +- RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/backend.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/backref.cpp | 14 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/frontend.cpp | 618 ++- RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/index.html | 2 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/large_objects.cpp | 183 - RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/large_objects.h |only RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/lin32-proxy-export.def | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/lin32-tbbmalloc-export.def | 7 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/lin64-proxy-export.def | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/lin64-tbbmalloc-export.def | 7 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/lin64ipf-proxy-export.def | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/lin64ipf-tbbmalloc-export.def | 10 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/mac32-tbbmalloc-export.def | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/mac64-tbbmalloc-export.def | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/proxy.cpp | 236 - RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/proxy.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/proxy_overload_osx.h | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/shared_utils.h | 74 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/tbb_function_replacement.cpp | 261 + RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/tbb_function_replacement.h | 14 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/tbbmalloc.cpp | 15 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/tbbmalloc.rc | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/tbbmalloc_internal.h | 768 ---- RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/tbbmalloc_internal_api.h | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/win32-gcc-tbbmalloc-export.def | 7 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/win32-tbbmalloc-export.def | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/win64-gcc-tbbmalloc-export.def | 7 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbmalloc/win64-tbbmalloc-export.def | 8 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbproxy/tbbproxy-windows.asm | 6 RcppParallel-5.1.1/RcppParallel/src/tbb/src/tbbproxy/tbbproxy.cpp | 12 RcppParallel-5.1.1/RcppParallel/src/tbb/src/test |only RcppParallel-5.1.1/RcppParallel/tests/doRUnit.R | 8 RcppParallel-5.1.1/RcppParallel/tools/config.R | 17 RcppParallel-5.1.1/RcppParallel/tools/tbb |only 533 files changed, 12456 insertions(+), 9890 deletions(-)
Title: Create Maps and Visualize Data in 2D and 3D
Description: Uses a combination of raytracing and multiple hill shading methods to produce 2D and 3D data visualizations and maps. Includes water detection and layering functions, programmable color palette generation, several built-in textures for hill shading, 2D and 3D plotting options, a built-in path tracer, 'Wavefront' OBJ file export, and the ability to save 3D visualizations to a 3D printable format.
Author: Tyler Morgan-Wall
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayshader versions 0.19.2 dated 2020-08-02 and 0.24.5 dated 2021-04-11
DESCRIPTION | 15 ++-- MD5 | 100 ++++++++++++++++----------- NAMESPACE | 7 + R/add_overlay.R | 11 +++ R/add_padding.R | 47 ++++++++++++- R/ambient_shade.R | 5 - R/calculate_normal.R | 4 + R/data.R | 2 R/fix_manifold_geometry.R |only R/generate_altitude_overlay.R | 3 R/generate_compass_overlay.R |only R/generate_contour_overlay.R | 2 R/generate_label_overlay.R |only R/generate_line_overlay.R | 30 ++++++-- R/generate_point_overlay.R |only R/generate_polygon_overlay.R | 48 ++++++++----- R/generate_scalebar_overlay.R |only R/generate_waterline_overlay.R |only R/get_ids_with_labels.R | 6 + R/height_shade.R | 26 +++++-- R/lamb_shade.R | 28 +++++-- R/make_base.R | 28 +++---- R/make_base_triangulated.R | 32 +++++++- R/make_lines.R | 2 R/make_water.R | 2 R/make_waterlines.R | 2 R/plot_3d.R | 26 +++---- R/plot_map.R | 37 ++++++++++ R/render_highquality.R | 136 +++++++++++++++++++++++++------------- R/render_points.R | 4 - R/render_polygons.R |only R/render_snapshot.R | 26 ++++++- R/save_3dprint.R | 2 R/save_obj.R | 76 ++++++++++++++++++--- R/save_png.R | 37 ++++++++++ R/texture_shade.R |only man/add_multi_padding.Rd |only man/ambient_shade.Rd | 2 man/fix_manifold_geometry.Rd |only man/generate_compass_overlay.Rd |only man/generate_contour_overlay.Rd | 2 man/generate_label_overlay.Rd |only man/generate_line_overlay.Rd | 9 ++ man/generate_point_overlay.Rd |only man/generate_polygon_overlay.Rd | 9 +- man/generate_scalebar_overlay.Rd |only man/generate_waterline_overlay.Rd |only man/height_shade.Rd | 13 +++ man/lamb_shade.Rd | 28 +++++-- man/monterey_roads_sf.Rd | 2 man/plot_3d.Rd | 2 man/plot_map.Rd | 37 ++++++++++ man/render_highquality.Rd | 8 +- man/render_points.Rd | 2 man/render_polygons.Rd |only man/render_snapshot.Rd | 16 ++++ man/save_obj.Rd | 12 +++ man/save_png.Rd | 36 +++++++++- man/texture_shade.Rd |only man/trim_padding.Rd |only 60 files changed, 707 insertions(+), 215 deletions(-)
Title: 'SQLite' Interface for R
Description: Embeds the 'SQLite' database engine in R and
provides an interface compliant with the 'DBI' package. The source for
the 'SQLite' engine is included.
Author: Kirill Müller [aut, cre] (<https://orcid.org/0000-0002-1416-3412>),
Hadley Wickham [aut],
David A. James [aut],
Seth Falcon [aut],
SQLite Authors [ctb] (for the included SQLite sources),
Liam Healy [ctb] (for the included SQLite sources),
R Consortium [fnd],
RStudio [cph]
Maintainer: Kirill Müller <krlmlr+r@mailbox.org>
Diff between RSQLite versions 2.2.5 dated 2021-03-27 and 2.2.6 dated 2021-04-11
DESCRIPTION | 13 MD5 | 1661 +++++++++++++++++++++++- NEWS.md | 9 R/SQLiteConnection.R | 4 R/SQLiteDriver.R | 23 R/connect.R | 47 R/copy.R | 6 R/datasetsDb.R | 3 R/deprecated.R | 18 R/extensions.R | 3 R/query.R | 15 R/regularExpressions.R | 3 R/rstudioConnections.R |only R/table.R | 64 R/transactions.R | 3 build/vignette.rds |binary inst/icons |only inst/rstudio |only man/SQLite.Rd | 4 man/SQLiteDriver-class.Rd | 2 src/Makevars | 2 src/vendor/boost |only src/vendor/sqlite3/sqlite3.c | 253 ++- src/vendor/sqlite3/sqlite3.h | 6 tests/testthat/helper-DBItest.R | 2 tests/testthat/helper-tibble.R | 5 tests/testthat/test-DBItest.R | 2 tests/testthat/test-affinity.R | 4 tests/testthat/test-basic-types.R | 8 tests/testthat/test-data-type.R | 10 tests/testthat/test-dbConnect.R | 16 tests/testthat/test-dbSendQuery.R | 50 tests/testthat/test-dbWriteTable.R | 62 tests/testthat/test-dbWriteTableAutoincrement.R | 24 tests/testthat/test-encoding.R | 32 tests/testthat/test-error.R | 12 tests/testthat/test-extendedTypes.R | 65 tests/testthat/test-field-types.R | 6 tests/testthat/test-json.R | 6 tests/testthat/test-regularExpressions.R | 36 tests/testthat/test-transactions.R | 134 + 41 files changed, 2251 insertions(+), 362 deletions(-)
Title: Fuzzy Linear Programming
Description: Provides methods to solve Fuzzy Linear Programming Problems with
fuzzy constraints (following different approaches proposed by
Verdegay, Zimmermann, Werners and Tanaka), fuzzy costs, and fuzzy
technological matrix.
Author: Carlos A. Rabelo [aut, cre],
Pablo J. Villacorta [ctb]
Maintainer: Carlos A. Rabelo <carabelo@gmail.com>
Diff between FuzzyLP versions 0.1-5 dated 2017-08-17 and 0.1-6 dated 2021-04-11
DESCRIPTION | 12 MD5 | 31 - R/AuxFuz.R | 257 +++++++-------- R/FuzzyLP.R | 28 - R/GenFuz.R | 14 R/ResFuz.R | 735 ++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/CITATION |only inst/doc/FuzzyLP.pdf |binary inst/doc/FuzzyLP.pdf.asis | 1 man/FCLP.Beta.Rd | 26 + man/FCLP.Obj.Rd | 47 ++ man/FOLP_Ordering.Rd | 12 man/FOLP_Repres.Rd | 28 + man/FuzzyLP.Rd | 8 man/GFLP.Rd | 17 - vignettes/FuzzyLP.pdf.asis | 1 17 files changed, 647 insertions(+), 570 deletions(-)
Title: R MPFR - Multiple Precision Floating-Point Reliable
Description: Arithmetic (via S4 classes and methods) for
arbitrary precision floating point numbers, including transcendental
("special") functions. To this end, the package interfaces to
the 'LGPL' licensed 'MPFR' (Multiple Precision Floating-Point Reliable) Library
which itself is based on the 'GMP' (GNU Multiple Precision) Library.
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>),
Richard M. Heiberger [ctb] (formatHex(), *Bin, *Dec),
John C. Nash [ctb] (hjkMpfr(), origin of unirootR()),
Hans W. Borchers [ctb] (optimizeR(*, "GoldenRatio"); origin of
hjkMpfr())
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between Rmpfr versions 0.8-3 dated 2021-03-23 and 0.8-4 dated 2021-04-11
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- R/as.R | 5 ++++- R/special-fun.R | 14 ++++++++------ build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 20 ++++++++++++++++++++ inst/doc/Maechler_useR_2011-abstr.pdf |binary inst/doc/Rmpfr-pkg.pdf |binary inst/doc/log1mexp-note.pdf |binary man/distr-etc.Rd | 2 +- src/Ops.c | 11 +++++++---- 12 files changed, 56 insertions(+), 28 deletions(-)
Title: Analyze, Process, Identify, and Share, Raman and (FT)IR Spectra
Description: Raman and (FT)IR spectral analysis tool for plastic particles and
other environmental samples. Supported features include reading spectral
data files (.asp, .csv, .jdx, .spc, .spa, .0), Savitzky-Golay smoothing of
spectral intensities with smooth_intens(), correcting background noise with
subtr_bg() in accordance with Zhao et al. (2007)
<doi:10.1366/000370207782597003>, and identifying spectra using an onboard
reference library (Cowger et al. 2020, <doi:10.1177/0003702820929064>).
Analyzed spectra can be shared with the Open Specy community. A Shiny app is
available via run_app() or online at
<https://wincowger.shinyapps.io/OpenSpecy/>.
Author: Win Cowger [cre, aut] (<https://orcid.org/0000-0001-9226-3104>),
Zacharias Steinmetz [aut] (<https://orcid.org/0000-0001-6675-5033>),
Andrew Gray [ctb] (<https://orcid.org/0000-0003-2252-7367>),
Hannah Hapich [ctb] (<https://orcid.org/0000-0003-0000-6632>),
Jennifer Lynch [ctb, dtc] (<https://orcid.org/0000-0003-3572-8782>),
Hannah De Frond [ctb, dtc] (<https://orcid.org/0000-0003-1199-0727>),
Keenan Munno [ctb, dtc] (<https://orcid.org/0000-0003-2916-5944>),
Chelsea Rochman [ctb, dtc] (<https://orcid.org/0000-0002-7624-711X>),
Sebastian Primpke [ctb, dtc] (<https://orcid.org/0000-0001-7633-8524>),
Orestis Herodotou [ctb, dtc]
Maintainer: Win Cowger <wincowger@gmail.com>
Diff between OpenSpecy versions 0.9.0 dated 2021-04-09 and 0.9.1 dated 2021-04-11
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 8 ++++++++ README.md | 4 ++-- build/partial.rdb |binary inst/doc/sop.html | 4 ++-- inst/shiny/ui.R | 16 ++++++++-------- tests/testthat/test-manage_lib.R | 16 +++++++++++++++- tests/testthat/test-read_spec.R | 2 +- tests/testthat/test-share_spec.R | 2 +- 10 files changed, 50 insertions(+), 28 deletions(-)
Title: Gaussian Process Fitting
Description: Fits a Gaussian process model to data. Gaussian processes
are commonly used in computer experiments to fit an interpolating model.
The model is stored as an 'R6' object and can be easily updated with new
data. There are options to run in parallel (not for Windows), and 'Rcpp'
has been used to speed up calculations. Other R packages that perform
similar calculations include 'laGP', 'DiceKriging', 'GPfit', and 'mlegp'.
Author: Collin Erickson
Maintainer: Collin Erickson <collinberickson@gmail.com>
Diff between GauPro versions 0.2.3 dated 2021-03-28 and 0.2.4 dated 2021-04-11
DESCRIPTION | 6 +- MD5 | 28 +++++------ NEWS.md | 6 ++ R/RcppExports.R | 4 - R/corr.R | 67 ++++++++++++++------------- inst/doc/CrossValidationErrorCorrection.html | 20 ++++---- inst/doc/GauPro.html | 4 - inst/doc/IntroductionToGPs.html | 4 - inst/doc/derivatives.html | 4 - inst/doc/surface_derivatives.html | 4 - man/corr_gauss_matrix.Rd | 2 man/corr_gauss_matrix_armaC.Rd | 2 man/corr_gauss_matrix_sym_armaC.Rd | 2 src/corr_gauss_matrix.cpp | 40 +++++++++------- tests/testthat/test_1D.R | 10 ++++ 15 files changed, 116 insertions(+), 87 deletions(-)
Title: Two-Steps Benchmarks for Time Series Disaggregation
Description: The twoStepsBenchmark() and threeRuleSmooth() functions allow you to
disaggregate a low-frequency time-serie with time-series of higher frequency,
using the French National Accounts methodology. The aggregated sum of the
resulting time-serie is strictly equal to the low-frequency serie within the
benchmarking window. Typically, the low-frequency serie is an annual one,
unknown for the last year, and the high frequency one is either quarterly or
mensual. See "Methodology of quarterly national accounts", Insee Méthodes
N°126, by Insee (2012, ISBN:978-2-11-068613-8).
Author: Arnaud Feldmann [aut, cre] (<https://orcid.org/0000-0003-0109-7505>),
Franck Arnaud [ctb] (barplot base graphics method for the mts class),
Institut national de la statistique et des études économiques [cph]
(https://www.insee.fr/)
Maintainer: Arnaud Feldmann <arnaud.feldmann@insee.fr>
Diff between disaggR versions 0.2.0.2 dated 2021-04-10 and 0.2.0.3 dated 2021-04-11
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- tests/testthat/test-methods.R | 3 ++- tests/testthat/test-reView.R | 1 + 4 files changed, 10 insertions(+), 8 deletions(-)
Title: Profiling of Peripheral Blood Mononuclear Cells using CyTOF
Description: This data package contains a subset of the Bodenmiller et al, Nat Biotech 2012 dataset for testing single cell, high dimensional analysis and visualization methods.
Author: Yann Abraham [aut, cre],
Bernd Bodenmiller [aut]
Maintainer: Yann Abraham <yann.abraham@gmail.com>
Diff between bodenmiller versions 0.1 dated 2015-12-18 and 0.1.1 dated 2021-04-11
bodenmiller-0.1.1/bodenmiller/DESCRIPTION | 16 bodenmiller-0.1.1/bodenmiller/MD5 | 34 - bodenmiller-0.1.1/bodenmiller/NAMESPACE | 3 bodenmiller-0.1.1/bodenmiller/NEWS.md |only bodenmiller-0.1.1/bodenmiller/R/reference.R | 12 bodenmiller-0.1.1/bodenmiller/R/untreated.R | 12 bodenmiller-0.1.1/bodenmiller/README.md | 4 bodenmiller-0.1.1/bodenmiller/build/vignette.rds |binary bodenmiller-0.1.1/bodenmiller/inst/doc/bodenmiller.R | 62 +-- bodenmiller-0.1.1/bodenmiller/inst/doc/bodenmiller.Rmd | 52 +- bodenmiller-0.1.1/bodenmiller/inst/doc/bodenmiller.html | 281 ++++++++++------ bodenmiller-0.1.1/bodenmiller/man/refAnnots.Rd | 13 bodenmiller-0.1.1/bodenmiller/man/refFuncMat.Rd | 13 bodenmiller-0.1.1/bodenmiller/man/refPhenoMat.Rd | 13 bodenmiller-0.1.1/bodenmiller/man/untreatedAnnots.Rd | 13 bodenmiller-0.1.1/bodenmiller/man/untreatedFuncMat.Rd | 13 bodenmiller-0.1.1/bodenmiller/man/untreatedPhenoMat.Rd | 13 bodenmiller-0.1.1/bodenmiller/vignettes/bodenmiller.Rmd | 52 +- bodenmiller-0.1/bodenmiller/data/datalist |only 19 files changed, 334 insertions(+), 272 deletions(-)
Title: Bayesian Methods for Image Segmentation using a Potts Model
Description: Various algorithms for segmentation of 2D and 3D images, such
as computed tomography and satellite remote sensing. This package implements
Bayesian image analysis using the hidden Potts model with external field
prior of Moores et al. (2015) <doi:10.1016/j.csda.2014.12.001>.
Latent labels are sampled using chequerboard updating or Swendsen-Wang.
Algorithms for the smoothing parameter include pseudolikelihood, path sampling,
the exchange algorithm, approximate Bayesian computation (ABC-MCMC and ABC-SMC),
and the parametric functional approximate Bayesian (PFAB) algorithm. Refer to
<doi:10.1007/978-3-030-42553-1_6> for an overview and also to <doi:10.1007/s11222-014-9525-6>
and <doi:10.1214/18-BA1130> for further details of specific algorithms.
Author: Matt Moores [aut, cre] (<https://orcid.org/0000-0003-4531-3572>),
Dai Feng [ctb],
Kerrie Mengersen [aut, ths] (<https://orcid.org/0000-0001-8625-9168>)
Maintainer: Matt Moores <mmoores@gmail.com>
Diff between bayesImageS versions 0.6-0 dated 2019-01-04 and 0.6-1 dated 2021-04-11
bayesImageS-0.6-0/bayesImageS/data/datalist |only bayesImageS-0.6-1/bayesImageS/DESCRIPTION | 24 bayesImageS-0.6-1/bayesImageS/MD5 | 77 - bayesImageS-0.6-1/bayesImageS/NAMESPACE | 1 bayesImageS-0.6-1/bayesImageS/NEWS.md | 8 bayesImageS-0.6-1/bayesImageS/R/bayesImageS.R | 8 bayesImageS-0.6-1/bayesImageS/R/mcmcPotts.R | 17 bayesImageS-0.6-1/bayesImageS/R/smcPotts.R | 4 bayesImageS-0.6-1/bayesImageS/README.md | 35 bayesImageS-0.6-1/bayesImageS/build/partial.rdb |only bayesImageS-0.6-1/bayesImageS/build/vignette.rds |binary bayesImageS-0.6-1/bayesImageS/inst/CITATION | 52 - bayesImageS-0.6-1/bayesImageS/inst/doc/Background.html | 219 ---- bayesImageS-0.6-1/bayesImageS/inst/doc/mcmcPotts.R | 24 bayesImageS-0.6-1/bayesImageS/inst/doc/mcmcPotts.html | 403 ++----- bayesImageS-0.6-1/bayesImageS/inst/doc/mcmcPottsNoData.R | 14 bayesImageS-0.6-1/bayesImageS/inst/doc/mcmcPottsNoData.html | 435 ++------ bayesImageS-0.6-1/bayesImageS/inst/doc/swNoData.R | 12 bayesImageS-0.6-1/bayesImageS/inst/doc/swNoData.html | 505 +++------- bayesImageS-0.6-1/bayesImageS/inst/image/README-logo.png |binary bayesImageS-0.6-1/bayesImageS/inst/image/README-unnamed-chunk-5-1.png |binary bayesImageS-0.6-1/bayesImageS/inst/image/README-unnamed-chunk-6-1.png |binary bayesImageS-0.6-1/bayesImageS/inst/image/README-unnamed-chunk-7-1.png |binary bayesImageS-0.6-1/bayesImageS/inst/image/README-unnamed-chunk-8-1.png |binary bayesImageS-0.6-1/bayesImageS/man/bayesImageS.Rd | 9 bayesImageS-0.6-1/bayesImageS/man/gibbsPotts.Rd |only bayesImageS-0.6-1/bayesImageS/man/initSedki.Rd | 5 bayesImageS-0.6-1/bayesImageS/man/mcmcPotts.Rd | 12 bayesImageS-0.6-1/bayesImageS/man/mcmcPottsNoData.Rd | 3 bayesImageS-0.6-1/bayesImageS/man/res.Rd | 4 bayesImageS-0.6-1/bayesImageS/man/res2.Rd | 4 bayesImageS-0.6-1/bayesImageS/man/res3.Rd | 4 bayesImageS-0.6-1/bayesImageS/man/res4.Rd | 4 bayesImageS-0.6-1/bayesImageS/man/res5.Rd | 4 bayesImageS-0.6-1/bayesImageS/man/smcPotts.Rd | 9 bayesImageS-0.6-1/bayesImageS/man/swNoData.Rd | 2 bayesImageS-0.6-1/bayesImageS/man/synth.Rd | 6 bayesImageS-0.6-1/bayesImageS/man/testResample.Rd | 2 bayesImageS-0.6-1/bayesImageS/src/bayesImageS_init.cpp | 1 bayesImageS-0.6-1/bayesImageS/src/mcmcPotts.cpp | 79 + bayesImageS-0.6-1/bayesImageS/src/mcmcPotts.h | 2 41 files changed, 803 insertions(+), 1185 deletions(-)
Title: Robust Preprocessing of Time Series Data
Description: Methods for handling the missing values outliers are introduced in
this package. The recognized missing values and outliers are replaced
using a model-based approach. The model may consist of both autoregressive
components and external regressors. The methods work robust and efficient,
and they are fully tunable. The primary motivation for writing the package
was preprocessing of the energy systems data, e.g. power plant production
time series, but the package could be used with any time series data.
Author: Michał Narajewski [aut, cre] (<https://orcid.org/0000-0002-3115-0162>),
Florian Ziel [aut] (<https://orcid.org/0000-0002-2974-2660>),
Jens Kley-Holsteg [ctb]
Maintainer: Michał Narajewski <michal.narajewski@uni-due.de>
Diff between tsrobprep versions 0.0.0.2 dated 2020-11-05 and 0.1.0 dated 2021-04-11
tsrobprep-0.0.0.2/tsrobprep/R/handle_outliers.R |only tsrobprep-0.0.0.2/tsrobprep/man/handle_outliers.Rd |only tsrobprep-0.1.0/tsrobprep/DESCRIPTION | 10 - tsrobprep-0.1.0/tsrobprep/LICENSE | 2 tsrobprep-0.1.0/tsrobprep/MD5 | 22 +- tsrobprep-0.1.0/tsrobprep/NAMESPACE | 3 tsrobprep-0.1.0/tsrobprep/R/auto_data_cleaning.R | 130 +++++++---------- tsrobprep-0.1.0/tsrobprep/R/detect_outliers.R |only tsrobprep-0.1.0/tsrobprep/R/impute_modelled_data.R | 14 + tsrobprep-0.1.0/tsrobprep/R/model_missing_data.R | 135 +++++++++++++----- tsrobprep-0.1.0/tsrobprep/man/auto_data_cleaning.Rd | 108 +++----------- tsrobprep-0.1.0/tsrobprep/man/detect_outliers.Rd |only tsrobprep-0.1.0/tsrobprep/man/impute_modelled_data.Rd | 8 - tsrobprep-0.1.0/tsrobprep/man/model_missing_data.Rd | 31 ++-- 14 files changed, 242 insertions(+), 221 deletions(-)
Title: Generalized Joint Attribute Modeling
Description: Analyzes joint attribute data (e.g., species abundance) that are combinations of continuous and discrete data with Gibbs sampling. Full model and computation details are described in Clark et al. (2018) <doi:10.1002/ecm.1241>.
Author: James S. Clark, Daniel Taylor-Rodriquez
Maintainer: James S. Clark <jimclark@duke.edu>
Diff between gjam versions 2.3.5 dated 2021-03-29 and 2.3.6 dated 2021-04-11
DESCRIPTION | 8 - MD5 | 14 +- R/gjamHfunctions.R | 279 +++++++++++++++++++++++++++------------------ inst/doc/gjamVignette.R | 192 +++++++++++++++++++++++++++--- inst/doc/gjamVignette.Rmd | 235 ++++++++++++++++++++++++++++++++----- inst/doc/gjamVignette.html | 166 ++++++++++++++++---------- man/gjam-package.Rd | 4 vignettes/gjamVignette.Rmd | 235 ++++++++++++++++++++++++++++++++----- 8 files changed, 858 insertions(+), 275 deletions(-)
Title: Broadly Useful Convenient and Efficient R Functions
Description: Broadly useful convenient and efficient R functions
that bring users concise and elegant R data analyses.
This package includes easy-to-use functions for
(1) basic R programming
(e.g., set working directory to where the current file is,
print strings with rich formats and colors);
(2) multivariate computation
(e.g., compute scale sums/means/... with reverse scoring);
(3) reliability and factor analyses;
(4) descriptive statistics and correlation analyses;
(5) multi-factor analysis of variance (ANOVA),
simple-effect analysis, and post-hoc multiple comparison;
(6) tidy report of regression models (to Console and to Word);
(7) mediation and moderation analyses;
and (8) additional toolbox for statistics and graphics.
Author: Han-Wu-Shuang Bao [aut, cre]
Maintainer: Han-Wu-Shuang Bao <baohws@foxmail.com>
Diff between bruceR versions 0.6.0 dated 2021-03-19 and 0.6.2 dated 2021-04-11
bruceR-0.6.0/bruceR/R/bruceR_theme.R |only bruceR-0.6.0/bruceR/man/p.trans.Rd |only bruceR-0.6.0/bruceR/man/p.trans2.Rd |only bruceR-0.6.0/bruceR/man/sig.trans.Rd |only bruceR-0.6.2/bruceR/DESCRIPTION | 35 - bruceR-0.6.2/bruceR/MD5 | 94 +-- bruceR-0.6.2/bruceR/NAMESPACE | 10 bruceR-0.6.2/bruceR/NEWS.md | 48 + bruceR-0.6.2/bruceR/R/bruceR.R | 127 ++-- bruceR-0.6.2/bruceR/R/bruceR_basic.R | 149 ++++- bruceR-0.6.2/bruceR/R/bruceR_stats_01_basic.R | 172 +++--- bruceR-0.6.2/bruceR/R/bruceR_stats_02_scale.R | 145 +++-- bruceR-0.6.2/bruceR/R/bruceR_stats_03_manova.R | 264 ++++------ bruceR-0.6.2/bruceR/R/bruceR_stats_04_regress.R | 217 +++++++- bruceR-0.6.2/bruceR/R/bruceR_stats_05_advance.R | 46 - bruceR-0.6.2/bruceR/R/bruceR_stats_06_plot.R |only bruceR-0.6.2/bruceR/README.md | 56 +- bruceR-0.6.2/bruceR/build/partial.rdb |binary bruceR-0.6.2/bruceR/inst |only bruceR-0.6.2/bruceR/man/Alpha.Rd | 49 + bruceR-0.6.2/bruceR/man/CFA.Rd | 13 bruceR-0.6.2/bruceR/man/Corr.Rd | 12 bruceR-0.6.2/bruceR/man/Describe.Rd | 4 bruceR-0.6.2/bruceR/man/EFA.Rd | 4 bruceR-0.6.2/bruceR/man/EMMEANS.Rd | 99 ++- bruceR-0.6.2/bruceR/man/GLM_summary.Rd | 18 bruceR-0.6.2/bruceR/man/HLM_ICC_rWG.Rd |only bruceR-0.6.2/bruceR/man/HLM_summary.Rd | 5 bruceR-0.6.2/bruceR/man/LOOKUP.Rd | 8 bruceR-0.6.2/bruceR/man/MANOVA.Rd | 28 - bruceR-0.6.2/bruceR/man/Print.Rd | 8 bruceR-0.6.2/bruceR/man/RECODE.Rd | 2 bruceR-0.6.2/bruceR/man/RESCALE.Rd | 4 bruceR-0.6.2/bruceR/man/Run.Rd |only bruceR-0.6.2/bruceR/man/bruceR-package.Rd | 123 ++-- bruceR-0.6.2/bruceR/man/ccf_plot.Rd | 2 bruceR-0.6.2/bruceR/man/granger_test.Rd | 2 bruceR-0.6.2/bruceR/man/grapes-allin-grapes.Rd | 5 bruceR-0.6.2/bruceR/man/grapes-anyin-grapes.Rd | 5 bruceR-0.6.2/bruceR/man/grapes-grapes-COMPUTE-grapes-grapes.Rd | 61 +- bruceR-0.6.2/bruceR/man/grapes-nonein-grapes.Rd | 5 bruceR-0.6.2/bruceR/man/grapes-notin-grapes.Rd | 6 bruceR-0.6.2/bruceR/man/grapes-partin-grapes.Rd | 5 bruceR-0.6.2/bruceR/man/grapes-pow-grapes.Rd |only bruceR-0.6.2/bruceR/man/med_summary.Rd | 4 bruceR-0.6.2/bruceR/man/model_summary.Rd | 14 bruceR-0.6.2/bruceR/man/pkg_depend.Rd | 2 bruceR-0.6.2/bruceR/man/pkg_install_suggested.Rd | 2 bruceR-0.6.2/bruceR/man/regress.Rd | 17 bruceR-0.6.2/bruceR/man/scaler.Rd | 4 bruceR-0.6.2/bruceR/man/set.wd.Rd | 24 bruceR-0.6.2/bruceR/man/show_colors.Rd |only bruceR-0.6.2/bruceR/man/theme_bruce.Rd | 40 + 53 files changed, 1221 insertions(+), 717 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-01-31 1.1.0
2014-08-29 0.4
2014-08-26 0.3
2014-06-25 0.2
2013-11-26 0.1
Title: Bivariate Probability Distributions
Description: Convenience functions for plotting/evaluating bivariate (uniform, binomial, Poisson, categorical, normal and bimodal) distributions, trivariate (normal and Dirichlet) distributions, bivariate kernel density estimates and bivariate empirical cumulative distribution functions. Supports their probability mass functions (PMFs), probability density functions (PDFs) and cumulative distribution functions (CDFs), mostly where applicable.
Author: Abby Spurdle
Maintainer: Abby Spurdle <spurdle.a@gmail.com>
Diff between bivariate versions 0.6.0 dated 2020-09-13 and 0.7.0 dated 2021-04-11
bivariate-0.6.0/bivariate/man/21_mockup_function_objects.Rd |only bivariate-0.6.0/bivariate/man/31_new_generics.Rd |only bivariate-0.6.0/bivariate/man/32_supporting_methods.Rd |only bivariate-0.6.0/bivariate/man/41_main_plotting_functions.Rd |only bivariate-0.7.0/bivariate/DESCRIPTION | 13 bivariate-0.7.0/bivariate/MD5 | 62 +-- bivariate-0.7.0/bivariate/NAMESPACE | 72 +-- bivariate-0.7.0/bivariate/R/bv0.r | 134 ++++-- bivariate-0.7.0/bivariate/R/bv1_u.r | 106 +++-- bivariate-0.7.0/bivariate/R/bv2_bnp.r | 88 ++-- bivariate-0.7.0/bivariate/R/bv3_nbm.r | 127 ++++-- bivariate-0.7.0/bivariate/R/bv4_gdke.r | 191 ++++++--- bivariate-0.7.0/bivariate/R/outer.r | 82 ++-- bivariate-0.7.0/bivariate/R/plots.r | 88 ++-- bivariate-0.7.0/bivariate/R/plots2.r | 74 +-- bivariate-0.7.0/bivariate/build/vignette.rds |binary bivariate-0.7.0/bivariate/inst/doc/bivariate.R | 232 ++++-------- bivariate-0.7.0/bivariate/inst/doc/bivariate.Rnw | 134 ++---- bivariate-0.7.0/bivariate/inst/doc/bivariate.pdf |binary bivariate-0.7.0/bivariate/man/11_PD_uniform.Rd | 4 bivariate-0.7.0/bivariate/man/12_PD_binomial.Rd | 4 bivariate-0.7.0/bivariate/man/13_PD_poisson.Rd | 4 bivariate-0.7.0/bivariate/man/14_PD_categorical.Rd | 4 bivariate-0.7.0/bivariate/man/15_PD_normal.Rd | 4 bivariate-0.7.0/bivariate/man/16_PD_bimodal.Rd | 37 + bivariate-0.7.0/bivariate/man/17_PD_dirichlet.Rd | 4 bivariate-0.7.0/bivariate/man/18_PD_kernel_and_empicial.Rd | 21 - bivariate-0.7.0/bivariate/man/21_function_placeholders.Rd |only bivariate-0.7.0/bivariate/man/31_bridging_functions.Rd |only bivariate-0.7.0/bivariate/man/32_new_generics.Rd |only bivariate-0.7.0/bivariate/man/41_print_methods.Rd |only bivariate-0.7.0/bivariate/man/42_plot_methods.Rd |only bivariate-0.7.0/bivariate/man/42_random_numbers.Rd | 8 bivariate-0.7.0/bivariate/man/43_density_matrices.Rd | 47 +- bivariate-0.7.0/bivariate/man/51_color_functions.Rd | 8 bivariate-0.7.0/bivariate/man/90_deprecated.Rd |only bivariate-0.7.0/bivariate/vignettes/bivariate.Rnw | 134 ++---- 37 files changed, 904 insertions(+), 778 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-31 0.1.2
2021-03-27 0.1.1
2021-01-04 0.1.0
2020-11-24 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-11 0.2.1.2
2020-10-02 0.2.1.1
2020-09-16 0.2.1.0
2019-12-17 0.2.0.1
2019-10-07 0.2.0.0
2019-05-09 0.1.6.1
2019-02-07 0.1.6
2018-06-18 0.1.5
2018-04-19 0.1.4
2018-01-26 0.1.3
2018-01-09 0.1.2
2017-12-05 0.1.1
Title: Excel Connector for R
Description: Provides comprehensive functionality to read, write and format Excel data.
Author: Mirai Solutions GmbH [aut],
Martin Studer [cre],
The Apache Software Foundation [ctb, cph] (Apache POI),
Graph Builder [ctb, cph] (Curvesapi Java library)
Maintainer: Martin Studer <martin.studer@mirai-solutions.com>
Diff between XLConnect versions 1.0.2 dated 2021-02-15 and 1.0.3 dated 2021-04-11
XLConnect-1.0.2/XLConnect/inst/java/XLConnect-1.0.2.jar |only XLConnect-1.0.3/XLConnect/DESCRIPTION | 6 ++--- XLConnect-1.0.3/XLConnect/MD5 | 16 +++++++------- XLConnect-1.0.3/XLConnect/NEWS | 5 ++++ XLConnect-1.0.3/XLConnect/R/onLoad.R | 7 ------ XLConnect-1.0.3/XLConnect/R/xlcEnsureDependenciesFor.R | 8 ++++++- XLConnect-1.0.3/XLConnect/inst/doc/XLConnect.pdf |binary XLConnect-1.0.3/XLConnect/inst/doc/XLConnectImpatient.pdf |binary XLConnect-1.0.3/XLConnect/inst/java/XLConnect-1.0.3.jar |only XLConnect-1.0.3/XLConnect/java/README | 1 10 files changed, 24 insertions(+), 19 deletions(-)
Title: Methods for Time Series Analysis
Description: A collection of functions to perform Detrended Fluctuation Analysis (DFA exponent), GUEDES et al. (2019) <doi:10.1016/j.physa.2019.04.132> , Detrended cross-correlation coefficient (RHODCCA), GUEDES & ZEBENDE (2019) <doi:10.1016/j.physa.2019.121286>, DMCA cross-correlation coefficient and Detrended multiple cross-correlation coefficient (DMC), GUEDES & SILVA-FILHO & ZEBENDE (2018) <doi:10.1016/j.physa.2021.125990>, both with sliding windows approach.
Author: Everaldo Freitas Guedes [aut, cre]
(<https://orcid.org/0000-0002-2986-7367>),
Ivan Costa da Cunha Lima [aut]
(<https://orcid.org/0000-0002-4525-2346>),
Gilney Figueira Zebende [aut] (<https://orcid.org/0000-0003-2420-9805>),
Aloísio Machado Silva-Filho [aut]
(<https://orcid.org/0000-0001-8250-1527>)
Maintainer: Everaldo Freitas Guedes <efgestatistico@gmail.com>
Diff between SlidingWindows versions 0.1.9 dated 2021-01-06 and 0.2.0 dated 2021-04-11
SlidingWindows-0.1.9/SlidingWindows/man/descritive_SlidingWindows.Rd |only SlidingWindows-0.1.9/SlidingWindows/man/dfa_SlidingWindows.Rd |only SlidingWindows-0.1.9/SlidingWindows/man/dmc_SlidingWindows.Rd |only SlidingWindows-0.1.9/SlidingWindows/man/dmca_SlidingWindows.Rd |only SlidingWindows-0.1.9/SlidingWindows/man/entropy_SlidingWindows.Rd |only SlidingWindows-0.1.9/SlidingWindows/man/rhodcca_SlidingWindows.Rd |only SlidingWindows-0.2.0/SlidingWindows/DESCRIPTION | 11 - SlidingWindows-0.2.0/SlidingWindows/MD5 | 32 +-- SlidingWindows-0.2.0/SlidingWindows/NAMESPACE | 13 - SlidingWindows-0.2.0/SlidingWindows/R/SlidingWindows.R | 2 SlidingWindows-0.2.0/SlidingWindows/R/descritive_SlidingWindows.R | 6 SlidingWindows-0.2.0/SlidingWindows/R/dfa_SlidingWindows.R | 10 - SlidingWindows-0.2.0/SlidingWindows/R/dmc_SlidingWindows.R | 86 +++++----- SlidingWindows-0.2.0/SlidingWindows/R/dmca_SlidingWindows.R | 34 ++- SlidingWindows-0.2.0/SlidingWindows/R/entropy_SlidingWindows.R | 51 ++--- SlidingWindows-0.2.0/SlidingWindows/R/rhodcca_SlidingWindows.R | 8 SlidingWindows-0.2.0/SlidingWindows/man/SlidingWindows.Rd | 2 SlidingWindows-0.2.0/SlidingWindows/man/descritive.SlidingWindows.Rd |only SlidingWindows-0.2.0/SlidingWindows/man/dfa.SlidingWindows.Rd |only SlidingWindows-0.2.0/SlidingWindows/man/dmc.SlidingWindows.Rd |only SlidingWindows-0.2.0/SlidingWindows/man/dmca.SlidingWindows.Rd |only SlidingWindows-0.2.0/SlidingWindows/man/entropy.SlidingWindows.Rd |only SlidingWindows-0.2.0/SlidingWindows/man/rhodcca.SlidingWindows.Rd |only 23 files changed, 123 insertions(+), 132 deletions(-)
More information about SlidingWindows at CRAN
Permanent link
Title: Number-Theoretic Functions
Description: Provides number-theoretic functions for factorization, prime
numbers, twin primes, primitive roots, modular logarithm and
inverses, extended GCD, Farey series and continuous fractions.
Includes Legendre and Jacobi symbols, some divisor functions,
Euler's Phi function, etc.
Author: Hans Werner Borchers
Maintainer: Hans W. Borchers <hwborchers@googlemail.com>
Diff between numbers versions 0.7-5 dated 2019-11-26 and 0.8-1 dated 2021-04-11
DESCRIPTION | 12 ++++++------ MD5 | 40 ++++++++++++++++++++++++---------------- NAMESPACE | 8 ++++++-- NEWS | 20 ++++++++++++++++++++ R/bernoulli.R |only R/carmichael.R |only R/egyptian.R | 2 +- R/modular.R | 18 ++++++++++++++++++ R/pascal.R |only R/ratFarey.R | 21 +++++++++++++++++++++ R/stern_brocot.R |only build/partial.rdb |binary man/bernoulli.Rd |only man/carmichael.Rd |only man/egyptian_complete.Rd | 2 +- man/egyptian_methods.Rd | 2 +- man/mersenne.Rd | 2 +- man/mod.Rd | 28 ++++++++++++++++++++++++++-- man/omega.Rd | 10 ++++++---- man/pascal.Rd |only man/pythagorean.Rd | 2 +- man/rabin.Rd | 2 +- man/ratFarey.Rd | 19 +++++++++++++++++-- man/sigma.Rd | 4 ++-- man/stern_brocot.Rd |only 25 files changed, 152 insertions(+), 40 deletions(-)
Title: Partitioning Beta Diversity into Turnover and Nestedness
Components
Description: Functions to compute pair-wise dissimilarities (distance matrices) and multiple-site dissimilarities, separating the turnover and nestedness-resultant components of taxonomic (incidence and abundance based), functional and phylogenetic beta diversity.
Author: Andres Baselga [aut, cre],
David Orme [aut],
Sebastien Villeger [aut],
Julien De Bortoli [aut],
Fabien Leprieur [aut],
Maxime Logez [aut],
Renato Henriques-Silva [ctb]
Maintainer: Andres Baselga <andres.baselga@usc.es>
Diff between betapart versions 1.5.3 dated 2021-03-05 and 1.5.4 dated 2021-04-11
DESCRIPTION | 8 MD5 | 8 NEWS.md | 4 R/functional.betapart.core.pairwise.R | 678 +++++++++++++++++++++++++++------- man/inter_geom_coord.Rd |only man/inter_rcdd_coord.Rd |only 6 files changed, 565 insertions(+), 133 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-22 1.1.4
2021-02-26 1.1.3
2020-12-15 1.1.1
2020-11-25 1.1.0
Title: Forest Analysis with Airborne Laser Scanning (LiDAR) Data
Description: Provides functions for forest analysis using airborne laser scanning (LiDAR remote sensing) data: tree detection (method 1 in Eysn et al. (2015) <doi:10.3390/f6051721>) and segmentation; forest parameters estimation and mapping with the area-based approach. It includes complementary steps for forest mapping: co-registration of field plots with LiDAR data (Monnet and Mermin (2014) <doi:10.3390/f5092307>); extraction of both physical (gaps, edges, trees) and statistical features from LiDAR data useful for e.g. habitat suitability modeling (Glad et al. (2020) <doi:10.1002/rse2.117>); model calibration with ground reference, and maps export.
Author: Jean-Matthieu Monnet [aut, cre]
Maintainer: Jean-Matthieu Monnet <jean-matthieu.monnet@inrae.fr>
Diff between lidaRtRee versions 3.0.2 dated 2021-04-10 and 3.0.3 dated 2021-04-10
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/common.R | 9 +++------ build/partial.rdb |binary man/pointList2SPDF.Rd | 9 +++------ 5 files changed, 13 insertions(+), 19 deletions(-)
Title: Numerical Methods and Optimization in Finance
Description: Functions, examples and data from the first and
the second edition of "Numerical Methods and Optimization
in Finance" by M. Gilli, D. Maringer and E. Schumann
(2019, ISBN:978-0128150658). The package provides
implementations of optimisation heuristics (Differential
Evolution, Genetic Algorithms, Particle Swarm
Optimisation, Simulated Annealing and Threshold
Accepting), and other optimisation tools, such as grid
search and greedy search. There are also functions for
the valuation of financial instruments such as bonds and
options, for portfolio selection and functions that help
with stochastic simulations.
Author: Enrico Schumann [aut, cre] (<https://orcid.org/0000-0001-7601-6576>)
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between NMOF versions 2.4-0 dated 2021-04-01 and 2.4-1 dated 2021-04-10
DESCRIPTION | 8 +- MD5 | 56 +++++++------- NEWS | 8 ++ R/DEopt.R | 2 R/GAopt.R | 2 R/LSopt.R | 2 R/PSopt.R | 2 R/SAopt.R | 2 R/TAopt.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/doc/An_overview.R | 18 ++-- inst/doc/An_overview.Rnw | 4 - inst/doc/An_overview.pdf |binary inst/doc/DEnss.pdf |binary inst/doc/LSqueens.pdf |binary inst/doc/LSselect.pdf |binary inst/doc/PSlms.pdf |binary inst/doc/TAportfolio.pdf |binary inst/doc/portfolio.pdf |binary inst/doc/qTableEx.pdf |binary inst/doc/repair.pdf |binary inst/doc/vectorise.pdf |binary inst/tinytest/test_portfolio.R | 155 +++++++++++++++++++--------------------- inst/unitTests/test_results.txt | 40 ++++------ man/GAopt.Rd | 3 man/minCVaR.Rd | 6 - tests/tinytest.R | 4 - vignettes/An_overview.Rnw | 4 - 29 files changed, 159 insertions(+), 159 deletions(-)
Title: A Friendly Package Manager
Description: Manage project dependencies from your DESCRIPTION file. Create a reproducible virtual environment with minimal additional files in your project. Provides tools to add, remove, and update dependencies as well as install existing dependencies with a single function.
Author: Andrew Kane [aut, cre]
Maintainer: Andrew Kane <andrew@chartkick.com>
Diff between jetpack versions 0.4.3 dated 2019-07-01 and 0.5.0 dated 2021-04-10
DESCRIPTION | 15 +- MD5 | 30 ++--- NAMESPACE | 1 NEWS.md | 6 + R/check.R | 6 - R/global.R | 2 R/helpers.R | 243 +++++++++++++++++++++--------------------- R/init.R | 4 R/install.R | 8 - R/load.R | 33 +++-- R/migrate.R |only R/outdated.R | 2 R/run.R | 7 - R/update.R | 3 README.md | 43 +++++-- man/migrate.Rd |only tests/testthat/test-jetpack.R | 24 ++-- 17 files changed, 237 insertions(+), 190 deletions(-)
Title: Geyser Data from GeyserTimes.org
Description: Download geyser eruption and observation data from the GeyserTimes
site (<https://geysertimes.org>) and optionally store it locally. The vignette
shows a simple analysis of downloading, accessing, and summarizing the data.
Author: Stephen Kaluzny [aut, cre]
Maintainer: Stephen Kaluzny <spkaluzny@gmail.com>
Diff between geysertimes versions 0.1.2 dated 2021-01-18 and 0.1.5 dated 2021-04-10
DESCRIPTION | 10 - MD5 | 10 - R/gt_get_data.R | 8 + README.md | 7 build/vignette.rds |binary inst/doc/geysertimes.html | 332 +++++++++++++++++++++++++++++++++++----------- 6 files changed, 280 insertions(+), 87 deletions(-)
Title: Functions to Efficiently Simulate and Evaluate NFL Seasons
Description: A set of functions to simulate National Football
League seasons including the sophisticated tie-breaking procedures.
Author: Lee Sharpe [aut, cph],
Sebastian Carl [cre, aut]
Maintainer: Sebastian Carl <mrcaseb@gmail.com>
Diff between nflseedR versions 1.0.1 dated 2021-03-31 and 1.0.2 dated 2021-04-10
DESCRIPTION | 6 LICENSE | 4 MD5 | 42 +- NAMESPACE | 48 +- NEWS.md | 4 R/data_doc.R | 38 +- R/division_tiebreaker.R | 318 +++++++++---------- R/draft_tiebreaker.R | 312 +++++++++--------- R/load_sharpe_games.R | 4 R/nflseedR-package.R | 44 +- R/silence_tidy_eval_notes.R | 128 +++---- R/sim_helper.R | 668 ++++++++++++++++++++-------------------- README.md | 130 ++++--- man/compute_conference_seeds.Rd | 146 ++++---- man/compute_division_ranks.Rd | 180 +++++----- man/compute_draft_order.Rd | 160 ++++----- man/divisions.Rd | 62 +-- man/load_sharpe_games.Rd | 194 +++++------ man/nflseedR-package.Rd | 66 +-- man/simulate_nfl.Rd | 310 +++++++++--------- tests/testthat.R | 8 tests/testthat/test-utils.R | 92 ++--- 22 files changed, 1488 insertions(+), 1476 deletions(-)
Title: Text Mining using 'dplyr', 'ggplot2', and Other Tidy Tools
Description: Using tidy data principles can make many text mining tasks easier,
more effective, and consistent with tools already in wide use. Much of the
infrastructure needed for text mining with tidy data frames already exists
in packages like 'dplyr', 'broom', 'tidyr', and 'ggplot2'. In this package,
we provide functions and supporting data sets to allow conversion of text
to and from tidy formats, and to switch seamlessly between tidy tools and
existing text mining packages.
Author: Gabriela De Queiroz [ctb],
Colin Fay [ctb] (<https://orcid.org/0000-0001-7343-1846>),
Emil Hvitfeldt [ctb],
Os Keyes [ctb] (<https://orcid.org/0000-0001-5196-609X>),
Kanishka Misra [ctb],
Tim Mastny [ctb],
Jeff Erickson [ctb],
David Robinson [aut],
Julia Silge [aut, cre] (<https://orcid.org/0000-0002-3671-836X>)
Maintainer: Julia Silge <julia.silge@gmail.com>
Diff between tidytext versions 0.3.0 dated 2021-01-06 and 0.3.1 dated 2021-04-10
DESCRIPTION | 14 MD5 | 24 - NEWS.md | 5 R/corpus_tidiers.R | 4 R/stop_words.R | 1 README.md | 152 ++++--- inst/doc/tf_idf.html | 266 +------------ inst/doc/tidying_casting.html | 578 +++++++++--------------------- inst/doc/tidytext.html | 406 +++++---------------- man/figures/README-unnamed-chunk-13-1.png |binary man/figures/README-unnamed-chunk-9-1.png |binary tests/testthat/test-corpus-tidiers.R | 6 tests/testthat/test-sparse-tidiers.R | 6 13 files changed, 439 insertions(+), 1023 deletions(-)
Title: Analyze Shot Group Data
Description: Analyzes shooting data with respect to group shape,
precision, and accuracy. This includes graphical methods,
descriptive statistics, and inference tests using standard,
but also non-parametric and robust statistical methods.
Implements distributions for radial error in bivariate normal
variables. Works with files exported by 'OnTarget PC/TDS',
'Silver Mountain' e-target, 'ShotMarker' e-target, or 'Taran',
as well as with custom data files in text format.
Supports inference from range statistics like extreme spread.
Includes a set of web-based graphical user interfaces.
Author: Daniel Wollschlaeger
Maintainer: Daniel Wollschlaeger <dwoll@kuci.org>
Diff between shotGroups versions 0.8 dated 2021-01-19 and 0.8.1 dated 2021-04-10
DESCRIPTION | 8 +-- MD5 | 55 ++++++++++++------------ R/getMinCircle.R | 1 R/mvnEll.R | 44 ++++++++++++++----- R/saddlepoint.R |only build/vignette.rds |binary data/DF300BLK.rda |binary data/DF300BLKhl.rda |binary data/DFcciHV.rda |binary data/DFcm.rda |binary data/DFdistr.rda |binary data/DFinch.rda |binary data/DFlandy01.rda |binary data/DFlandy02.rda |binary data/DFlandy03.rda |binary data/DFlandy04.rda |binary data/DFlistCm.rda |binary data/DFsavage.rda |binary data/DFscar17.rda |binary data/DFtalon.rda |binary data/targets.rda |binary inst/ChangeLog | 10 +++- inst/doc/shotGroups.R | 6 ++ inst/doc/shotGroups.Rnw | 18 +++++-- inst/doc/shotGroups.pdf |binary man/mvnEll.Rd | 19 ++++++-- man/shotGroups-package.Rd | 4 - vignettes/lit.bib | 105 ++++++++++++++++++++++++++-------------------- vignettes/shotGroups.Rnw | 18 +++++-- 29 files changed, 182 insertions(+), 106 deletions(-)
Title: Read Large Text Files
Description: Read large text files by splitting them in smaller files.
Package 'bigreadr' also provides some convenient wrappers around fread()
and fwrite() from package 'data.table'.
Author: Florian Privé [aut, cre]
Maintainer: Florian Privé <florian.prive.21@gmail.com>
Diff between bigreadr versions 0.2.2 dated 2021-02-17 and 0.2.4 dated 2021-04-10
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- R/zzz.R | 2 +- 3 files changed, 7 insertions(+), 8 deletions(-)
Title: Continuous Norming
Description: Conventional methods for producing standard scores in psychometrics or biometrics
are often plagued with "jumps" or "gaps" (i.e., discontinuities) in norm tables and low
confidence for assessing extreme scores. The continuous norming method introduced by A.
Lenhard et al. (2016, <doi:10.1177/1073191116656437>; 2019, <doi:10.1371/journal.pone.0222279>) and generates continuous test norm
scores on the basis of the raw data from standardization samples, without requiring
assumptions about the distribution of the raw data: Norm scores are directly established
from raw data by modeling the latter ones as a function of both percentile scores and an
explanatory variable (e.g., age). The method minimizes bias arising from sampling and
measurement error, while handling marked deviations from normality, addressing bottom
or ceiling effects and capturing almost all of the variance in the original norm data
sample. An online demonstration is available via <https://cnorm.shinyapps.io/cNORM/>.
Author: Wolfgang Lenhard [cre, aut] (<https://orcid.org/0000-0002-8184-6889>),
Alexandra Lenhard [aut],
Sebastian Gary [aut]
Maintainer: Wolfgang Lenhard <wolfgang.lenhard@uni-wuerzburg.de>
Diff between cNORM versions 2.0.2 dated 2021-01-30 and 2.0.3 dated 2021-04-10
DESCRIPTION | 8 MD5 | 17 - NEWS.md | 13 + R/modelling.R | 123 +++++------ R/predict.R | 16 - R/preparation.R | 97 +-------- inst/doc/cNORM-Demo.html | 494 ++++++++++++----------------------------------- inst/shiny/server.R | 3 man/buildFunction.Rd |only man/rankByGroup.Rd | 2 10 files changed, 240 insertions(+), 533 deletions(-)
Title: Pretty Timelines in R
Description: A library for creating time based charts, like Gantt or timelines. Possible outputs
include 'ggplot2' diagrams, 'plotly.js' graphs, 'Highcharts.js' widgets and data.frames. Results can be
used in the 'RStudio' viewer pane, in 'RMarkdown' documents or in Shiny apps. In the
interactive outputs created by vistime() and hc_vistime(), you can interact with the
plot using mouse hover or zoom.
Author: Sandro Raabe [aut, cre]
Maintainer: Sandro Raabe <sa.ra.online@posteo.de>
Diff between vistime versions 1.2.0 dated 2021-02-19 and 1.2.1 dated 2021-04-10
vistime-1.2.0/vistime/inst/img |only vistime-1.2.1/vistime/DESCRIPTION | 31 +++--- vistime-1.2.1/vistime/MD5 | 47 ++++----- vistime-1.2.1/vistime/NAMESPACE | 3 vistime-1.2.1/vistime/NEWS.md | 46 ++++---- vistime-1.2.1/vistime/R/hc_vistime.R | 5 vistime-1.2.1/vistime/R/plot_ggplot.R | 11 +- vistime-1.2.1/vistime/R/plot_highchart.R | 7 - vistime-1.2.1/vistime/R/vistime-package.R | 6 - vistime-1.2.1/vistime/README.md | 82 ++++++++-------- vistime-1.2.1/vistime/build/vignette.rds |binary vistime-1.2.1/vistime/inst/doc/gg_vistime-vignette.Rmd | 15 +- vistime-1.2.1/vistime/inst/doc/gg_vistime-vignette.html | 42 ++++---- vistime-1.2.1/vistime/inst/doc/hc_vistime-vignette.Rmd | 15 +- vistime-1.2.1/vistime/inst/doc/hc_vistime-vignette.html | 64 ++++++------ vistime-1.2.1/vistime/inst/doc/vistime-vignette.Rmd | 15 +- vistime-1.2.1/vistime/inst/doc/vistime-vignette.html | 80 ++++++++------- vistime-1.2.1/vistime/man/figures |only vistime-1.2.1/vistime/man/vistime-package.Rd | 44 ++++---- vistime-1.2.1/vistime/vignettes/gg_vistime-vignette.Rmd | 15 +- vistime-1.2.1/vistime/vignettes/hc_vistime-vignette.Rmd | 15 +- vistime-1.2.1/vistime/vignettes/vistime-vignette.Rmd | 15 +- 22 files changed, 300 insertions(+), 258 deletions(-)
Title: Effects and Importances of Model Ingredients
Description: Collection of tools for assessment of feature importance and feature effects.
Key functions are:
feature_importance() for assessment of global level feature importance,
ceteris_paribus() for calculation of the what-if plots,
partial_dependence() for partial dependence plots,
conditional_dependence() for conditional dependence plots,
accumulated_dependence() for accumulated local effects plots,
aggregate_profiles() and cluster_profiles() for aggregation of ceteris paribus profiles,
generic print() and plot() for better usability of selected explainers,
generic plotD3() for interactive, D3 based explanations, and
generic describe() for explanations in natural language.
The package 'ingredients' is a part of the 'DrWhy.AI' universe (Biecek 2018) <arXiv:1806.08915>.
Author: Przemyslaw Biecek [aut, cre] (<https://orcid.org/0000-0001-8423-1823>),
Hubert Baniecki [aut] (<https://orcid.org/0000-0001-6661-5364>),
Adam Izdebski [ctb]
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between ingredients versions 2.0.1 dated 2021-02-05 and 2.2.0 dated 2021-04-10
DESCRIPTION | 7 - MD5 | 120 +++++++++++++++--------------- NEWS.md | 4 + R/accumulated_dependence.R | 6 - R/aggregate_profiles.R | 10 +- R/calculate_oscillations.R | 6 - R/calculate_variable_profile.R | 2 R/ceteris_paribus.R | 4 - R/ceteris_paribus_2d.R | 2 R/cluster_profiles.R | 4 - R/conditional_dependence.R | 6 - R/describe_feature_importance.R | 2 R/feature_importance.R | 8 +- R/partial_dependence.R | 6 - R/plotD3_aggregated_profiles.R | 6 + R/plotD3_ceteris_paribus.R | 7 + R/plotD3_feature_importance.R | 2 R/plot_aggregated_profiles.R | 2 R/plot_ceteris_paribus.R | 4 - R/plot_ceteris_paribus_2d.R | 2 R/plot_ceteris_paribus_oscillations.R | 2 R/plot_feature_importance.R | 4 - R/print_ceteris_paribus.R | 16 +++- R/print_feature_importance.R | 2 R/select_neighbours.R | 4 - R/select_sample.R | 2 R/show_aggregated_profiles.R | 2 R/show_observations.R | 4 - R/show_profiles.R | 2 R/show_residuals.R | 2 R/show_rugs.R | 19 ++++ inst/doc/vignette_describe.html | 72 +++++++++--------- inst/doc/vignette_simulated.html | 15 ++- inst/doc/vignette_titanic.html | 15 ++- man/accumulated_dependence.Rd | 4 - man/aggregate_profiles.Rd | 10 +- man/calculate_oscillations.Rd | 6 - man/calculate_variable_profile.Rd | 2 man/ceteris_paribus.Rd | 4 - man/ceteris_paribus_2d.Rd | 2 man/cluster_profiles.Rd | 4 - man/conditional_dependence.Rd | 4 - man/describe.Rd | 2 man/feature_importance.Rd | 6 - man/partial_dependence.Rd | 4 - man/plot.aggregated_profiles_explainer.Rd | 2 man/plot.ceteris_paribus_2d_explainer.Rd | 2 man/plot.ceteris_paribus_explainer.Rd | 4 - man/plot.ceteris_paribus_oscillations.Rd | 2 man/plot.feature_importance_explainer.Rd | 4 - man/plotD3_aggregated_profiles.Rd | 6 + man/plotD3_ceteris_paribus.Rd | 7 + man/plotD3_feature_importance.Rd | 2 man/print.ceteris_paribus_explainer.Rd | 16 +++- man/print.feature_importance_explainer.Rd | 2 man/select_neighbours.Rd | 2 man/show_aggregated_profiles.Rd | 2 man/show_observations.Rd | 4 - man/show_profiles.Rd | 2 man/show_residuals.Rd | 2 man/show_rugs.Rd | 19 ++++ 61 files changed, 282 insertions(+), 215 deletions(-)
Title: Helpers for Model Coefficients Tibbles
Description: Provides suite of functions to work with regression
model 'broom::tidy()' tibbles. The suite includes functions to group
regression model terms by variable, insert reference and header rows
for categorical variables, add variable labels, and more.
Author: Joseph Larmarange [aut, cre] (<https://orcid.org/0000-0001-7097-700X>),
Daniel D. Sjoberg [aut] (<https://orcid.org/0000-0003-0862-2018>)
Maintainer: Joseph Larmarange <joseph@larmarange.net>
Diff between broom.helpers versions 1.2.1 dated 2021-02-26 and 1.3.0 dated 2021-04-10
DESCRIPTION | 10 MD5 | 92 ++--- NAMESPACE | 6 NEWS.md | 16 R/model_get_assign.R |only R/model_get_coefficients_type.R | 4 R/model_get_contrasts.R | 38 +- R/model_get_weights.R | 2 R/model_identify_variables.R | 18 - R/tidiers.R |only R/tidy_and_attach.R | 12 R/tidy_plus_plus.R | 2 README.md | 206 ++++++------ inst/WORDLIST | 2 inst/doc/tidy.R | 4 inst/doc/tidy.Rmd | 4 inst/doc/tidy.html | 323 ++++++++++--------- man/model_compute_terms_contributions.Rd | 1 man/model_get_assign.Rd |only man/model_get_coefficients_type.Rd | 1 man/model_get_contrasts.Rd | 7 man/model_get_model.Rd | 1 man/model_get_model_frame.Rd | 1 man/model_get_model_matrix.Rd | 1 man/model_get_n.Rd | 1 man/model_get_nlevels.Rd | 1 man/model_get_offset.Rd | 1 man/model_get_response.Rd | 1 man/model_get_terms.Rd | 1 man/model_get_weights.Rd | 1 man/model_get_xlevels.Rd | 1 man/model_identify_variables.Rd | 1 man/model_list_contrasts.Rd | 1 man/model_list_terms_levels.Rd | 1 man/model_list_variables.Rd | 1 man/tidy_attach_model.Rd | 7 man/tidy_parameters.Rd |only man/tidy_plus_plus.Rd | 2 man/tidy_with_broom_or_parameters.Rd |only tests/testthat/test-add_coefficients_type.R | 11 tests/testthat/test-add_contrasts.R | 19 + tests/testthat/test-add_estimate_to_reference_rows.R | 13 tests/testthat/test-add_n.R | 2 tests/testthat/test-add_term_labels.R | 2 tests/testthat/test-add_variable_labels.R | 2 tests/testthat/test-disambiguate_terms.R | 10 tests/testthat/test-model_get_n.R | 2 tests/testthat/test-tidy_parameters.R |only tests/testthat/test-tidy_plus_plus.R | 42 ++ vignettes/tidy.Rmd | 4 50 files changed, 515 insertions(+), 363 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-23 3.0.5
2018-09-28 3.0.1
2016-05-10 2.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-13 1.5.0
2020-10-15 1.4.8
2020-05-26 1.4.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-11 0.2.0
2019-11-12 0.0.1
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut] (<https://orcid.org/0000-0001-8538-6691>),
Melissa Hallow [aut],
Wenping Wang [aut, cre],
Zufar Mulyukov [ctb],
Alan Hindmarsh [ctb],
Awad H. Al-Mohy [ctb],
Matt Dowle [ctb],
Cleve Moler [ctb],
David Cooley [ctb],
Daniel C. Dillon [ctb],
Drew Schmidt [ctb],
Arun Srinivasan [ctb],
Ernst Hairer [ctb],
Gerhard Wanner [ctb],
Goro Fuji [ctb],
Hadley Wickham [ctb],
Jack Dongarra [ctb],
Linda Petzold [ctb],
Martin Maechler [ctb],
Matteo Fasiolo [ctb],
Morwenn [ctb],
Nicholas J. Higham [ctb],
Roger B. Sidje [ctb],
Simon Frost [ctb],
Kevin Ushey [ctb],
Yu Feng [ctb]
Maintainer: Wenping Wang <wwang8198@gmail.com>
Diff between RxODE versions 1.0.7 dated 2021-04-08 and 1.0.8 dated 2021-04-10
DESCRIPTION | 6 +++--- MD5 | 16 +++++++++------- NEWS.md | 9 ++++++++- R/RxODE_md5.R | 2 +- build/partial.rdb |binary inst/doc/RxODE-syntax.html | 14 +++++++------- src/lincmt.c | 4 ++++ src/ode.h | 4 ++-- tests/testthat/test-issue-398.R |only tests/testthat/test-issue-398.qs |only 10 files changed, 34 insertions(+), 21 deletions(-)
Title: Collect Ocean Data from NOAA
Description: Provides a small set of tools for collecting data from National
Oceanic and Atmospheric Administration (NOAA) data sources. The functions
provided in the package are wrappers around NOAA's existing APIs which is
found at <https://api.tidesandcurrents.noaa.gov/api/prod/>.
Author: Sean Warlick [aut, cre]
Maintainer: Sean Warlick <warlick.sean@gmail.com>
Diff between noaaoceans versions 0.2.0 dated 2019-12-01 and 0.3.0 dated 2021-04-10
noaaoceans-0.2.0/noaaoceans/vignettes/getting_started/0/tidesandcurrents.noaa.gov |only noaaoceans-0.3.0/noaaoceans/DESCRIPTION | 11 noaaoceans-0.3.0/noaaoceans/MD5 | 61 - noaaoceans-0.3.0/noaaoceans/NAMESPACE | 2 noaaoceans-0.3.0/noaaoceans/NEWS.md | 9 noaaoceans-0.3.0/noaaoceans/R/noaaoceans.R | 2 noaaoceans-0.3.0/noaaoceans/R/query_coops_data.R | 8 noaaoceans-0.3.0/noaaoceans/R/query_derived_products.R |only noaaoceans-0.3.0/noaaoceans/R/query_meta_data.R |only noaaoceans-0.3.0/noaaoceans/README.md | 49 - noaaoceans-0.3.0/noaaoceans/build/vignette.rds |binary noaaoceans-0.3.0/noaaoceans/inst/doc/getting_started.R | 22 noaaoceans-0.3.0/noaaoceans/inst/doc/getting_started.Rmd | 49 - noaaoceans-0.3.0/noaaoceans/inst/doc/getting_started.html | 363 +++++----- noaaoceans-0.3.0/noaaoceans/man/coops_station_inventory.Rd | 39 - noaaoceans-0.3.0/noaaoceans/man/noaaoceans.Rd | 3 noaaoceans-0.3.0/noaaoceans/man/query_coops_data.Rd | 24 noaaoceans-0.3.0/noaaoceans/man/query_derived_products.Rd |only noaaoceans-0.3.0/noaaoceans/man/query_metadata.Rd |only noaaoceans-0.3.0/noaaoceans/tests/testthat/test_data_type.R | 53 + noaaoceans-0.3.0/noaaoceans/tests/testthat/test_query_metadata.R |only noaaoceans-0.3.0/noaaoceans/tools/README-plot_data-1.png |binary noaaoceans-0.3.0/noaaoceans/vignettes/getting_started.Rmd | 49 - noaaoceans-0.3.0/noaaoceans/vignettes/getting_started/0/api.tidesandcurrents.noaa.gov |only noaaoceans-0.3.0/noaaoceans/vignettes/getting_started/0/opendap.co-ops.nos.noaa.gov/stations/stationsXML.jsp.R | 38 - 25 files changed, 466 insertions(+), 316 deletions(-)
Title: Two-Steps Benchmarks for Time Series Disaggregation
Description: The twoStepsBenchmark() and threeRuleSmooth() functions allow you to
disaggregate a low-frequency time-serie with time-series of higher frequency,
using the French National Accounts methodology. The aggregated sum of the
resulting time-serie is strictly equal to the low-frequency serie within the
benchmarking window. Typically, the low-frequency serie is an annual one,
unknown for the last year, and the high frequency one is either quarterly or
mensual. See "Methodology of quarterly national accounts", Insee Méthodes
N°126, by Insee (2012, ISBN:978-2-11-068613-8).
Author: Arnaud Feldmann [aut, cre] (<https://orcid.org/0000-0003-0109-7505>),
Franck Arnaud [ctb] (barplot base graphics method for the mts class),
Institut national de la statistique et des études économiques [cph]
(https://www.insee.fr/)
Maintainer: Arnaud Feldmann <arnaud.feldmann@insee.fr>
Diff between disaggR versions 0.1.11 dated 2020-12-09 and 0.2.0.2 dated 2021-04-10
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Title: Tools for Descriptive Statistics
Description: A collection of miscellaneous basic statistic functions and convenience wrappers for efficiently describing data. The author's intention was to create a toolbox, which facilitates the (notoriously time consuming) first descriptive tasks in data analysis, consisting of calculating descriptive statistics, drawing graphical summaries and reporting the results. The package contains furthermore functions to produce documents using MS Word (or PowerPoint) and functions to import data from Excel. Many of the included functions can be found scattered in other packages and other sources written partly by Titans of R. The reason for collecting them here, was primarily to have them consolidated in ONE instead of dozens of packages (which themselves might depend on other packages which are not needed at all), and to provide a common and consistent interface as far as function and arguments naming, NA handling, recycling rules etc. are concerned. Google style guides were used as naming rules (in absence of convincing alternatives). The 'BigCamelCase' style was consequently applied to functions borrowed from contributed R packages as well.
Author: Andri Signorell [aut, cre],
Ken Aho [ctb],
Andreas Alfons [ctb],
Nanina Anderegg [ctb],
Tomas Aragon [ctb],
Chandima Arachchige [ctb],
Antti Arppe [ctb],
Adrian Baddeley [ctb],
Kamil Barton [ctb],
Ben Bolker [ctb],
Hans W. Borchers [ctb],
Frederico Caeiro [ctb],
Stephane Champely [ctb],
Daniel Chessel [ctb],
Leanne Chhay [ctb],
Nicholas Cooper [ctb],
Clint Cummins [ctb],
Michael Dewey [ctb],
Harold C. Doran [ctb],
Stephane Dray [ctb],
Charles Dupont [ctb],
Dirk Eddelbuettel [ctb],
Claus Ekstrom [ctb],
Martin Elff [ctb],
Jeff Enos [ctb],
Richard W. Farebrother [ctb],
John Fox [ctb],
Romain Francois [ctb],
Michael Friendly [ctb],
Tal Galili [ctb],
Matthias Gamer [ctb],
Joseph L. Gastwirth [ctb],
Vilmantas Gegzna [ctb],
Yulia R. Gel [ctb],
Sereina Graber [ctb],
Juergen Gross [ctb],
Gabor Grothendieck [ctb],
Frank E. Harrell Jr [ctb],
Richard Heiberger [ctb],
Michael Hoehle [ctb],
Christian W. Hoffmann [ctb],
Soeren Hojsgaard [ctb],
Torsten Hothorn [ctb],
Markus Huerzeler [ctb],
Wallace W. Hui [ctb],
Pete Hurd [ctb],
Rob J. Hyndman [ctb],
Christopher Jackson [ctb],
Matthias Kohl [ctb],
Mikko Korpela [ctb],
Max Kuhn [ctb],
Detlew Labes [ctb],
Friederich Leisch [ctb],
Jim Lemon [ctb],
Dong Li [ctb],
Martin Maechler [ctb],
Arni Magnusson [ctb],
Ben Mainwaring [ctb],
Daniel Malter [ctb],
George Marsaglia [ctb],
John Marsaglia [ctb],
Alina Matei [ctb],
David Meyer [ctb],
Weiwen Miao [ctb],
Giovanni Millo [ctb],
Yongyi Min [ctb],
David Mitchell [ctb],
Franziska Mueller [ctb],
Markus Naepflin [ctb],
Daniel Navarro [ctb],
Henric Nilsson [ctb],
Klaus Nordhausen [ctb],
Derek Ogle [ctb],
Hong Ooi [ctb],
Nick Parsons [ctb],
Sandrine Pavoine [ctb],
Tony Plate [ctb],
Luke Prendergast [ctb],
Roland Rapold [ctb],
William Revelle [ctb],
Tyler Rinker [ctb],
Brian D. Ripley [ctb],
Caroline Rodriguez [ctb],
Nathan Russell [ctb],
Nick Sabbe [ctb],
Ralph Scherer [ctb],
Venkatraman E. Seshan [ctb],
Michael Smithson [ctb],
Greg Snow [ctb],
Karline Soetaert [ctb],
Werner A. Stahel [ctb],
Alec Stephenson [ctb],
Mark Stevenson [ctb],
Ralf Stubner [ctb],
Matthias Templ [ctb],
Duncan Temple Lang [ctb],
Terry Therneau [ctb],
Yves Tille [ctb],
Luis Torgo [ctb],
Adrian Trapletti [ctb],
Joshua Ulrich [ctb],
Kevin Ushey [ctb],
Jeremy VanDerWal [ctb],
Bill Venables [ctb],
John Verzani [ctb],
Pablo J. Villacorta Iglesias [ctb],
Gregory R. Warnes [ctb],
Stefan Wellek [ctb],
Hadley Wickham [ctb],
Rand R. Wilcox [ctb],
Peter Wolf [ctb],
Daniel Wollschlaeger [ctb],
Joseph Wood [ctb],
Ying Wu [ctb],
Thomas Yee [ctb],
Achim Zeileis [ctb]
Maintainer: Andri Signorell <andri@signorell.net>
Diff between DescTools versions 0.99.40 dated 2021-02-03 and 0.99.41 dated 2021-04-10
DESCRIPTION | 10 - MD5 | 54 ++++----- NAMESPACE | 13 +- NEWS | 40 ++++++ R/Desc.R | 4 R/DescTools.r | 209 +++++++++++++++++++++++++++++----- R/LinMod.R | 5 R/StatsAndCIs.r | 281 +++++++++++++++++++++++++++++++++++------------ R/Utils.R | 2 README.md | 7 - build/vignette.rds |binary man/BarText.Rd | 32 ++++- man/Between.Rd | 26 +++- man/BinomCI.Rd | 16 +- man/Cstat.Rd | 30 ++++- man/DateFunctions.Rd | 8 + man/DenseRank.Rd | 11 - man/DescTools-package.Rd | 2 man/DoBy.Rd | 2 man/MeanCIn.Rd |only man/Median.Rd | 2 man/QuantileCI.Rd | 4 man/Rank.Rd |only man/RevCode.Rd | 50 ++++---- man/Skew.Rd | 6 - man/StrExtract.Rd | 6 - man/ZeroIfNA.Rd | 8 + man/n.Rd | 4 tests/misc.R | 14 ++ 29 files changed, 631 insertions(+), 215 deletions(-)
Title: Handle Data with Messy Header Rows and Broken Values
Description: Verb-like functions to work with messy data, often derived from
spreadsheets or parsed PDF tables. Includes functions for unwrapping
values broken up across rows, relocating embedded grouping values,
and to annotate meaningful formatting in spreadsheet files.
Author: Luis D. Verde Arregoitia [aut, cre]
(<https://orcid.org/0000-0001-9520-6543>)
Maintainer: Luis D. Verde Arregoitia <luis@liomys.mx>
Diff between unheadr versions 0.3.1 dated 2021-02-06 and 0.3.2 dated 2021-04-09
DESCRIPTION | 6 MD5 | 14 NEWS.md | 5 R/mash_colnames.R | 2 R/unbreak_fn.R | 2 build/partial.rdb |binary inst/doc/unheadr-vignette.html | 684 +++++++++++++++++++++++++---------------- man/unbreak_vals.Rd | 2 8 files changed, 451 insertions(+), 264 deletions(-)
Title: Robust Backfitting
Description: A robust backfitting algorithm for additive models based on (robust) local polynomial
kernel smoothers. It includes both bounded and re-descending (kernel) M-estimators, and
it computes predictions for points outside the training set if desired. See
Boente, Martinez and Salibian-Barrera (2017) <doi:10.1080/10485252.2017.1369077> and
Martinez and Salibian-Barrera (2021) <doi:10.21105/joss.02992> for details.
Author: Matias Salibian-Barrera [aut, cre],
Alejandra Martinez [aut]
Maintainer: Matias Salibian-Barrera <matias@stat.ubc.ca>
Diff between RBF versions 2.0.1 dated 2020-07-30 and 2.1.0 dated 2021-04-09
DESCRIPTION | 16 +++++---- MD5 | 39 ++++++++++++++++++++--- NAMESPACE | 3 + NEWS.md |only R/RBF-fn.R | 83 ++++++++++++++++++++++++++++++++++++++------------- build |only inst |only man/backf.cl.Rd | 13 ++++++- man/backf.rob.Rd | 18 +++++++++-- man/figures |only man/summary.backf.Rd | 5 +-- vignettes |only 12 files changed, 137 insertions(+), 40 deletions(-)
Title: Estimation of Hawkes Processes from Binned Observations
Description: Implements an estimation method for Hawkes processes when count data are only observed in discrete time, using a spectral approach derived from the Bartlett spectrum, see Cheysson and Lang (2020) <arXiv:2003.04314>. Some general use functions for Hawkes processes are also included: simulation of (in)homogeneous Hawkes process, maximum likelihood estimation, residual analysis, etc.
Author: Felix Cheysson [aut, cre] (<https://orcid.org/0000-0002-9095-2878>)
Maintainer: Felix Cheysson <felix@cheysson.fr>
Diff between hawkesbow versions 1.0.1 dated 2021-04-07 and 1.0.2 dated 2021-04-09
DESCRIPTION | 6 +++--- MD5 | 6 +++--- inst/doc/hawkesbow.pdf |binary src/utils.cpp | 4 ++-- 4 files changed, 8 insertions(+), 8 deletions(-)
Title: Climate Indices
Description: Computes 138 standard climate indices at monthly, seasonal and annual resolution. These indices were selected, based on their direct and significant impacts on target sectors, after a thorough review of the literature in the field of extreme weather events and natural hazards. Overall, the selected indices characterize different aspects of the frequency, intensity and duration of extreme events, and are derived from a broad set of climatic variables, including surface air temperature, precipitation, relative humidity, wind speed, cloudiness, solar radiation, and snow cover. The 138 indices have been classified as follow: Temperature based indices (42), Precipitation based indices (22), Bioclimatic indices (21), Wind-based indices (5), Aridity/ continentality indices (10), Snow-based indices (13), Cloud/radiation based indices (6), Drought indices (8), Fire indices (5), Tourism indices (5).
Author: Fergus Reig-Gracia [aut, cre], Sergio M. Vicente-Serrano [aut], Fernando Dominguez-Castro [aut], Joaquin Bedia-Jiménez [ctb]
Maintainer: Fergus Reig-Gracia <fergusrg@gmail.com>
Diff between ClimInd versions 0.1-2 dated 2019-07-18 and 0.1-3 dated 2021-04-09
ClimInd-0.1-2/ClimInd/man/calcf_data_max_min_mean.Rd |only ClimInd-0.1-2/ClimInd/man/cd.Rd |only ClimInd-0.1-2/ClimInd/man/cn.Rd |only ClimInd-0.1-2/ClimInd/man/ffdi.Rd |only ClimInd-0.1-2/ClimInd/man/fffi.Rd |only ClimInd-0.1-2/ClimInd/man/fwi.Rd |only ClimInd-0.1-2/ClimInd/man/hciu.Rd |only ClimInd-0.1-2/ClimInd/man/kbdi.Rd |only ClimInd-0.1-2/ClimInd/man/ldp.Rd |only ClimInd-0.1-2/ClimInd/man/lwp.Rd |only ClimInd-0.1-2/ClimInd/man/mni.Rd |only ClimInd-0.1-2/ClimInd/man/ntn.Rd |only ClimInd-0.1-2/ClimInd/man/ntx.Rd |only ClimInd-0.1-2/ClimInd/man/rtwd.Rd |only ClimInd-0.1-2/ClimInd/man/rx.Rd |only ClimInd-0.1-2/ClimInd/man/sdd.Rd |only ClimInd-0.1-2/ClimInd/man/sud.Rd |only ClimInd-0.1-2/ClimInd/man/tci.Rd |only ClimInd-0.1-2/ClimInd/man/tci60.Rd |only ClimInd-0.1-2/ClimInd/man/tci80.Rd |only ClimInd-0.1-2/ClimInd/man/tn.Rd |only ClimInd-0.1-2/ClimInd/man/wd.Rd |only ClimInd-0.1-2/ClimInd/man/wn.Rd |only ClimInd-0.1-2/ClimInd/man/wsd.Rd |only ClimInd-0.1-2/ClimInd/man/xtn.Rd |only ClimInd-0.1-2/ClimInd/man/xtx.Rd |only ClimInd-0.1-3/ClimInd/DESCRIPTION | 10 ClimInd-0.1-3/ClimInd/MD5 | 307 +-- ClimInd-0.1-3/ClimInd/NAMESPACE | 40 ClimInd-0.1-3/ClimInd/NEWS.md | 6 ClimInd-0.1-3/ClimInd/R/indecis.R | 116 - ClimInd-0.1-3/ClimInd/R/indecis_indices.R | 1724 +++++++------------ ClimInd-0.1-3/ClimInd/R/indecis_indices_functions.R | 78 ClimInd-0.1-3/ClimInd/R/penman_fao_dia.R | 497 ++--- ClimInd-0.1-3/ClimInd/build |only ClimInd-0.1-3/ClimInd/man/Datasets.Rd | 4 ClimInd-0.1-3/ClimInd/man/aci.Rd | 6 ClimInd-0.1-3/ClimInd/man/asd.Rd | 6 ClimInd-0.1-3/ClimInd/man/at.Rd | 11 ClimInd-0.1-3/ClimInd/man/average_temp.Rd | 3 ClimInd-0.1-3/ClimInd/man/bi.Rd | 8 ClimInd-0.1-3/ClimInd/man/bio10.Rd | 8 ClimInd-0.1-3/ClimInd/man/bio11.Rd | 8 ClimInd-0.1-3/ClimInd/man/bio13.Rd | 8 ClimInd-0.1-3/ClimInd/man/bio14.Rd | 8 ClimInd-0.1-3/ClimInd/man/bio15.Rd | 10 ClimInd-0.1-3/ClimInd/man/bio16.Rd | 8 ClimInd-0.1-3/ClimInd/man/bio17.Rd | 8 ClimInd-0.1-3/ClimInd/man/bio18.Rd | 10 ClimInd-0.1-3/ClimInd/man/bio19.Rd | 10 ClimInd-0.1-3/ClimInd/man/bio20.Rd | 6 ClimInd-0.1-3/ClimInd/man/bio4.Rd | 10 ClimInd-0.1-3/ClimInd/man/bio5.Rd | 10 ClimInd-0.1-3/ClimInd/man/bio6.Rd | 10 ClimInd-0.1-3/ClimInd/man/bio7.Rd | 12 ClimInd-0.1-3/ClimInd/man/bio8.Rd | 10 ClimInd-0.1-3/ClimInd/man/bio9.Rd | 10 ClimInd-0.1-3/ClimInd/man/calc_eto.Rd | 17 ClimInd-0.1-3/ClimInd/man/calc_spi.Rd | 2 ClimInd-0.1-3/ClimInd/man/calcf_data.Rd | 12 ClimInd-0.1-3/ClimInd/man/calcf_data_.Rd | 4 ClimInd-0.1-3/ClimInd/man/calculate_all.Rd | 18 ClimInd-0.1-3/ClimInd/man/calculate_all_scales.Rd | 4 ClimInd-0.1-3/ClimInd/man/cc.Rd | 4 ClimInd-0.1-3/ClimInd/man/cdd.Rd | 13 ClimInd-0.1-3/ClimInd/man/cfd.Rd | 4 ClimInd-0.1-3/ClimInd/man/cmd.Rd | 21 ClimInd-0.1-3/ClimInd/man/csd.Rd | 4 ClimInd-0.1-3/ClimInd/man/csdi.Rd |only ClimInd-0.1-3/ClimInd/man/cwd.Rd |only ClimInd-0.1-3/ClimInd/man/d32.Rd | 10 ClimInd-0.1-3/ClimInd/man/d50mm.Rd | 4 ClimInd-0.1-3/ClimInd/man/d95p.Rd | 6 ClimInd-0.1-3/ClimInd/man/dd.Rd | 4 ClimInd-0.1-3/ClimInd/man/dd17.Rd | 4 ClimInd-0.1-3/ClimInd/man/dfx21.Rd | 6 ClimInd-0.1-3/ClimInd/man/dr1mm.Rd | 4 ClimInd-0.1-3/ClimInd/man/dr3mm.Rd | 4 ClimInd-0.1-3/ClimInd/man/dtr.Rd | 6 ClimInd-0.1-3/ClimInd/man/eai.Rd | 8 ClimInd-0.1-3/ClimInd/man/ep.Rd | 8 ClimInd-0.1-3/ClimInd/man/eto.Rd | 40 ClimInd-0.1-3/ClimInd/man/etr.Rd | 6 ClimInd-0.1-3/ClimInd/man/fd.Rd | 4 ClimInd-0.1-3/ClimInd/man/fg.Rd | 4 ClimInd-0.1-3/ClimInd/man/fg6bft.Rd | 4 ClimInd-0.1-3/ClimInd/man/fgcalm.Rd | 4 ClimInd-0.1-3/ClimInd/man/fod.Rd | 6 ClimInd-0.1-3/ClimInd/man/fpsc.Rd | 7 ClimInd-0.1-3/ClimInd/man/fsc.Rd | 6 ClimInd-0.1-3/ClimInd/man/fsd.Rd | 6 ClimInd-0.1-3/ClimInd/man/fwi1D.Rd | 13 ClimInd-0.1-3/ClimInd/man/fxx.Rd | 6 ClimInd-0.1-3/ClimInd/man/gd4.Rd | 4 ClimInd-0.1-3/ClimInd/man/gsl.Rd | 8 ClimInd-0.1-3/ClimInd/man/gsr.Rd | 6 ClimInd-0.1-3/ClimInd/man/gtg.Rd | 4 ClimInd-0.1-3/ClimInd/man/gtn.Rd | 4 ClimInd-0.1-3/ClimInd/man/gtx.Rd | 4 ClimInd-0.1-3/ClimInd/man/hd17.Rd | 6 ClimInd-0.1-3/ClimInd/man/hi.Rd | 8 ClimInd-0.1-3/ClimInd/man/hsd.Rd | 6 ClimInd-0.1-3/ClimInd/man/id.Rd | 4 ClimInd-0.1-3/ClimInd/man/jci.Rd | 6 ClimInd-0.1-3/ClimInd/man/koi.Rd | 8 ClimInd-0.1-3/ClimInd/man/lpsc.Rd | 6 ClimInd-0.1-3/ClimInd/man/mai.Rd | 8 ClimInd-0.1-3/ClimInd/man/maximum_temp.Rd | 3 ClimInd-0.1-3/ClimInd/man/mfi.Rd | 6 ClimInd-0.1-3/ClimInd/man/mi.Rd | 6 ClimInd-0.1-3/ClimInd/man/minimum_temp.Rd | 3 ClimInd-0.1-3/ClimInd/man/moi.Rd | 16 ClimInd-0.1-3/ClimInd/man/months_quarter.Rd | 3 ClimInd-0.1-3/ClimInd/man/ms.Rd | 6 ClimInd-0.1-3/ClimInd/man/msd.Rd | 8 ClimInd-0.1-3/ClimInd/man/ngsr.Rd | 6 ClimInd-0.1-3/ClimInd/man/no_null.Rd |only ClimInd-0.1-3/ClimInd/man/ntg.Rd | 2 ClimInd-0.1-3/ClimInd/man/ogs10.Rd | 4 ClimInd-0.1-3/ClimInd/man/ogs6.Rd | 4 ClimInd-0.1-3/ClimInd/man/pci.Rd | 6 ClimInd-0.1-3/ClimInd/man/penman_fao_diario.Rd | 26 ClimInd-0.1-3/ClimInd/man/pici.Rd | 8 ClimInd-0.1-3/ClimInd/man/prcptot.Rd |only ClimInd-0.1-3/ClimInd/man/ptg.Rd | 6 ClimInd-0.1-3/ClimInd/man/r10mm.Rd | 4 ClimInd-0.1-3/ClimInd/man/r20mm.Rd | 4 ClimInd-0.1-3/ClimInd/man/r95tot.Rd | 8 ClimInd-0.1-3/ClimInd/man/r99tot.Rd | 6 ClimInd-0.1-3/ClimInd/man/rti.Rd | 4 ClimInd-0.1-3/ClimInd/man/rx1day.Rd |only ClimInd-0.1-3/ClimInd/man/rx5d.Rd | 4 ClimInd-0.1-3/ClimInd/man/scd.Rd | 4 ClimInd-0.1-3/ClimInd/man/sd0_10.Rd | 6 ClimInd-0.1-3/ClimInd/man/sd10_20.Rd | 6 ClimInd-0.1-3/ClimInd/man/sdii.Rd | 4 ClimInd-0.1-3/ClimInd/man/snd.Rd | 4 ClimInd-0.1-3/ClimInd/man/spei1.Rd | 12 ClimInd-0.1-3/ClimInd/man/spei12.Rd | 12 ClimInd-0.1-3/ClimInd/man/spei3.Rd | 12 ClimInd-0.1-3/ClimInd/man/spei6.Rd | 12 ClimInd-0.1-3/ClimInd/man/spi1.Rd | 6 ClimInd-0.1-3/ClimInd/man/spi12.Rd | 6 ClimInd-0.1-3/ClimInd/man/spi3.Rd | 6 ClimInd-0.1-3/ClimInd/man/spi6.Rd | 6 ClimInd-0.1-3/ClimInd/man/ss.Rd | 4 ClimInd-0.1-3/ClimInd/man/ssd.Rd | 4 ClimInd-0.1-3/ClimInd/man/ssp.Rd | 4 ClimInd-0.1-3/ClimInd/man/stn10.Rd | 6 ClimInd-0.1-3/ClimInd/man/stn15.Rd | 6 ClimInd-0.1-3/ClimInd/man/stx32.Rd | 6 ClimInd-0.1-3/ClimInd/man/su.Rd |only ClimInd-0.1-3/ClimInd/man/ta_o.Rd | 6 ClimInd-0.1-3/ClimInd/man/td_to_rh.Rd | 2 ClimInd-0.1-3/ClimInd/man/tm_s.Rd | 6 ClimInd-0.1-3/ClimInd/man/tn10p.Rd |only ClimInd-0.1-3/ClimInd/man/tn90p.Rd |only ClimInd-0.1-3/ClimInd/man/tnn.Rd |only ClimInd-0.1-3/ClimInd/man/tnx.Rd |only ClimInd-0.1-3/ClimInd/man/tr.Rd |only ClimInd-0.1-3/ClimInd/man/tx10p.Rd |only ClimInd-0.1-3/ClimInd/man/tx90p.Rd |only ClimInd-0.1-3/ClimInd/man/txn.Rd |only ClimInd-0.1-3/ClimInd/man/txx.Rd |only ClimInd-0.1-3/ClimInd/man/uai.Rd | 10 ClimInd-0.1-3/ClimInd/man/utci.Rd | 32 ClimInd-0.1-3/ClimInd/man/vcd.Rd | 6 ClimInd-0.1-3/ClimInd/man/vdtr.Rd | 6 ClimInd-0.1-3/ClimInd/man/vwd.Rd | 6 ClimInd-0.1-3/ClimInd/man/wci.Rd | 6 ClimInd-0.1-3/ClimInd/man/wki.Rd | 6 ClimInd-0.1-3/ClimInd/man/ws.Rd | 6 ClimInd-0.1-3/ClimInd/man/wsdi.Rd |only ClimInd-0.1-3/ClimInd/man/xtg.Rd | 2 ClimInd-0.1-3/ClimInd/man/zcd.Rd | 6 ClimInd-0.1-3/ClimInd/tests/testthat/test-indices.R | 4 176 files changed, 1685 insertions(+), 2005 deletions(-)
Title: Metadata Processing for the German Modification of the ICD-10
Coding System
Description: Provides convenient access to the German modification of the International Classification of Diagnoses, 10th revision (ICD-10-GM). It provides functionality to aid in the identification, specification and historisation of ICD-10 codes. Its intended use is the analysis of routinely collected data in the context of epidemiology, medical research and health services research. The underlying metadata are released by the German Institute for Medical Documentation and Information <https://www.dimdi.de>, and are redistributed in accordance with their license.
Author: Ewan Donnachie [aut, cre] (<https://orcid.org/0000-0002-0668-0049>)
Maintainer: Ewan Donnachie <ewan@donnachie.net>
Diff between ICD10gm versions 1.1 dated 2020-04-14 and 1.2.2 dated 2021-04-09
DESCRIPTION | 15 +++--- MD5 | 42 +++++++++++------- NEWS.md | 10 ++++ R/data.R | 44 +++++++++++++++++++ README.md | 4 - build/partial.rdb |only build/vignette.rds |binary data/charlson_rcs.rda |only data/charlson_sundararajan.rda |only data/icd_meta_blocks.rda |binary data/icd_meta_chapters.rda |binary data/icd_meta_codes.rda |binary data/icd_meta_transition.rda |binary inst/doc/coding_covid-19.R |only inst/doc/coding_covid-19.Rmd |only inst/doc/coding_covid-19.html |only inst/doc/icd10gm_intro.Rmd | 6 +- inst/doc/icd10gm_intro.html | 94 +++++++++++++++++++++++++++++++++++------ inst/extdata |only man/charlson_rcs.Rd |only man/charlson_sundararajan.Rd |only man/icd_meta_blocks.Rd | 4 + man/icd_meta_chapters.Rd | 4 + man/icd_meta_codes.Rd | 6 +- man/icd_meta_transition.Rd | 4 + vignettes/coding_covid-19.Rmd |only vignettes/icd10gm_intro.Rmd | 6 +- 27 files changed, 191 insertions(+), 48 deletions(-)
Title: Differential Gene Expression (DGE) Analysis Results Data Object
Description: Provides a flexible container to manage and annotate Differential Gene
Expression (DGE) analysis results (Smythe et. al (2015) <doi:10.1093/nar/gkv007>).
The DGEobj has data slots for row (gene), col (samples), assays (matrix n-rows
by m-samples dimensions) and metadata (not keyed to row, col, or assays).
A set of accessory functions to deposit, query and retrieve subsets of a data
workflow has been provided. Attributes are used to capture metadata such as
species and gene model, including reproducibility information such that a 3rd
party can access a DGEobj history to see how each data object was created or
modified. Since the DGEobj is customizable and extensible it is not limited
to RNA-seq analysis types of workflows -- it can accommodate nearly any data
analysis workflow that starts from a matrix of assays (rows) by samples (columns).
Author: John Thompson [aut],
Connie Brett [aut, cre],
Isaac Neuhaus [aut],
Ryan Thompson [aut]
Maintainer: Connie Brett <connie@aggregate-genius.com>
Diff between DGEobj versions 1.0.1 dated 2020-12-07 and 1.0.3 dated 2021-04-09
DGEobj-1.0.1/DGEobj/inst/doc/DGEobj_Overview.R |only DGEobj-1.0.1/DGEobj/man/getAttribute.Rd |only DGEobj-1.0.1/DGEobj/man/rmItems.Rd |only DGEobj-1.0.1/DGEobj/man/setAttribute.Rd |only DGEobj-1.0.3/DGEobj/DESCRIPTION | 9 DGEobj-1.0.3/DGEobj/MD5 | 113 DGEobj-1.0.3/DGEobj/NAMESPACE | 4 DGEobj-1.0.3/DGEobj/NEWS.md | 6 DGEobj-1.0.3/DGEobj/R/DGEobj.R | 6 DGEobj-1.0.3/DGEobj/R/addItem.R | 33 DGEobj-1.0.3/DGEobj/R/annotate.R | 40 DGEobj-1.0.3/DGEobj/R/attributes.R | 88 DGEobj-1.0.3/DGEobj/R/get.R | 14 DGEobj-1.0.3/DGEobj/R/init.R | 223 + DGEobj-1.0.3/DGEobj/R/internal.R | 55 DGEobj-1.0.3/DGEobj/R/reset.R | 5 DGEobj-1.0.3/DGEobj/R/rmItem.R | 41 DGEobj-1.0.3/DGEobj/R/subset.R | 2 DGEobj-1.0.3/DGEobj/R/types.R | 22 DGEobj-1.0.3/DGEobj/R/utils.R | 20 DGEobj-1.0.3/DGEobj/README.md | 8 DGEobj-1.0.3/DGEobj/build/vignette.rds |binary DGEobj-1.0.3/DGEobj/inst/doc/DGEobj_Overview.Rmd | 1039 +++++++- DGEobj-1.0.3/DGEobj/inst/doc/DGEobj_Overview.html | 2200 ++++++++++++----- DGEobj-1.0.3/DGEobj/inst/exampleObj.RDS |binary DGEobj-1.0.3/DGEobj/man/DGEobj-package.Rd | 6 DGEobj-1.0.3/DGEobj/man/addItem.Rd | 2 DGEobj-1.0.3/DGEobj/man/addItems.Rd | 29 DGEobj-1.0.3/DGEobj/man/annotateDGEobj.Rd | 31 DGEobj-1.0.3/DGEobj/man/as.list.DGEobj.Rd | 4 DGEobj-1.0.3/DGEobj/man/baseType.Rd | 2 DGEobj-1.0.3/DGEobj/man/baseTypes.Rd | 2 DGEobj-1.0.3/DGEobj/man/dim.DGEobj.Rd | 2 DGEobj-1.0.3/DGEobj/man/getBaseType.Rd | 2 DGEobj-1.0.3/DGEobj/man/getItem.Rd | 2 DGEobj-1.0.3/DGEobj/man/getItems.Rd | 9 DGEobj-1.0.3/DGEobj/man/getType.Rd | 3 DGEobj-1.0.3/DGEobj/man/initDGEobj.Rd | 50 DGEobj-1.0.3/DGEobj/man/initDGEobjDef.Rd |only DGEobj-1.0.3/DGEobj/man/inventory.Rd | 4 DGEobj-1.0.3/DGEobj/man/newType.Rd | 2 DGEobj-1.0.3/DGEobj/man/print.DGEobj.Rd | 4 DGEobj-1.0.3/DGEobj/man/resetDGEobj.Rd | 3 DGEobj-1.0.3/DGEobj/man/rmItem.Rd | 2 DGEobj-1.0.3/DGEobj/man/showAttributes.Rd | 4 DGEobj-1.0.3/DGEobj/man/showMeta.Rd | 8 DGEobj-1.0.3/DGEobj/man/showTypes.Rd | 6 DGEobj-1.0.3/DGEobj/man/subset.DGEobj.Rd | 2 DGEobj-1.0.3/DGEobj/tests/testthat/setup.R | 2 DGEobj-1.0.3/DGEobj/tests/testthat/test_annotate.R | 20 DGEobj-1.0.3/DGEobj/tests/testthat/test_attributes.R | 13 DGEobj-1.0.3/DGEobj/tests/testthat/test_get.R | 6 DGEobj-1.0.3/DGEobj/tests/testthat/test_init.R | 54 DGEobj-1.0.3/DGEobj/tests/testthat/test_reset.R | 4 DGEobj-1.0.3/DGEobj/tests/testthat/test_rmItem.R | 19 DGEobj-1.0.3/DGEobj/tests/testthat/test_subset.R | 8 DGEobj-1.0.3/DGEobj/tests/testthat/test_types.R | 13 DGEobj-1.0.3/DGEobj/tests/testthat/test_utils.R | 4 DGEobj-1.0.3/DGEobj/vignettes/DGEobj_Overview.Rmd | 1039 +++++++- DGEobj-1.0.3/DGEobj/vignettes/DGEobj_Overview.Rmd.orig |only DGEobj-1.0.3/DGEobj/vignettes/precompiled_vignettes.R |only 61 files changed, 3990 insertions(+), 1299 deletions(-)
Title: PRO-CTCAE Data Management, Analysis, and Graphical Tools
Description: A collection of tools to facilitate standardized analysis
and graphical procedures when using the National Cancer Institute’s
Patient-Reported Outcomes version of the Common Terminology Criteria for
Adverse Events (PRO-CTCAE).
Author: Blake Langlais [aut, cre], Amylou Dueck [aut]
Maintainer: Blake Langlais <langlais.blake@mayo.edu>
Diff between ProAE versions 0.1.1 dated 2021-02-24 and 0.1.2 dated 2021-04-09
DESCRIPTION | 9 +- MD5 | 20 +++-- R/ProAE.R | 18 ++++ R/toxFigures.R | 66 ++++++++++-------- R/toxTables.R | 173 +++++++++++++++++++++++++++++++++++++++++++----- data/tox_acute.rda |binary data/tox_chronic.rda |binary data/tox_cumulative.rda |binary data/tox_cyclic.rda |only data/tox_late.rda |binary man/toxTables.Rd | 11 +++ man/tox_cyclic.Rd |only 12 files changed, 242 insertions(+), 55 deletions(-)
Title: Quality Control Metrics for Gene Signatures
Description: Provides gene signature quality control metrics in publication ready plots. Namely, enables the visualization of properties such as expression, variability, correlation, and comparison of methods of standardisation and scoring metrics.
Author: Andrew Dhawan [aut],
Alessandro Barberis [aut],
Wei-Chen Cheng [aut],
Francesca Buffa [aut, cre]
Maintainer: Francesca Buffa <francesca.buffa@oncology.ox.ac.uk>
Diff between sigQC versions 0.1.21 dated 2018-07-24 and 0.1.22 dated 2021-04-09
DESCRIPTION | 9 +--- MD5 | 17 ++++--- README.md | 6 ++ build/vignette.rds |binary inst/CITATION |only inst/doc/vignette.R | 6 +- inst/doc/vignette.Rmd | 11 ++++ inst/doc/vignette.html | 110 +++++++++++++++++++++++++++++++++++-------------- man/make_all_plots.Rd | 17 +++++-- vignettes/vignette.Rmd | 11 ++++ 10 files changed, 132 insertions(+), 55 deletions(-)
Title: Automatic Calculation of Effects for Piecewise Structural
Equation Models
Description: Provides functionality to automatically calculate direct, indirect,
and total effects for piecewise structural equation models, comprising lists
of fitted models representing structured equations (Lefcheck 2016
<doi:10/f8s8rb>). Confidence intervals are provided via bootstrapping.
Author: Mark Murphy [aut, cre]
Maintainer: Mark Murphy <murphymv@gmail.com>
Diff between semEff versions 0.4.0 dated 2020-10-01 and 0.5.0 dated 2021-04-09
semEff-0.4.0/semEff/man/stdCoeff.Rd |only semEff-0.5.0/semEff/DESCRIPTION | 7 semEff-0.5.0/semEff/MD5 | 72 +-- semEff-0.5.0/semEff/NAMESPACE | 2 semEff-0.5.0/semEff/NEWS.md | 131 ++---- semEff-0.5.0/semEff/R/bootEff-fun.R | 252 +++++++------ semEff-0.5.0/semEff/R/data.R | 11 semEff-0.5.0/semEff/R/helper-fun.R | 47 +- semEff-0.5.0/semEff/R/semEff-fun.R | 216 +++++------ semEff-0.5.0/semEff/R/stdEff-fun.R | 529 ++++++++++++++-------------- semEff-0.5.0/semEff/README.md | 67 +-- semEff-0.5.0/semEff/inst/WORDLIST | 55 +- semEff-0.5.0/semEff/man/Object.Type.Rd | 2 semEff-0.5.0/semEff/man/Param.Type.Rd | 4 semEff-0.5.0/semEff/man/R2.Rd | 251 +++++++------ semEff-0.5.0/semEff/man/RVIF.Rd |only semEff-0.5.0/semEff/man/Shipley.Growth.Rd | 12 semEff-0.5.0/semEff/man/Shipley.Rd | 4 semEff-0.5.0/semEff/man/Shipley.SEM.Boot.Rd | 13 semEff-0.5.0/semEff/man/Shipley.SEM.Eff.Rd | 10 semEff-0.5.0/semEff/man/Shipley.SEM.Rd | 8 semEff-0.5.0/semEff/man/VIF.Rd | 41 +- semEff-0.5.0/semEff/man/avgEst.Rd | 87 ++-- semEff-0.5.0/semEff/man/bootCI.Rd | 83 ++-- semEff-0.5.0/semEff/man/bootEff.Rd | 203 +++++----- semEff-0.5.0/semEff/man/getData.Rd | 29 - semEff-0.5.0/semEff/man/getEff.Rd | 6 semEff-0.5.0/semEff/man/getY.Rd | 27 - semEff-0.5.0/semEff/man/glt.Rd | 197 +++++----- semEff-0.5.0/semEff/man/pSapply.Rd | 28 - semEff-0.5.0/semEff/man/predEff.Rd | 394 ++++++++++---------- semEff-0.5.0/semEff/man/print.semEff.Rd | 34 - semEff-0.5.0/semEff/man/rMapply.Rd | 31 - semEff-0.5.0/semEff/man/sdW.Rd | 6 semEff-0.5.0/semEff/man/semEff.Rd | 162 ++++---- semEff-0.5.0/semEff/man/stdEff.Rd | 248 ++++++------- semEff-0.5.0/semEff/man/varW.Rd | 16 semEff-0.5.0/semEff/man/xNam.Rd | 10 38 files changed, 1660 insertions(+), 1635 deletions(-)
Title: Color Palettes Based on Fish Species
Description: Implementation of color palettes based on fish species.
Author: Nina M. D. Schiettekatte [cre, aut],
Simon J. Brandl [aut],
Jordan M. Casey [aut]
Maintainer: Nina M. D. Schiettekatte <nina.schiettekatte@gmail.com>
Diff between fishualize versions 0.2.1 dated 2021-03-12 and 0.2.2 dated 2021-04-09
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 8 ++++++++ R/fish_shapes.R | 4 ++++ inst/doc/contribute.html | 4 ++-- inst/doc/overview_colors.html | 4 ++-- 6 files changed, 24 insertions(+), 12 deletions(-)
Title: Visualisation Toolbox for 'easystats' and Extra Geoms, Themes
and Color Palettes for 'ggplot2'
Description: Provides plotting utilities supporting
easystats-packages (<https://github.com/easystats/easystats>) and some
extra themes, geoms, and scales for 'ggplot2'. Color scales are based
on <https://www.materialui.co/colors>.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>),
Dominique Makowski [aut, inv] (<https://orcid.org/0000-0001-5375-9967>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [aut] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Philip Waggoner [aut, ctb] (<https://orcid.org/0000-0002-7825-7573>),
Brenton M. Wiernik [ctb] (<https://orcid.org/0000-0001-9560-6336>),
Jeffrey R. Stevens [ctb] (<https://orcid.org/0000-0003-2375-1360>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between see versions 0.6.2 dated 2021-02-04 and 0.6.3 dated 2021-04-09
DESCRIPTION | 109 +++++++------ MD5 | 247 ++++++++++++++++++------------ NAMESPACE | 5 NEWS.md | 240 +++++++++++++++++++++++------ R/coord_radar.R | 17 +- R/data_plot.R | 32 ++- R/geom_point2.R | 55 +++++- R/geom_poolpoint.R | 36 ++-- R/geom_violindot.R | 49 +++-- R/geom_violinhalf.R | 87 +++++----- R/golden_ratio.R | 4 R/plot.bayesfactor_models.R | 131 +++++++-------- R/plot.bayesfactor_parameters.R | 24 +- R/plot.check_collinearity.R | 10 - R/plot.check_distribution.R | 2 R/plot.check_heteroscedasticity.R | 51 +++++- R/plot.check_homogeneity.R | 13 - R/plot.check_normality.R | 12 - R/plot.check_outliers.R | 87 +++++++--- R/plot.check_outliers_new.R |only R/plot.cluster_analysis.R | 23 +- R/plot.compare_parameters.R |only R/plot.compare_performance.R | 2 R/plot.describe_distribution.R | 4 R/plot.easycormatrix.R | 14 + R/plot.effectsize_table.R | 24 +- R/plot.equivalence_test.R | 64 ++++--- R/plot.estimate_contrasts.R | 22 +- R/plot.estimate_density.R | 92 ++++++++--- R/plot.hdi.R | 32 ++- R/plot.n_factors.R | 16 - R/plot.p_direction.R | 36 ++-- R/plot.p_significance.R | 35 ++-- R/plot.parameters_brms_meta.R | 88 +++++++--- R/plot.parameters_model.R | 34 ++-- R/plot.parameters_pca.R | 24 ++ R/plot.parameters_sem.R | 64 ++++--- R/plot.parameters_simulate.R | 26 ++- R/plot.performance_pp_check.R | 76 +++++++-- R/plot.performance_roc.R | 43 ++--- R/plot.point_estimates.R | 16 + R/plot.rope.R | 22 +- R/plot.si.R | 39 ++-- R/plots.R | 22 +- R/print.binned_residuals.R | 16 + R/print.check_model.R | 255 ++++++++++++++++++++----------- R/print.data_plot.R | 4 R/reshape_to_long.R | 9 - R/scale_color_bluebrown.R | 2 R/scale_color_flat.R | 10 - R/scale_color_material.R | 12 - R/scale_color_metro.R | 10 - R/scale_color_pizza.R | 2 R/scale_color_see.R | 8 R/scale_color_social.R | 10 - R/theme_abyss.R | 57 +++--- R/theme_blackboard.R | 6 R/theme_lucid.R | 90 +++++----- R/theme_modern.R | 140 ++++++++--------- R/theme_radar.R | 80 ++++----- R/utils.R | 12 - R/utils_add_prior_layer.R | 8 inst/CITATION | 4 inst/WORDLIST |only man/add_plot_attributes.Rd | 75 ++++----- man/coord_radar.Rd | 69 ++++---- man/data_plot.Rd | 2 man/flat_colors.Rd | 45 ++--- man/geom_point2.Rd | 123 ++++++++------ man/geom_poolpoint.Rd | 111 ++++++------- man/geom_violindot.Rd | 186 +++++++++++----------- man/geom_violinhalf.Rd | 167 ++++++++++---------- man/material_colors.Rd | 45 ++--- man/metro_colors.Rd | 45 ++--- man/plot.see_check_collinearity.Rd | 5 man/plot.see_check_heteroscedasticity.Rd | 59 +++---- man/plot.see_check_normality.Rd | 96 ++++++----- man/plot.see_check_outliers.Rd | 87 ++++++---- man/plot.see_cluster_analysis.Rd | 64 ++++--- man/plot.see_compare_parameters.Rd |only man/plot.see_equivalence_test.Rd | 122 +++++++------- man/plot.see_estimate_density.Rd | 137 ++++++++-------- man/plot.see_hdi.Rd | 106 ++++++------ man/plot.see_p_direction.Rd | 106 ++++++------ man/plot.see_p_significance.Rd | 106 ++++++------ man/plot.see_parameters_brms_meta.Rd | 173 ++++++++++----------- man/plot.see_parameters_model.Rd | 166 ++++++++++---------- man/plot.see_parameters_simulate.Rd | 131 ++++++++------- man/plot.see_performance_roc.Rd | 70 ++++---- man/plot.see_point_estimate.Rd | 132 ++++++++-------- man/plot.see_rope.Rd | 106 ++++++------ man/plot.see_si.Rd | 98 ++++++----- man/plots.Rd | 64 ++++--- man/scale_color_flat.Rd | 165 +++++++++----------- man/scale_color_material.Rd | 221 +++++++++++++------------- man/scale_color_metro.Rd | 211 ++++++++++++------------- man/scale_color_pizza.Rd | 203 ++++++++++++------------ man/scale_color_social.Rd | 221 +++++++++++++------------- man/social_colors.Rd | 45 ++--- man/theme_blackboard.Rd | 2 tests |only 101 files changed, 3656 insertions(+), 2872 deletions(-)
Title: Mass Spectrometry Tools
Description: Common mass spectrometry tools described in John Roboz (2013) <doi:10.1201/b15436>. It allows checking element
isotopes, calculating (isotope labelled) exact monoisitopic mass, m/z values and mass accuracy, and inspecting possible contaminant mass peaks,
examining possible adducts in electrospray ionization (ESI) and matrix-assisted laser desorption ionization (MALDI)
ion sources.
Author: Yonghui Dong
Maintainer: Yonghui Dong <yonghui.dong@gmail.com>
Diff between MSbox versions 1.3.8 dated 2021-02-10 and 1.3.9 dated 2021-04-09
MSbox-1.3.8/MSbox/R/getOPLSDA.R |only MSbox-1.3.8/MSbox/man/getOPLSDA.Rd |only MSbox-1.3.9/MSbox/DESCRIPTION | 11 +- MSbox-1.3.9/MSbox/MD5 | 16 +-- MSbox-1.3.9/MSbox/NAMESPACE | 2 MSbox-1.3.9/MSbox/R/doStat.R | 3 MSbox-1.3.9/MSbox/R/sysdata.rda |binary MSbox-1.3.9/MSbox/R/what.R | 63 ++++++--------- MSbox-1.3.9/MSbox/README.md | 150 ++++++++++++++++++++++++++++++------- MSbox-1.3.9/MSbox/man/what.Rd | 7 - 10 files changed, 165 insertions(+), 87 deletions(-)
Title: Analyze, Process, Identify, and Share, Raman and (FT)IR Spectra
Description: Raman and (FT)IR spectral analysis tool for plastic particles and
other environmental samples. Supported features include reading spectral
data files (.asp, .csv, .jdx, .spc, .spa, .0), Savitzky-Golay smoothing of
spectral intensities with smooth_intens(), correcting background noise with
subtr_bg() in accordance with Zhao et al. (2007)
<doi:10.1366/000370207782597003>, and identifying spectra using an onboard
reference library (Cowger et al. 2020, <doi:10.1177/0003702820929064>).
Analyzed spectra can be shared with the Open Specy community. A Shiny app is
available via run_app() or online at
<https://wincowger.shinyapps.io/OpenSpecy/>.
Author: Win Cowger [cre, aut] (<https://orcid.org/0000-0001-9226-3104>),
Zacharias Steinmetz [aut] (<https://orcid.org/0000-0001-6675-5033>),
Andrew Gray [ctb] (<https://orcid.org/0000-0003-2252-7367>),
Hannah Hapich [ctb] (<https://orcid.org/0000-0003-0000-6632>),
Jennifer Lynch [ctb, dtc] (<https://orcid.org/0000-0003-3572-8782>),
Hannah De Frond [ctb, dtc] (<https://orcid.org/0000-0003-1199-0727>),
Keenan Munno [ctb, dtc] (<https://orcid.org/0000-0003-2916-5944>),
Chelsea Rochman [ctb, dtc] (<https://orcid.org/0000-0002-7624-711X>),
Sebastian Primpke [ctb, dtc] (<https://orcid.org/0000-0001-7633-8524>),
Orestis Herodotou [ctb, dtc]
Maintainer: Win Cowger <wincowger@gmail.com>
Diff between OpenSpecy versions 0.8.2 dated 2021-03-31 and 0.9.0 dated 2021-04-09
OpenSpecy-0.8.2/OpenSpecy/inst/extdata/fitr_ps.1 |only OpenSpecy-0.8.2/OpenSpecy/inst/extdata/ftir_ps.2 |only OpenSpecy-0.8.2/OpenSpecy/inst/shiny/www/graphical_abstract.png |only OpenSpecy-0.9.0/OpenSpecy/DESCRIPTION | 10 OpenSpecy-0.9.0/OpenSpecy/MD5 | 54 OpenSpecy-0.9.0/OpenSpecy/NAMESPACE | 2 OpenSpecy-0.9.0/OpenSpecy/NEWS.md | 19 OpenSpecy-0.9.0/OpenSpecy/R/adj_intens.R | 6 OpenSpecy-0.9.0/OpenSpecy/R/manage_lib.R | 39 OpenSpecy-0.9.0/OpenSpecy/R/read_spec.R | 46 OpenSpecy-0.9.0/OpenSpecy/R/run_app.R | 33 OpenSpecy-0.9.0/OpenSpecy/R/share_spec.R | 86 + OpenSpecy-0.9.0/OpenSpecy/README.md | 16 OpenSpecy-0.9.0/OpenSpecy/build/partial.rdb |binary OpenSpecy-0.9.0/OpenSpecy/inst/doc/sop.html | 4 OpenSpecy-0.9.0/OpenSpecy/inst/shiny/config.yml | 11 OpenSpecy-0.9.0/OpenSpecy/inst/shiny/data/namekey.RData |binary OpenSpecy-0.9.0/OpenSpecy/inst/shiny/server.R | 271 +++- OpenSpecy-0.9.0/OpenSpecy/inst/shiny/ui.R | 575 ++++------ OpenSpecy-0.9.0/OpenSpecy/inst/shiny/www/js |only OpenSpecy-0.9.0/OpenSpecy/inst/shiny/www/jumbotron.png |only OpenSpecy-0.9.0/OpenSpecy/inst/shiny/www/logo.png |only OpenSpecy-0.9.0/OpenSpecy/man/adj_intens.Rd | 4 OpenSpecy-0.9.0/OpenSpecy/man/manage_lib.Rd | 10 OpenSpecy-0.9.0/OpenSpecy/man/read_spec.Rd | 59 - OpenSpecy-0.9.0/OpenSpecy/man/run_app.Rd | 10 OpenSpecy-0.9.0/OpenSpecy/man/share_spec.Rd | 36 OpenSpecy-0.9.0/OpenSpecy/tests/testthat/test-manage_lib.R | 19 OpenSpecy-0.9.0/OpenSpecy/tests/testthat/test-read_spec.R | 13 OpenSpecy-0.9.0/OpenSpecy/tests/testthat/test-share_spec.R | 16 30 files changed, 787 insertions(+), 552 deletions(-)
Title: Data Only Package to 'healthyR'
Description: Provides data for functions typically used in the 'healthyR' package.
Author: Steven Sanderson [aut, cre],
Steven Sanderson [cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between healthyR.data versions 1.0.0 dated 2020-11-23 and 1.0.1 dated 2021-04-09
DESCRIPTION | 7 ++-- LICENSE | 4 +- MD5 | 12 +++---- NEWS.md | 6 +++ R/data_files.R | 64 ++++++++++++++++++++--------------------- README.md | 70 +++++++++++++++++++++++++++++++++++++++++---- man/healthyR_data.Rd | 78 +++++++++++++++++++++++++-------------------------- 7 files changed, 152 insertions(+), 89 deletions(-)
Title: Automatic Generation of Exams in R for 'Sakai'
Description: Automatic Generation of Exams in R for 'Sakai'.
Question templates in the form of the 'exams' package (see <http://www.r-exams.org/>)
are transformed into XML format required by 'Sakai'.
Author: Fuensanta Arnaldos García [aut],
María Victoria Caballero Pintado [aut],
Úrsula Faura Martínez [aut],
María Teresa Díaz Delfa [aut],
Jesús María Méndez Pérez [aut, cre],
Lourdes Molera Peris [aut],
José Antonio Palazón Ferrando [aut],
Juan José Pérez Castejón [aut],
Isabel Parra Frutos [aut],
Raúl Sánchez Sánchez [aut],
Nicolás Andrés Ubero Pascal [aut],
Nikolaus Umlauf [ctb],
Achim Zeileis [ctb] (<https://orcid.org/0000-0003-0918-3766>)
Maintainer: Jesús María Méndez Pérez <jesus.mendez@ticarum.es>
Diff between exams2sakai versions 0.1 dated 2021-03-20 and 0.2 dated 2021-04-09
DESCRIPTION | 7 ++--- MD5 | 10 +++---- NEWS.md | 8 ++++++ R/exams2sakai.R | 70 +++++++++++++++++++++++++++++++---------------------- README.md | 3 +- man/exams2sakai.Rd | 7 ++--- 6 files changed, 62 insertions(+), 43 deletions(-)
Title: Representation of Archaeological Data
Description: A collection of classes that represent
archaeological data. This package provides a set of S4 classes that
represent different special types of matrix (absolute/relative
frequency, presence/absence data, co-occurrence matrix, etc.) upon
which package developers can build subclasses. It also provides a set
of generic methods (mutators and coercion mechanisms) and functions
(e.g. summary statistics, predicates). In addition, a few classes of
general interest (e.g. that represent stratigraphic relationships)
are implemented.
Author: Nicolas Frerebeau [aut, cre] (<https://orcid.org/0000-0001-5759-4944>),
Brice Lebrun [ctb] (<https://orcid.org/0000-0001-7503-8685>)
Maintainer: Nicolas Frerebeau
<nicolas.frerebeau@u-bordeaux-montaigne.fr>
Diff between arkhe versions 0.2.2 dated 2020-03-23 and 0.3.0 dated 2021-04-09
arkhe-0.2.2/arkhe/R/chronology.R |only arkhe-0.2.2/arkhe/R/deprecate.R |only arkhe-0.2.2/arkhe/R/extract.R |only arkhe-0.2.2/arkhe/R/geography.R |only arkhe-0.2.2/arkhe/R/initialize.R |only arkhe-0.2.2/arkhe/inst/examples/ex-chronology.R |only arkhe-0.2.2/arkhe/inst/examples/ex-geography.R |only arkhe-0.2.2/arkhe/inst/examples/ex-logical-class.R |only arkhe-0.2.2/arkhe/inst/examples/ex-numeric-class.R |only arkhe-0.2.2/arkhe/man/LogicalMatrix-class.Rd |only arkhe-0.2.2/arkhe/man/Matrix-class.Rd |only arkhe-0.2.2/arkhe/man/NumericMatrix-class.Rd |only arkhe-0.2.2/arkhe/man/SimilarityMatrix-class.Rd |only arkhe-0.2.2/arkhe/man/chronology.Rd |only arkhe-0.2.2/arkhe/man/deprecated.Rd |only arkhe-0.2.2/arkhe/man/geography.Rd |only arkhe-0.2.2/arkhe/tests/testthat/test-chronology.R |only arkhe-0.2.2/arkhe/tests/testthat/test-geography.R |only arkhe-0.2.2/arkhe/tests/testthat/test-replacement.R |only arkhe-0.2.2/arkhe/tests/testthat/test-uuid.R |only arkhe-0.3.0/arkhe/DESCRIPTION | 60 +- arkhe-0.3.0/arkhe/MD5 | 148 ++--- arkhe-0.3.0/arkhe/NAMESPACE | 59 +- arkhe-0.3.0/arkhe/NEWS.md | 28 - arkhe-0.3.0/arkhe/R/AllClasses.R | 307 +++++------ arkhe-0.3.0/arkhe/R/AllGenerics.R | 360 ++++++------- arkhe-0.3.0/arkhe/R/arkhe-package.R | 60 +- arkhe-0.3.0/arkhe/R/check.R | 151 +++-- arkhe-0.3.0/arkhe/R/clean.R |only arkhe-0.3.0/arkhe/R/coerce.R | 506 ++++++++++--------- arkhe-0.3.0/arkhe/R/conditions.R | 49 + arkhe-0.3.0/arkhe/R/mutators.R |only arkhe-0.3.0/arkhe/R/predicates.R | 152 ++--- arkhe-0.3.0/arkhe/R/show.R | 86 --- arkhe-0.3.0/arkhe/R/subset.R |only arkhe-0.3.0/arkhe/R/utilities.R | 149 ++--- arkhe-0.3.0/arkhe/R/validate.R | 260 ++------- arkhe-0.3.0/arkhe/R/zzz.R |only arkhe-0.3.0/arkhe/README.md | 139 ++--- arkhe-0.3.0/arkhe/build/partial.rdb |only arkhe-0.3.0/arkhe/build/vignette.rds |binary arkhe-0.3.0/arkhe/inst/CITATION | 16 arkhe-0.3.0/arkhe/inst/doc/arkhe.R | 36 - arkhe-0.3.0/arkhe/inst/doc/arkhe.Rmd | 53 - arkhe-0.3.0/arkhe/inst/doc/arkhe.html | 419 ++++----------- arkhe-0.3.0/arkhe/inst/examples/ex-clean.R |only arkhe-0.3.0/arkhe/inst/examples/ex-coerce.R | 21 arkhe-0.3.0/arkhe/inst/examples/ex-matrix.R |only arkhe-0.3.0/arkhe/inst/examples/ex-operators.R |only arkhe-0.3.0/arkhe/inst/examples/ex-statistics.R |only arkhe-0.3.0/arkhe/inst/examples/ex-stratigraphy.R | 1 arkhe-0.3.0/arkhe/inst/examples/ex-summary.R |only arkhe-0.3.0/arkhe/man/AbundanceMatrix-class.Rd | 112 ---- arkhe-0.3.0/arkhe/man/CompositionMatrix-class.Rd |only arkhe-0.3.0/arkhe/man/CountMatrix-class.Rd | 113 ---- arkhe-0.3.0/arkhe/man/DataMatrix.Rd |only arkhe-0.3.0/arkhe/man/IncidenceMatrix-class.Rd | 98 --- arkhe-0.3.0/arkhe/man/OccurrenceMatrix-class.Rd | 113 +--- arkhe-0.3.0/arkhe/man/StratigraphicMatrix-class.Rd | 79 -- arkhe-0.3.0/arkhe/man/arkhe-package.Rd | 47 + arkhe-0.3.0/arkhe/man/check-attribute.Rd | 10 arkhe-0.3.0/arkhe/man/check-missing.Rd | 4 arkhe-0.3.0/arkhe/man/check-numeric.Rd | 5 arkhe-0.3.0/arkhe/man/check-type.Rd | 8 arkhe-0.3.0/arkhe/man/coerce.Rd | 116 ++-- arkhe-0.3.0/arkhe/man/conditions.Rd | 8 arkhe-0.3.0/arkhe/man/figures |only arkhe-0.3.0/arkhe/man/generate_uuid.Rd | 12 arkhe-0.3.0/arkhe/man/mutator.Rd | 117 ++-- arkhe-0.3.0/arkhe/man/predicate-graph.Rd | 9 arkhe-0.3.0/arkhe/man/predicate-matrix.Rd | 7 arkhe-0.3.0/arkhe/man/predicate-numeric.Rd | 47 - arkhe-0.3.0/arkhe/man/predicate-scalar.Rd | 1 arkhe-0.3.0/arkhe/man/predicate-trend.Rd | 29 - arkhe-0.3.0/arkhe/man/predicate-type.Rd | 1 arkhe-0.3.0/arkhe/man/predicate-utils.Rd | 16 arkhe-0.3.0/arkhe/man/remove.Rd |only arkhe-0.3.0/arkhe/man/replace.Rd |only arkhe-0.3.0/arkhe/man/subset.Rd | 81 +-- arkhe-0.3.0/arkhe/tests/testthat.R | 1 arkhe-0.3.0/arkhe/tests/testthat/test-check.R | 26 arkhe-0.3.0/arkhe/tests/testthat/test-class.R | 273 +--------- arkhe-0.3.0/arkhe/tests/testthat/test-clean.R |only arkhe-0.3.0/arkhe/tests/testthat/test-coerce.R | 207 +++---- arkhe-0.3.0/arkhe/tests/testthat/test-conditions.R | 8 arkhe-0.3.0/arkhe/tests/testthat/test-getters.R | 69 +- arkhe-0.3.0/arkhe/tests/testthat/test-predicates.R | 51 - arkhe-0.3.0/arkhe/tests/testthat/test-show.R | 36 - arkhe-0.3.0/arkhe/tests/testthat/test-stratigraphy.R | 17 arkhe-0.3.0/arkhe/tests/testthat/test-subset.R |only arkhe-0.3.0/arkhe/tests/testthat/test-utilities.R | 44 - arkhe-0.3.0/arkhe/vignettes/arkhe.Rmd | 53 - arkhe-0.3.0/arkhe/vignettes/uml-1.png |binary arkhe-0.3.0/arkhe/vignettes/uml.R |only 94 files changed, 2044 insertions(+), 2834 deletions(-)
Title: Sign-Simplicity-Regression-Solver
Description: Implementation of the SSR-Algorithm. The Sign-Simplicity-Regression model is a nonparametric statistical model which is based on residual signs and simplicity assumptions on the regression function. Goal is to calculate the most parsimonious regression function satisfying the statistical adequacy requirements. Theory and functions are specified in Metzner (2020, ISBN: 979-8-68239-420-3, "Trendbasierte Prognostik") and Metzner (2021, ISBN: 979-8-59347-027-0, "Adäquates Maschinelles Lernen").
Author: Lars Metzner [aut, cre]
Maintainer: Lars Metzner <lars.metzner@ppi.de>
Diff between sisireg versions 0.9.0 dated 2021-04-01 and 0.9.1 dated 2021-04-09
DESCRIPTION | 6 ++--- MD5 | 8 +++---- R/ssrMLP.R | 57 +++++++++++++++++++++++++++++++++++--------------- man/ssrmlp_predict.Rd | 5 ---- man/ssrmlp_train.Rd | 10 ++------ 5 files changed, 51 insertions(+), 35 deletions(-)
Title: Computationally Efficient Queue Simulation
Description: Implementation of a computationally efficient method for
simulating queues with arbitrary arrival and service times.
Please see Ebert, Wu, Mengersen & Ruggeri (2020, <doi:10.18637/jss.v095.i05>)
for further details.
Author: Anthony Ebert [aut, cre] (<https://orcid.org/0000-0003-3002-6300>),
Kerrie Mengersen [ths],
Paul Wu [ths],
Fabrizio Ruggeri [ths]
Maintainer: Anthony Ebert <anthonyebert+CRAN@gmail.com>
Diff between queuecomputer versions 1.0.0 dated 2020-10-06 and 1.1.0 dated 2021-04-09
DESCRIPTION | 11 MD5 | 16 - NEWS.md | 7 R/core_queuefunctions.R | 13 README.md | 1 build/vignette.rds |binary inst/doc/Howto.html | 344 ++++++------------------ inst/doc/MMk_queues.html | 514 ++++++++++++------------------------ tests/testthat/test_deterministic.R | 37 ++ 9 files changed, 328 insertions(+), 615 deletions(-)
Title: Spatial Seemingly Unrelated Regression Models
Description: A collection of functions to test and estimate Seemingly
Unrelated Regression (usually called SUR) models, with spatial structure, by maximum
likelihood and three-stage least squares. The package estimates the
most common spatial specifications, that is, SUR with Spatial Lag of
X regressors (called SUR-SLX), SUR with Spatial Lag Model (called SUR-SLM),
SUR with Spatial Error Model (called SUR-SEM), SUR with Spatial Durbin Model (called SUR-SDM),
SUR with Spatial Durbin Error Model (called SUR-SDEM),
SUR with Spatial Autoregressive terms and Spatial Autoregressive
Disturbances (called SUR-SARAR), SUR-SARAR with Spatial Lag of X
regressors (called SUR-GNM) and SUR with Spatially Independent Model (called SUR-SIM).
The methodology of these models can be found in next references
Mur, J., Lopez, F., and Herrera, M. (2010) <doi:10.1080/17421772.2010.516443>
Lopez, F.A., Mur, J., and Angulo, A. (2014) <doi:10.1007/s00168-014-0624-2>.
Author: Ana Angulo [aut],
Fernando A Lopez [aut],
Roman Minguez [aut, cre],
Jesus Mur [aut]
Maintainer: Roman Minguez <roman.minguez@uclm.es>
Diff between spsur versions 1.0.1.6 dated 2020-09-17 and 1.0.1.7 dated 2021-04-09
DESCRIPTION | 10 MD5 | 61 - R/datasets.R | 1 R/dgp_spSUR.R | 270 ++++-- R/fit_spsur_3sls.R | 197 ++-- R/impactspsur.R | 3 R/lmtestspsur.R | 7 R/spsur3sls.R | 54 - R/spsurml.R | 41 R/spsurtime.R | 58 + R/summary.spsur.R | 2 R/wald_betas.R | 8 R/wald_deltas.R | 2 build/vignette.rds |binary data/spc.RData |binary inst/CITATION |only inst/doc/Vignette_User_Guide.Rmd | 6 inst/doc/Vignette_User_Guide.html | 1500 ++---------------------------------- inst/doc/spsur-vs-spatialreg.Rmd | 2 inst/doc/spsur-vs-spatialreg.html | 1563 +++----------------------------------- man/dgp_spsur.Rd | 168 ++-- man/impactspsur.Rd | 3 man/lmtestspsur.Rd | 7 man/spc.Rd | 1 man/spsur3sls.Rd | 52 - man/spsurml.Rd | 40 man/spsurtime.Rd | 19 man/wald_betas.Rd | 8 man/wald_deltas.Rd | 2 vignettes/Vignette_User_Guide.Rmd | 6 vignettes/bibliosure.bib | 488 ++++++++--- vignettes/spsur-vs-spatialreg.Rmd | 2 32 files changed, 1267 insertions(+), 3314 deletions(-)
Title: Assessment of Regression Models Performance
Description: Utilities for computing measures to assess model quality,
which are not directly provided by R's 'base' or 'stats' packages.
These include e.g. measures like r-squared, intraclass correlation
coefficient (Nakagawa, Johnson & Schielzeth (2017)
<doi:10.1098/rsif.2017.0213>), root mean squared error or functions to
check models for overdispersion, singularity or zero-inflation and
more. Functions apply to a large variety of regression models,
including generalized linear models, mixed effects models and Bayesian
models.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>),
Dominique Makowski [aut, ctb] (<https://orcid.org/0000-0001-5375-9967>),
Mattan S. Ben-Shachar [aut, ctb]
(<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [aut, ctb] (<https://orcid.org/0000-0003-1995-6531>),
Philip Waggoner [aut, ctb] (<https://orcid.org/0000-0002-7825-7573>),
Vincent Arel-Bundock [ctb] (<https://orcid.org/0000-0003-2042-7063>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between performance versions 0.7.0 dated 2021-02-03 and 0.7.1 dated 2021-04-09
performance-0.7.0/performance/man/figures/unnamed-chunk-13-1.png |only performance-0.7.0/performance/man/figures/unnamed-chunk-19-1.png |only performance-0.7.0/performance/man/figures/unnamed-chunk-22-1.png |only performance-0.7.1/performance/DESCRIPTION | 109 +- performance-0.7.1/performance/MD5 | 179 ++-- performance-0.7.1/performance/NAMESPACE | 14 performance-0.7.1/performance/NEWS.md | 417 ++++++++-- performance-0.7.1/performance/R/binned_residuals.R | 50 - performance-0.7.1/performance/R/check_autocorrelation.R | 4 performance-0.7.1/performance/R/check_collinearity.R | 15 performance-0.7.1/performance/R/check_heteroscedasticity.R | 38 performance-0.7.1/performance/R/check_homogeneity.R | 19 performance-0.7.1/performance/R/check_model.R | 63 + performance-0.7.1/performance/R/check_model_diagnostics.R | 61 + performance-0.7.1/performance/R/check_normality.R | 21 performance-0.7.1/performance/R/check_outliers.R | 82 + performance-0.7.1/performance/R/check_overdispersion.R | 62 - performance-0.7.1/performance/R/check_zeroinflation.R | 4 performance-0.7.1/performance/R/compare_performance.R | 5 performance-0.7.1/performance/R/cronbachs_alpha.R | 10 performance-0.7.1/performance/R/get_gradients.R | 14 performance-0.7.1/performance/R/helpers.R | 15 performance-0.7.1/performance/R/icc.R | 120 +- performance-0.7.1/performance/R/model_performance.bayesian.R | 85 +- performance-0.7.1/performance/R/model_performance.ivreg.R | 16 performance-0.7.1/performance/R/model_performance.kmeans.R |only performance-0.7.1/performance/R/model_performance.lm.R | 148 ++- performance-0.7.1/performance/R/model_performance.mixed.R | 29 performance-0.7.1/performance/R/model_performance_default.R | 22 performance-0.7.1/performance/R/performance_accuracy.R | 31 performance-0.7.1/performance/R/performance_aicc.R | 9 performance-0.7.1/performance/R/performance_logloss.R | 4 performance-0.7.1/performance/R/performance_mse.R | 14 performance-0.7.1/performance/R/performance_roc.R | 26 performance-0.7.1/performance/R/performance_score.R | 6 performance-0.7.1/performance/R/pp_check.R | 21 performance-0.7.1/performance/R/print-methods.R | 39 performance-0.7.1/performance/R/print_md.R | 8 performance-0.7.1/performance/R/r2.R | 143 ++- performance-0.7.1/performance/R/r2_bayes.R | 35 performance-0.7.1/performance/R/r2_mckelvey.R | 6 performance-0.7.1/performance/R/r2_somers.R | 1 performance-0.7.1/performance/R/test_bf.R | 12 performance-0.7.1/performance/R/test_likelihoodratio.R | 33 performance-0.7.1/performance/R/test_performance.R | 6 performance-0.7.1/performance/R/test_vuong.R | 5 performance-0.7.1/performance/R/test_wald.R | 7 performance-0.7.1/performance/README.md | 216 +++-- performance-0.7.1/performance/build/partial.rdb |binary performance-0.7.1/performance/inst/CITATION | 28 performance-0.7.1/performance/inst/WORDLIST | 221 +++-- performance-0.7.1/performance/man/binned_residuals.Rd | 136 +-- performance-0.7.1/performance/man/check_collinearity.Rd | 220 ++--- performance-0.7.1/performance/man/check_heteroscedasticity.Rd | 76 + performance-0.7.1/performance/man/check_homogeneity.Rd | 14 performance-0.7.1/performance/man/check_model.Rd | 177 ++-- performance-0.7.1/performance/man/check_normality.Rd | 8 performance-0.7.1/performance/man/check_outliers.Rd | 58 - performance-0.7.1/performance/man/check_overdispersion.Rd | 150 +-- performance-0.7.1/performance/man/check_zeroinflation.Rd | 76 - performance-0.7.1/performance/man/compare_performance.Rd | 1 performance-0.7.1/performance/man/cronbachs_alpha.Rd | 73 - performance-0.7.1/performance/man/figures/figure_workflow.png |only performance-0.7.1/performance/man/figures/unnamed-chunk-15-1.png |only performance-0.7.1/performance/man/figures/unnamed-chunk-21-1.png |only performance-0.7.1/performance/man/icc.Rd | 112 +- performance-0.7.1/performance/man/model_performance.ivreg.Rd | 2 performance-0.7.1/performance/man/model_performance.kmeans.Rd |only performance-0.7.1/performance/man/model_performance.lm.Rd | 3 performance-0.7.1/performance/man/model_performance.merMod.Rd | 2 performance-0.7.1/performance/man/model_performance.stanreg.Rd | 7 performance-0.7.1/performance/man/performance_accuracy.Rd | 22 performance-0.7.1/performance/man/performance_aicc.Rd | 73 - performance-0.7.1/performance/man/performance_roc.Rd | 114 +- performance-0.7.1/performance/man/pp_check.Rd | 182 ++-- performance-0.7.1/performance/man/r2.Rd | 114 +- performance-0.7.1/performance/man/r2_bayes.Rd | 9 performance-0.7.1/performance/man/r2_somers.Rd | 55 - performance-0.7.1/performance/man/test_performance.Rd | 21 performance-0.7.1/performance/tests/testthat.R | 17 performance-0.7.1/performance/tests/testthat/test-backticks.R | 4 performance-0.7.1/performance/tests/testthat/test-coxph.R | 5 performance-0.7.1/performance/tests/testthat/test-icc.R | 4 performance-0.7.1/performance/tests/testthat/test-model_performance-various.R | 8 performance-0.7.1/performance/tests/testthat/test-model_performance.bayesian.R | 108 +- performance-0.7.1/performance/tests/testthat/test-model_performance.gam.R |only performance-0.7.1/performance/tests/testthat/test-model_performance.kmeans.R |only performance-0.7.1/performance/tests/testthat/test-model_performance.lm.R | 6 performance-0.7.1/performance/tests/testthat/test-performance_roc.R | 16 performance-0.7.1/performance/tests/testthat/test-r2_mcfadden.R | 3 performance-0.7.1/performance/tests/testthat/test-r2_nagelkerke.R | 2 performance-0.7.1/performance/tests/testthat/test-roc.R |only performance-0.7.1/performance/tests/testthat/test-test_likelihoodratio.R | 7 performance-0.7.1/performance/tests/testthat/test-test_performance.R | 1 performance-0.7.1/performance/tests/testthat/test-test_vuong.R | 5 performance-0.7.1/performance/tests/testthat/test-test_wald.R | 8 96 files changed, 2716 insertions(+), 1656 deletions(-)
Title: Detecting Changes in Autocorrelated and Fluctuating Signals
Description: Detect abrupt changes in time series with local fluctuations as a random walk process and autocorrelated noise as an AR(1) process. See Romano, G., Rigaill, G., Runge, V., Fearnhead, P. (2021) <doi:10.1080/01621459.2021.1909598>.
Author: Gaetano Romano [aut, cre],
Guillem Rigaill [aut],
Vincent Runge [aut],
Paul Fearnhead [aut]
Maintainer: Gaetano Romano <g.romano@lancaster.ac.uk>
Diff between DeCAFS versions 3.1.5 dated 2020-05-18 and 3.2.3 dated 2021-04-09
DESCRIPTION | 14 ++++---- MD5 | 50 ++++++++++++++++------------- NAMESPACE | 3 + R/DeCAFS.R | 12 +++--- R/additional-estimators.R |only R/data.R | 2 - R/estimateParameters.R | 79 +++++++++++++++++++++++++++------------------- R/generateRWAR.R | 22 ++++++------ R/generateSinusoidal.R | 22 ++++++------ R/plot.R | 2 - R/scenarioGenerator.R |only build |only man/DeCAFS.Rd | 7 ++-- man/bestParameters.Rd |only man/cost.Rd |only man/dataRWAR.Rd | 21 ++++++------ man/dataSinusoidal.Rd | 27 ++++++++------- man/estimVar.Rd |only man/estimateParameters.Rd | 7 ++-- man/evalEtaNu.Rd |only man/oilWell.Rd | 2 - man/plot.DeCAFSout.Rd | 2 - man/scenarioGenerator.Rd |only src/algorithms.cpp | 46 +++++++++++++++++++++++--- src/algorithms.h | 12 +++++- src/fpop.cpp | 6 +++ src/fpopmain.cpp | 53 ++++++++++++++++++------------ src/fpopmain.h | 6 +++ src/quadratic.cpp | 6 +++ src/quadratic.h | 5 ++ 30 files changed, 257 insertions(+), 149 deletions(-)
More information about TensorClustering at CRAN
Permanent link
Title: Estimation and Plotting of IDF Curves
Description: Intensity-duration-frequency (IDF) curves are a widely used analysis-tool
in hydrology to assess extreme values of precipitation
[e.g. Mailhot et al., 2007, <doi:10.1016/j.jhydrol.2007.09.019>].
The package 'IDF' provides functions to estimate IDF parameters for given
precipitation time series on the basis of a duration-dependent
generalized extreme value distribution
[Koutsoyiannis et al., 1998, <doi:10.1016/S0022-1694(98)00097-3>].
Author: Jana Ulrich [aut, cre],
Laura Mack [ctb],
Oscar E. Jurado [ctb],
Felix S. Fauer [ctb],
Christoph Ritschel [aut],
Carola Detring [ctb],
Sarah Joedicke [ctb]
Maintainer: Jana Ulrich <jana.ulrich@met.fu-berlin.de>
Diff between IDF versions 2.0.0 dated 2021-01-15 and 2.1.0 dated 2021-04-09
DESCRIPTION | 10 - MD5 | 42 ++-- NEWS.md | 14 + R/IDF.R | 21 +- R/d-gev.R | 78 ++++++-- R/gevdfit.R | 307 ++++++++++++++++++++++++---------- README.md | 123 ++++++++++++- inst |only man/IDF-package.Rd | 5 man/dgev.d.Rd | 8 man/example.Rd | 4 man/figures/README-annualmax-1.png |binary man/figures/README-fit-1.png |binary man/figures/README-fit-2.png |binary man/figures/README-idf-1.png |binary man/figures/README-idf_features-1.png |only man/gev.d.fit.Rd | 28 ++- man/gev.d.init.Rd | 2 man/gev.d.lik.Rd | 15 + man/gev.d.params.Rd | 6 man/pgev.d.Rd | 6 man/qgev.d.Rd | 10 - man/rgev.d.Rd | 6 23 files changed, 519 insertions(+), 166 deletions(-)
Title: Composite Indicators Functions
Description: Contains functions to enhance approaches to the Composite Indicators methods, focusing, in particular, on the normalisation and weighting-aggregation steps.
Author: Francesco Vidoli, Elisa Fusco
Maintainer: Francesco Vidoli <fvidoli@gmail.com>
Diff between Compind versions 2.1 dated 2019-03-12 and 2.2 dated 2021-04-09
Compind-2.1/Compind/R/bandwidth_CI_bad.R |only Compind-2.1/Compind/R/ci_bod_constr_mpi.R |only Compind-2.1/Compind/R/ci_rbod_constr_Q.R |only Compind-2.1/Compind/man/bandwidth_CI_bad.Rd |only Compind-2.1/Compind/man/ci_bod_constr_mpi.Rd |only Compind-2.1/Compind/man/ci_rbod_constr_Q.Rd |only Compind-2.2/Compind/DESCRIPTION | 8 - Compind-2.2/Compind/MD5 | 28 ++---- Compind-2.2/Compind/NEWS | 10 +- Compind-2.2/Compind/R/bandwidth_CI.R | 9 - Compind-2.2/Compind/R/ci_ampi.R | 102 +++++++--------------- Compind-2.2/Compind/build/vignette.rds |binary Compind-2.2/Compind/inst/doc/Compind_vignette.pdf |binary Compind-2.2/Compind/man/EU_2020.Rd | 4 Compind-2.2/Compind/man/bandwidth_CI.Rd | 12 +- Compind-2.2/Compind/man/ci_ampi.Rd | 10 +- Compind-2.2/Compind/man/ci_rbod_constr_bad.Rd | 6 - Compind-2.2/Compind/man/ci_rbod_constr_bad_Q.Rd | 2 18 files changed, 78 insertions(+), 113 deletions(-)
Title: Import Surface Meteorological Data from NOAA Integrated Surface
Database (ISD)
Description: Functions to import data from more than 30,000 surface
meteorological sites around the world managed by the National Oceanic and Atmospheric Administration (NOAA) Integrated Surface
Database (ISD, see <https://www.ncdc.noaa.gov/isd>).
Author: David Carslaw [aut, cre]
Maintainer: David Carslaw <david.carslaw@york.ac.uk>
Diff between worldmet versions 0.9.3 dated 2021-03-29 and 0.9.4 dated 2021-04-09
worldmet-0.9.3/worldmet/R/sysdata.rda |only worldmet-0.9.3/worldmet/inst |only worldmet-0.9.4/worldmet/DESCRIPTION | 14 ++- worldmet-0.9.4/worldmet/MD5 | 20 ++--- worldmet-0.9.4/worldmet/NAMESPACE | 3 worldmet-0.9.4/worldmet/R/exportADMS.R | 50 ++++++++---- worldmet-0.9.4/worldmet/R/getMeta.R | 7 - worldmet-0.9.4/worldmet/R/metNOAA.R | 75 +++++++++--------- worldmet-0.9.4/worldmet/R/zzz.R | 2 worldmet-0.9.4/worldmet/README.md | 119 +++++++++++++++++++++--------- worldmet-0.9.4/worldmet/man/figures |only worldmet-0.9.4/worldmet/man/importNOAA.Rd | 14 ++- 12 files changed, 187 insertions(+), 117 deletions(-)
Title: Conditional Graphical LASSO for Gaussian Graphical Models with
Censored and Missing Values
Description: Conditional graphical lasso estimator is an extension of the graphical lasso proposed to estimate the conditional dependence structure of a set of p response variables given q predictors. This package provides suitable extensions developed to study datasets with censored and/or missing values. Standard conditional graphical lasso is available as a special case. Furthermore, the package provides an integrated set of core routines for visualization, analysis, and simulation of datasets with censored and/or missing values drawn from a Gaussian graphical model. Details about the implemented models can be found in Augugliaro et al. (2020b) <doi: 10.1007/s11222-020-09945-7>, Augugliaro et al. (2020a) <doi: 10.1093/biostatistics/kxy043>, Yin et al. (2001) <doi: 10.1214/11-AOAS494> and Stadler et al. (2012) <doi: 10.1007/s11222-010-9219-7>.
Author: Luigi Augugliaro [aut, cre] (<https://orcid.org/0000-0002-4603-7541>),
Gianluca Sottile [aut] (<https://orcid.org/0000-0001-9347-7251>),
Ernst C. Wit [aut] (<https://orcid.org/0000-0002-3671-9610>),
Veronica Vinciotti [aut] (<https://orcid.org/0000-0002-2625-7977>)
Maintainer: Luigi Augugliaro <luigi.augugliaro@unipa.it>
Diff between cglasso versions 2.0.3 dated 2021-04-06 and 2.0.4 dated 2021-04-09
ChangeLog | 9 +++++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/cglasso.R | 14 ++++++++++---- build/partial.rdb |binary man/cglasso-package.Rd | 4 ++-- 6 files changed, 30 insertions(+), 15 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-04-09 0.1.0
Title: Analyze Cricket Performances Based on Data from Cricsheet
Description: Analyzing performances of cricketers and cricket teams
based on 'yaml' match data from Cricsheet <https://cricsheet.org/>.
Author: Tinniam V Ganesh
Maintainer: Tinniam V Ganesh <tvganesh.85@gmail.com>
Diff between yorkr versions 0.0.19 dated 2021-02-03 and 0.0.20 dated 2021-04-09
DESCRIPTION | 9 +++----- MD5 | 28 +++++++++++++------------- R/bowlerDeliveryWickets.R | 7 ++++-- R/convertAllYaml2RDataframesT20.R | 6 +++++ R/convertYaml2RDataframeT20.R | 9 +++++--- R/getDeliveryWickets.R | 9 +++++--- R/getIPLBattingDetails.R | 2 - R/getIPLBowlingDetails.R | 2 - R/saveAllMatchesAllOppositionIPLT20.R | 2 - R/saveAllMatchesBetween2IPLTeams.R | 2 - R/teamBowlingWicketKindAllOppnAllMatches.R | 1 R/teamBowlingWicketRunsAllOppnAllMatches.R | 1 R/teamBowlingWicketRunsMatch.R | 7 +++--- man/teamBowlingWicketKindAllOppnAllMatches.Rd | 1 man/teamBowlingWicketRunsAllOppnAllMatches.Rd | 1 15 files changed, 49 insertions(+), 38 deletions(-)
Title: Simple Visualisation with 'ggplot2' and 'leaflet' Wrappers
Description: Wrapper functions to make 'ggplot2' and 'leaflet' visualisation easier and prettier.
Author: David Hodge [aut, cre] (<https://orcid.org/0000-0002-3868-7501>),
Statistics New Zealand [cph]
Maintainer: David Hodge <davidhodge931@gmail.com>
Diff between simplevis versions 2.4.0 dated 2021-03-12 and 2.6.0 dated 2021-04-09
simplevis-2.4.0/simplevis/R/ggplot_box_fun.R |only simplevis-2.4.0/simplevis/R/ggplot_hbar_fun.R |only simplevis-2.4.0/simplevis/R/ggplot_line_fun.R |only simplevis-2.4.0/simplevis/R/ggplot_point_fun.R |only simplevis-2.4.0/simplevis/R/ggplot_sf_fun.R |only simplevis-2.4.0/simplevis/R/ggplot_stars_fun.R |only simplevis-2.4.0/simplevis/R/ggplot_vbar_fun.R |only simplevis-2.4.0/simplevis/R/leaflet_basemap_fun.R |only simplevis-2.4.0/simplevis/R/leaflet_sf_fun.R |only simplevis-2.4.0/simplevis/R/leaflet_stars_fun.R |only simplevis-2.4.0/simplevis/R/run_app_fun.R |only simplevis-2.4.0/simplevis/data/nz_region.rda |only simplevis-2.4.0/simplevis/man/add_tip.Rd |only simplevis-2.4.0/simplevis/man/ggplot_box.Rd |only simplevis-2.4.0/simplevis/man/ggplot_box_facet.Rd |only simplevis-2.4.0/simplevis/man/ggplot_stars.Rd |only simplevis-2.4.0/simplevis/man/ggplot_stars_col.Rd |only simplevis-2.4.0/simplevis/man/ggplot_stars_col_facet.Rd |only simplevis-2.4.0/simplevis/man/ggplot_stars_facet.Rd |only simplevis-2.4.0/simplevis/man/leaflet_basemap_nz.Rd |only simplevis-2.4.0/simplevis/man/leaflet_stars.Rd |only simplevis-2.4.0/simplevis/man/leaflet_stars_col.Rd |only simplevis-2.4.0/simplevis/man/numeric_legend_labels.Rd |only simplevis-2.4.0/simplevis/man/nz_region.Rd |only simplevis-2.4.0/simplevis/man/pal_point_set1.Rd |only simplevis-2.4.0/simplevis/man/pal_snz.Rd |only simplevis-2.4.0/simplevis/man/sentence_spaced_colnames.Rd |only simplevis-2.4.0/simplevis/man/theme_box.Rd |only simplevis-2.4.0/simplevis/man/theme_stars.Rd |only simplevis-2.6.0/simplevis/DESCRIPTION | 10 simplevis-2.6.0/simplevis/MD5 | 162 ++--- simplevis-2.6.0/simplevis/NAMESPACE | 16 simplevis-2.6.0/simplevis/NEWS.md | 116 +++ simplevis-2.6.0/simplevis/R/data.R | 11 simplevis-2.6.0/simplevis/R/ggplot_boxplot.R |only simplevis-2.6.0/simplevis/R/ggplot_hbar.R |only simplevis-2.6.0/simplevis/R/ggplot_line.R |only simplevis-2.6.0/simplevis/R/ggplot_point.R |only simplevis-2.6.0/simplevis/R/ggplot_sf.R |only simplevis-2.6.0/simplevis/R/ggplot_vbar.R |only simplevis-2.6.0/simplevis/R/internal.R |only simplevis-2.6.0/simplevis/R/leaflet_basemap.R |only simplevis-2.6.0/simplevis/R/leaflet_sf.R |only simplevis-2.6.0/simplevis/R/logo.R | 34 - 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Title: Sean 'Lahman' Baseball Database
Description: Provides the tables from the 'Sean Lahman Baseball Database' as
a set of R data.frames. It uses the data on pitching, hitting and fielding
performance and other tables from 1871 through 2019, as recorded in the 2020
version of the database. Documentation examples show how many baseball
questions can be investigated.
Author: Michael Friendly [aut],
Chris Dalzell [cre, aut],
Martin Monkman [aut],
Dennis Murphy [aut],
Vanessa Foot [ctb],
Justeena Zaki-Azat [ctb]
Maintainer: Chris Dalzell <cdalzell@gmail.com>
Diff between Lahman versions 8.0-1 dated 2021-01-21 and 9.0-0 dated 2021-04-09
DESCRIPTION | 9 MD5 | 146 ++++---- NEWS | 4 build/vignette.rds |binary data/AllstarFull.RData |binary data/Appearances.RData |binary data/AwardsManagers.RData |binary data/AwardsPlayers.RData |binary data/AwardsShareManagers.RData |binary data/AwardsSharePlayers.RData |binary data/Batting.RData |binary data/BattingPost.RData |binary data/CollegePlaying.RData |binary data/Fielding.RData |binary data/FieldingOF.RData |binary data/FieldingOFsplit.RData |binary data/FieldingPost.RData |binary data/HallOfFame.RData |binary data/HomeGames.RData |binary data/LahmanData.RData |binary data/Managers.RData |binary data/ManagersHalf.RData |binary data/Master.RData |binary data/Parks.RData |binary data/People.RData |binary data/Pitching.RData |binary data/PitchingPost.RData |binary data/Salaries.RData |binary data/Schools.RData |binary data/SeriesPost.RData |binary data/Teams.RData |binary data/TeamsFranchises.RData |binary data/TeamsHalf.RData |binary data/battingLabels.RData |binary data/fieldingLabels.RData |binary data/pitchingLabels.RData |binary inst/doc/hits-by-type.html | 410 +++++------------------- inst/doc/payroll.html | 659 ++++++++++++--------------------------- inst/doc/run-scoring-trends.html | 330 +++---------------- inst/doc/strikeoutsandhr.Rmd | 2 inst/doc/strikeoutsandhr.html | 472 +++++++-------------------- inst/doc/vignette-intro.Rmd | 4 inst/doc/vignette-intro.html | 247 -------------- inst/scripts/readLahman.R | 6 man/AllstarFull.Rd | 2 man/Appearances.Rd | 4 man/AwardsManagers.Rd | 2 man/AwardsPlayers.Rd | 2 man/AwardsShareManagers.Rd | 2 man/AwardsSharePlayers.Rd | 2 man/Batting.Rd | 4 man/BattingPost.Rd | 4 man/CollegePlaying.Rd | 2 man/Fielding.Rd | 4 man/FieldingOF.Rd | 2 man/FieldingOFsplit.Rd | 4 man/FieldingPost.Rd | 4 man/HallOfFame.Rd | 2 man/HomeGames.Rd | 2 man/Managers.Rd | 4 man/ManagersHalf.Rd | 2 man/Master.Rd | 4 man/Parks.Rd | 2 man/People.Rd | 4 man/Pitching.Rd | 4 man/PitchingPost.Rd | 4 man/Salaries.Rd | 2 man/Schools.Rd | 2 man/SeriesPost.Rd | 4 man/Teams.Rd | 4 man/TeamsFranchises.Rd | 2 man/TeamsHalf.Rd | 2 vignettes/strikeoutsandhr.Rmd | 2 vignettes/vignette-intro.Rmd | 4 74 files changed, 625 insertions(+), 1752 deletions(-)
Title: Methods for Correlation Analysis
Description: Lightweight package for computing different kinds
of correlations, such as partial correlations, Bayesian correlations,
multilevel correlations, polychoric correlations, biweight
correlations, distance correlations and more. Part of the 'easystats'
ecosystem.
Author: Dominique Makowski [aut, inv] (<https://orcid.org/0000-0001-5375-9967>),
Indrajeet Patil [aut, cre] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between correlation versions 0.6.0 dated 2021-02-12 and 0.6.1 dated 2021-04-09
correlation-0.6.0/correlation/R/print.easycormatrix.R |only correlation-0.6.0/correlation/R/print.easycorrelation.R |only correlation-0.6.0/correlation/R/print_md.R |only correlation-0.6.0/correlation/vignettes/multilevel_files |only correlation-0.6.0/correlation/vignettes/types_files |only correlation-0.6.1/correlation/DESCRIPTION | 38 correlation-0.6.1/correlation/MD5 | 173 - correlation-0.6.1/correlation/NAMESPACE | 155 - correlation-0.6.1/correlation/NEWS.md | 235 + correlation-0.6.1/correlation/R/backports.R | 16 correlation-0.6.1/correlation/R/cor_test.R | 609 ++--- correlation-0.6.1/correlation/R/cor_test_bayes.R | 226 - correlation-0.6.1/correlation/R/cor_test_biserial.R | 152 - correlation-0.6.1/correlation/R/cor_test_biweight.R | 84 correlation-0.6.1/correlation/R/cor_test_blomqvist.R | 56 correlation-0.6.1/correlation/R/cor_test_distance.R | 288 +- correlation-0.6.1/correlation/R/cor_test_freq.R | 162 - correlation-0.6.1/correlation/R/cor_test_gamma.R | 58 correlation-0.6.1/correlation/R/cor_test_gaussian.R | 24 correlation-0.6.1/correlation/R/cor_test_hoeffding.R | 54 correlation-0.6.1/correlation/R/cor_test_percentage.R | 102 correlation-0.6.1/correlation/R/cor_test_polychoric.R | 102 correlation-0.6.1/correlation/R/cor_test_shepherd.R | 38 correlation-0.6.1/correlation/R/cor_test_somers.R | 50 correlation-0.6.1/correlation/R/cor_test_tetrachoric.R | 76 correlation-0.6.1/correlation/R/cor_to_ci.R | 180 - 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correlation-0.6.1/correlation/tests/testthat/test-correlation.R | 345 +- correlation-0.6.1/correlation/tests/testthat/test-display_print_dataframe.R | 78 correlation-0.6.1/correlation/tests/testthat/test-display_print_matrix.R | 97 correlation-0.6.1/correlation/tests/testthat/test-grouped_data2.R | 36 correlation-0.6.1/correlation/tests/testthat/test-methods.R | 10 correlation-0.6.1/correlation/tests/testthat/test-misc.R | 76 correlation-0.6.1/correlation/tests/testthat/test-selecting_variables.R |only correlation-0.6.1/correlation/tests/testthat/test-winsorization.R | 97 correlation-0.6.1/correlation/vignettes/bibliography.bib | 316 +- correlation-0.6.1/correlation/vignettes/multilevel.Rmd | 240 +- correlation-0.6.1/correlation/vignettes/types.Rmd | 427 ++- 92 files changed, 7353 insertions(+), 6376 deletions(-)
Title: Interval Mapping for Quantitative Trait Loci Underlying Neighbor
Effects
Description: To enable quantitative trait loci mapping of neighbor effects, this package extends a single-marker regression to interval mapping. The theoretical background of the method is described in Sato et al. (2021) <doi:10.1093/g3journal/jkab017>.
Author: Yasuhiro Sato [aut, cre] (<https://orcid.org/0000-0002-6466-723X>),
Kazuya Takeda [aut],
Atsushi J. Nagano [aut] (<https://orcid.org/0000-0001-7891-5049>)
Maintainer: Yasuhiro Sato <sato.yasuhiro.36c@kyoto-u.jp>
Diff between rNeighborQTL versions 1.1.1 dated 2020-11-12 and 1.1.2 dated 2021-04-09
rNeighborQTL-1.1.1/rNeighborQTL/inst/rNeighborQTL.Rmd |only rNeighborQTL-1.1.2/rNeighborQTL/DESCRIPTION | 16 rNeighborQTL-1.1.2/rNeighborQTL/MD5 | 47 rNeighborQTL-1.1.2/rNeighborQTL/R/calc_pve.R | 244 +- rNeighborQTL-1.1.2/rNeighborQTL/R/eff_neighbor.R | 366 ++-- rNeighborQTL-1.1.2/rNeighborQTL/R/rNeighborQTL-package.R | 51 rNeighborQTL-1.1.2/rNeighborQTL/R/scan_neighbor.R | 210 +- rNeighborQTL-1.1.2/rNeighborQTL/build/vignette.rds |binary rNeighborQTL-1.1.2/rNeighborQTL/inst/CITATION | 14 rNeighborQTL-1.1.2/rNeighborQTL/inst/doc/rNeighborQTL.R | 310 +-- rNeighborQTL-1.1.2/rNeighborQTL/inst/doc/rNeighborQTL.Rmd | 422 ++--- rNeighborQTL-1.1.2/rNeighborQTL/inst/doc/rNeighborQTL.html | 994 ++++-------- rNeighborQTL-1.1.2/rNeighborQTL/man/calc_neiprob.Rd | 86 - rNeighborQTL-1.1.2/rNeighborQTL/man/calc_pve.Rd | 154 - rNeighborQTL-1.1.2/rNeighborQTL/man/decompose_genoprobs.Rd | 54 rNeighborQTL-1.1.2/rNeighborQTL/man/eff_neighbor.Rd | 164 - rNeighborQTL-1.1.2/rNeighborQTL/man/get_markers.Rd | 40 rNeighborQTL-1.1.2/rNeighborQTL/man/int_neighbor.Rd | 152 - rNeighborQTL-1.1.2/rNeighborQTL/man/min_dist.Rd | 44 rNeighborQTL-1.1.2/rNeighborQTL/man/perm_neighbor.Rd | 154 - rNeighborQTL-1.1.2/rNeighborQTL/man/plot_eff.Rd | 44 rNeighborQTL-1.1.2/rNeighborQTL/man/plot_nei.Rd | 64 rNeighborQTL-1.1.2/rNeighborQTL/man/rNeighborQTL-package.Rd | 58 rNeighborQTL-1.1.2/rNeighborQTL/man/scan_neighbor.Rd | 158 - rNeighborQTL-1.1.2/rNeighborQTL/vignettes/rNeighborQTL.Rmd | 422 ++--- 25 files changed, 2036 insertions(+), 2232 deletions(-)
Title: Multiple Indicator Cluster Survey (MICS) 2014 Women
Questionnaire Data for Punjab, Pakistan
Description: Provides data set and function for exploration of Multiple Indicator Cluster Survey 2014 Women (age 15-49 years) questionnaire data for Punjab, Pakistan.
Author: Muhammad Yaseen [aut, cre],
Muhammad Usman [ctb]
Maintainer: Muhammad Yaseen <myaseen208@gmail.com>
Diff between PakPMICS2014Wm versions 0.1.0 dated 2017-09-07 and 0.1.1 dated 2021-04-09
PakPMICS2014Wm-0.1.0/PakPMICS2014Wm/data/datalist |only PakPMICS2014Wm-0.1.1/PakPMICS2014Wm/DESCRIPTION | 13 +++++++------ PakPMICS2014Wm-0.1.1/PakPMICS2014Wm/MD5 | 11 +++++------ PakPMICS2014Wm-0.1.1/PakPMICS2014Wm/NEWS.md | 6 ++++++ PakPMICS2014Wm-0.1.1/PakPMICS2014Wm/R/MICS2014Wm.R | 2 +- PakPMICS2014Wm-0.1.1/PakPMICS2014Wm/README.md | 6 +++--- PakPMICS2014Wm-0.1.1/PakPMICS2014Wm/man/MICS2014Wm.Rd | 8 +++++--- 7 files changed, 27 insertions(+), 19 deletions(-)
More information about PakPMICS2014Wm at CRAN
Permanent link
Title: Multiple Indicator Cluster Survey (MICS) 2014 Household Listing
Questionnaire Data for Punjab, Pakistan
Description: Provides data set and function for exploration of Multiple Indicator Cluster Survey 2014 Household Listing questionnaire data for Punjab, Pakistan.
Author: Muhammad Yaseen [aut, cre],
Muhammad Usman [ctb]
Maintainer: Muhammad Yaseen <myaseen208@gmail.com>
Diff between PakPMICS2014HL versions 0.1.0 dated 2017-09-07 and 0.1.1 dated 2021-04-09
PakPMICS2014HL-0.1.0/PakPMICS2014HL/data/datalist |only PakPMICS2014HL-0.1.1/PakPMICS2014HL/DESCRIPTION | 13 +++++++------ PakPMICS2014HL-0.1.1/PakPMICS2014HL/MD5 | 11 +++++------ PakPMICS2014HL-0.1.1/PakPMICS2014HL/NEWS.md | 5 +++++ PakPMICS2014HL-0.1.1/PakPMICS2014HL/R/MICS2014HL.R | 2 +- PakPMICS2014HL-0.1.1/PakPMICS2014HL/README.md | 6 +++--- PakPMICS2014HL-0.1.1/PakPMICS2014HL/man/MICS2014HL.Rd | 8 +++++--- 7 files changed, 26 insertions(+), 19 deletions(-)
More information about PakPMICS2014HL at CRAN
Permanent link
Title: Create Simple Yet Powerful HTML Documents with Light Weight CSS
Frameworks
Description: Create minimal, responsive, and style-agnostic HTML documents with
the lightweight CSS frameworks such as 'sakura', 'Water.css', and 'spcss'.
Powerful features include table of contents floating as a sidebar,
folding codes and results, and more.
Author: Atsushi Yasumoto [aut, cph, cre]
(<https://orcid.org/0000-0002-8335-495X>),
Angelos Chalaris [aut] (mini.css),
Susam Pal [aut] (spcss),
Mitesh Shah [aut] (sakura),
Kognise [aut] (Water.css)
Maintainer: Atsushi Yasumoto <atusy.rpkg@gmail.com>
Diff between minidown versions 0.1.0 dated 2021-04-04 and 0.1.1 dated 2021-04-09
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/spec-post-processor.R | 1 - tests/testthat/test-mini-document.R | 12 +++++++----- 5 files changed, 20 insertions(+), 13 deletions(-)
Title: Binary Expansion Testing
Description: Nonparametric detection of nonuniformity and dependence with Binary Expansion Testing (BET). See Kai Zhang (2019) BET on Independence, Journal of the American Statistical Association, 114:528, 1620-1637, <DOI:10.1080/01621459.2018.1537921> and Zhigen Zhao, Michael Baiocchi, Kai Zhang. SorBET: A Fast and Powerful Algorithm to Test Dependence of Variables.
Author: Wan Zhang [aut, cre],
Zhigen Zhao [aut],
Michael Baiocchi [aut],
Kai Zhang [aut]
Maintainer: Wan Zhang <wanz63@live.unc.edu>
Diff between BET versions 0.3.5 dated 2021-04-02 and 0.3.6 dated 2021-04-09
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/RcppExports.R | 4 ++-- R/plot.R | 27 ++++++++++++++++++--------- build/partial.rdb |binary src/BET.h | 11 +++++++---- src/BET3.cpp | 47 +++++++++++++++++++++++++++++------------------ src/RcppExports.cpp | 9 ++++----- 8 files changed, 70 insertions(+), 48 deletions(-)
Title: Deployment Interface for R Markdown Documents and Shiny
Applications
Description: Programmatic deployment interface for 'RPubs', 'shinyapps.io', and
'RStudio Connect'. Supported content types include R Markdown documents,
Shiny applications, Plumber APIs, plots, and static web content.
Author: JJ Allaire
Maintainer: Jonathan McPherson <jonathan@rstudio.com>
Diff between rsconnect versions 0.8.16 dated 2019-12-13 and 0.8.17 dated 2021-04-09
DESCRIPTION | 12 - MD5 | 113 ++++++------- NAMESPACE | 2 NEWS.md | 28 +++ R/accounts.R | 15 + R/applications.R | 103 +++++++++++- R/auth.R | 6 R/bundle.R | 333 ++++++++++++++++++++++++++++++---------- R/config.R | 27 ++- R/dependencies.R | 51 ++++-- R/deployApp.R | 18 +- R/deployDoc.R | 2 R/deployTFModel.R | 4 R/deployments.R | 28 ++- R/http-libcurl.R | 8 R/imports.R | 2 R/lint-utils.R | 4 R/lucid.R | 2 R/onLoad.R | 5 R/packages.R | 2 R/rpubs.R | 7 R/usage.R | 4 README.md | 10 - inst/resources/environment.py | 245 +++++++++++++++++++++++------ man/accountUsage.Rd | 10 - man/accounts.Rd | 6 man/addAuthorizedUser.Rd | 12 + man/applications.Rd | 9 - man/configureApp.Rd | 13 + man/connectApiUser.Rd | 9 - man/connectUser.Rd | 7 man/deployAPI.Rd | 9 - man/deployApp.Rd | 39 +++- man/deployDoc.Rd | 9 - man/deploySite.Rd | 25 ++- man/deployTFModel.Rd | 13 - man/deployments.Rd | 12 + man/forgetDeployment.Rd | 10 - man/generateAppName.Rd | 3 man/removeAuthorizedUser.Rd | 9 - man/rpubsUpload.Rd | 3 man/rsconnectPackages.Rd | 4 man/servers.Rd | 4 man/setAccountInfo.Rd | 6 man/setProperty.Rd | 10 - man/showInvited.Rd | 3 man/showLogs.Rd | 10 - man/showMetrics.Rd | 18 +- man/showUsage.Rd | 13 + man/showUsers.Rd | 3 man/syncAppMetadata.Rd |only man/unsetProperty.Rd | 9 - man/writeManifest.Rd | 14 + tests/testthat.R | 9 + tests/testthat/test-bundle.R | 42 +++++ tests/testthat/test-cert.R | 3 tests/testthat/test-connect.R | 2 tests/testthat/test-detection.R | 112 +++++++++++++ 58 files changed, 1137 insertions(+), 354 deletions(-)
Title: Exploration and Graphics for RivEr Trends
Description: Statistics and graphics for streamflow history,
water quality trends, and the statistical modeling algorithm: Weighted
Regressions on Time, Discharge, and Season (WRTDS). The modeling
method is introduced and discussed in Hirsch et al. (2010) <doi:10.1111/j.1752-1688.2010.00482.x>,
and expanded in Hirsch and De Cicco (2015) <doi:10.3133/tm4A10>.
Author: Robert Hirsch [aut] (<https://orcid.org/0000-0002-4534-075X>),
Laura DeCicco [aut, cre] (<https://orcid.org/0000-0002-3915-9487>),
Tim Cohn [ctb],
David Watkins [ctb],
Lindsay Carr [ctb],
Jennifer Murphy [ctb]
Maintainer: Laura DeCicco <ldecicco@usgs.gov>
Diff between EGRET versions 3.0.2 dated 2019-02-08 and 3.0.5 dated 2021-04-09
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EGRET-3.0.5/EGRET/NEWS | 7 EGRET-3.0.5/EGRET/R/EGRET.R | 44 - EGRET-3.0.5/EGRET/R/boxConcMonth.R | 4 EGRET-3.0.5/EGRET/R/boxConcThree.R | 3 EGRET-3.0.5/EGRET/R/boxQTwice.R | 6 EGRET-3.0.5/EGRET/R/calculateMonthlyResults.R | 29 EGRET-3.0.5/EGRET/R/cumQdate.R |only EGRET-3.0.5/EGRET/R/egret_objects.R | 14 EGRET-3.0.5/EGRET/R/errorStats.R |only EGRET-3.0.5/EGRET/R/estCrossVal.R | 4 EGRET-3.0.5/EGRET/R/estDailyFromSurfacesJ.R | 13 EGRET-3.0.5/EGRET/R/estSurfaces.R | 2 EGRET-3.0.5/EGRET/R/flexFN.R | 4 EGRET-3.0.5/EGRET/R/flowDuration.R | 14 EGRET-3.0.5/EGRET/R/fluxBiasEight.R | 10 EGRET-3.0.5/EGRET/R/fluxBiasStat.R | 4 EGRET-3.0.5/EGRET/R/generalAxis.R | 2 EGRET-3.0.5/EGRET/R/kalman_functions.R |only EGRET-3.0.5/EGRET/R/makeAnnualSeries.R | 7 EGRET-3.0.5/EGRET/R/makeRandomResiduals.R | 4 EGRET-3.0.5/EGRET/R/mergeReport.r | 8 EGRET-3.0.5/EGRET/R/modelEstimation.R | 47 - EGRET-3.0.5/EGRET/R/plot15.R | 18 EGRET-3.0.5/EGRET/R/plot1of15.R | 11 EGRET-3.0.5/EGRET/R/plotConcHist.R | 165 ++-- EGRET-3.0.5/EGRET/R/plotConcPred.R | 8 EGRET-3.0.5/EGRET/R/plotConcQ.R | 19 EGRET-3.0.5/EGRET/R/plotConcQSmooth.R | 28 EGRET-3.0.5/EGRET/R/plotConcTime.R | 22 EGRET-3.0.5/EGRET/R/plotConcTimeDaily.R | 7 EGRET-3.0.5/EGRET/R/plotConcTimeSmooth.R | 24 EGRET-3.0.5/EGRET/R/plotContours.R | 41 EGRET-3.0.5/EGRET/R/plotDiffContours.R | 38 EGRET-3.0.5/EGRET/R/plotFlowSingle.R | 18 EGRET-3.0.5/EGRET/R/plotFluxHist.R | 125 ++- EGRET-3.0.5/EGRET/R/plotFluxPred.R | 2 EGRET-3.0.5/EGRET/R/plotFluxQ.R | 2 EGRET-3.0.5/EGRET/R/plotFluxTimeDaily.R | 56 - EGRET-3.0.5/EGRET/R/plotFour.R | 10 EGRET-3.0.5/EGRET/R/plotFourStats.R | 6 EGRET-3.0.5/EGRET/R/plotQTimeDaily.R | 11 EGRET-3.0.5/EGRET/R/plotSDLogQ.R | 9 EGRET-3.0.5/EGRET/R/populateDateColumns.r | 33 EGRET-3.0.5/EGRET/R/populateParameterINFO.r | 4 EGRET-3.0.5/EGRET/R/populateSiteINFO.r | 4 EGRET-3.0.5/EGRET/R/printSeries.R | 3 EGRET-3.0.5/EGRET/R/processQWData.r | 16 EGRET-3.0.5/EGRET/R/readMetaData.r | 14 EGRET-3.0.5/EGRET/R/readNWISDaily.r | 2 EGRET-3.0.5/EGRET/R/readNWISSample.r | 2 EGRET-3.0.5/EGRET/R/readUserSample.r | 4 EGRET-3.0.5/EGRET/R/readWQPSample.R | 12 EGRET-3.0.5/EGRET/R/runGroups.R | 126 +-- EGRET-3.0.5/EGRET/R/runPairs.R | 119 ++ EGRET-3.0.5/EGRET/R/runSeries.R | 62 + EGRET-3.0.5/EGRET/R/runSurvReg.R | 51 + EGRET-3.0.5/EGRET/R/saveResults.R | 8 EGRET-3.0.5/EGRET/R/setPA.R | 13 EGRET-3.0.5/EGRET/R/setupYears.R | 117 ++ EGRET-3.0.5/EGRET/R/stitch.R | 2 EGRET-3.0.5/EGRET/R/tableChange.R | 28 EGRET-3.0.5/EGRET/R/tableFlowChange.R | 17 EGRET-3.0.5/EGRET/R/tableResults.R | 53 - 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EGRET-3.0.5/EGRET/man/plotDiffContours.Rd | 48 - EGRET-3.0.5/EGRET/man/plotFlowSingle.Rd | 19 EGRET-3.0.5/EGRET/man/plotFluxHist.Rd | 23 EGRET-3.0.5/EGRET/man/plotFluxPred.Rd | 2 EGRET-3.0.5/EGRET/man/plotFluxQ.Rd | 2 EGRET-3.0.5/EGRET/man/plotFluxTimeDaily.Rd | 17 EGRET-3.0.5/EGRET/man/plotFour.Rd | 12 EGRET-3.0.5/EGRET/man/plotFourStats.Rd | 6 EGRET-3.0.5/EGRET/man/plotQTimeDaily.Rd | 7 EGRET-3.0.5/EGRET/man/plotResidQ.Rd | 4 EGRET-3.0.5/EGRET/man/plotResidTime.Rd | 6 EGRET-3.0.5/EGRET/man/plotSDLogQ.Rd | 15 EGRET-3.0.5/EGRET/man/plotTimeSlice.Rd |only EGRET-3.0.5/EGRET/man/plotWRTDSKalman.Rd |only EGRET-3.0.5/EGRET/man/populateDateColumns.Rd |only EGRET-3.0.5/EGRET/man/populateParameterINFO.Rd | 4 EGRET-3.0.5/EGRET/man/populateSiteINFO.Rd | 4 EGRET-3.0.5/EGRET/man/printSeries.Rd | 4 EGRET-3.0.5/EGRET/man/processQWData.Rd | 8 EGRET-3.0.5/EGRET/man/qUnit-class.Rd | 8 EGRET-3.0.5/EGRET/man/randomSubset.Rd |only EGRET-3.0.5/EGRET/man/readDataFromFile.Rd | 2 EGRET-3.0.5/EGRET/man/readNWISDaily.Rd | 2 EGRET-3.0.5/EGRET/man/readNWISSample.Rd | 2 EGRET-3.0.5/EGRET/man/readUserDaily.Rd | 2 EGRET-3.0.5/EGRET/man/readUserSample.Rd | 4 EGRET-3.0.5/EGRET/man/readWQPSample.Rd | 11 EGRET-3.0.5/EGRET/man/runGroups.Rd | 95 +- EGRET-3.0.5/EGRET/man/runPairs.Rd | 77 + EGRET-3.0.5/EGRET/man/runSeries.Rd | 59 - 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Title: Thermodynamic Calculations and Diagrams for Geochemistry
Description: An integrated set of tools for thermodynamic calculations in
aqueous geochemistry and geobiochemistry. Functions are provided for writing
balanced reactions to form species from user-selected basis species and for
calculating the standard molal properties of species and reactions, including
the standard Gibbs energy and equilibrium constant. Calculations of the
non-equilibrium chemical affinity and equilibrium chemical activity of species
can be portrayed on diagrams as a function of temperature, pressure, or
activity of basis species; in two dimensions, this gives a maximum affinity or
predominance diagram. The diagrams have formatted chemical formulas and axis
labels, and water stability limits can be added to Eh-pH, oxygen fugacity-
temperature, and other diagrams with a redox variable. The package has been
developed to handle common calculations in aqueous geochemistry, such as
solubility due to complexation of metal ions, mineral buffers of redox or pH,
and changing the basis species across a diagram ("mosaic diagrams"). CHNOSZ
also has unique capabilities for comparing the compositional and thermodynamic
properties of different proteins.
Author: Jeffrey Dick [aut, cre] (<https://orcid.org/0000-0002-0687-5890>)
Maintainer: Jeffrey Dick <j3ffdick@gmail.com>
Diff between CHNOSZ versions 1.4.0 dated 2020-11-11 and 1.4.1 dated 2021-04-09
CHNOSZ-1.4.0/CHNOSZ/demo/berman.R |only CHNOSZ-1.4.0/CHNOSZ/inst/ONEWS |only CHNOSZ-1.4.1/CHNOSZ/DESCRIPTION | 10 CHNOSZ-1.4.1/CHNOSZ/MD5 | 206 - CHNOSZ-1.4.1/CHNOSZ/R/add.OBIGT.R | 16 CHNOSZ-1.4.1/CHNOSZ/R/diagram.R | 132 - CHNOSZ-1.4.1/CHNOSZ/R/examples.R | 4 CHNOSZ-1.4.1/CHNOSZ/R/info.R | 24 CHNOSZ-1.4.1/CHNOSZ/R/ionize.aa.R | 7 CHNOSZ-1.4.1/CHNOSZ/R/mosaic.R | 39 CHNOSZ-1.4.1/CHNOSZ/R/solubility.R | 145 - CHNOSZ-1.4.1/CHNOSZ/R/species.R | 5 CHNOSZ-1.4.1/CHNOSZ/R/subcrt.R | 12 CHNOSZ-1.4.1/CHNOSZ/R/thermo.R | 23 CHNOSZ-1.4.1/CHNOSZ/R/util.affinity.R | 2 CHNOSZ-1.4.1/CHNOSZ/R/util.data.R | 6 CHNOSZ-1.4.1/CHNOSZ/R/util.fasta.R | 4 CHNOSZ-1.4.1/CHNOSZ/R/util.units.R | 2 CHNOSZ-1.4.1/CHNOSZ/build/partial.rdb |only CHNOSZ-1.4.1/CHNOSZ/build/vignette.rds |binary CHNOSZ-1.4.1/CHNOSZ/demo/00Index | 4 CHNOSZ-1.4.1/CHNOSZ/demo/AkDi.R | 4 CHNOSZ-1.4.1/CHNOSZ/demo/E_coli.R |only CHNOSZ-1.4.1/CHNOSZ/demo/Pourbaix.R |only CHNOSZ-1.4.1/CHNOSZ/demo/affinity.R | 36 CHNOSZ-1.4.1/CHNOSZ/demo/contour.R | 29 CHNOSZ-1.4.1/CHNOSZ/demo/gold.R | 94 CHNOSZ-1.4.1/CHNOSZ/demo/mosaic.R | 73 CHNOSZ-1.4.1/CHNOSZ/demo/potassium.R |only CHNOSZ-1.4.1/CHNOSZ/demo/solubility.R | 44 CHNOSZ-1.4.1/CHNOSZ/demo/sphalerite.R | 31 CHNOSZ-1.4.1/CHNOSZ/demo/zinc.R | 44 CHNOSZ-1.4.1/CHNOSZ/inst/CHECKLIST | 3 CHNOSZ-1.4.1/CHNOSZ/inst/NEWS.Rd | 2095 ---------------- CHNOSZ-1.4.1/CHNOSZ/inst/ONEWS.Rd |only CHNOSZ-1.4.1/CHNOSZ/inst/OONEWS |only CHNOSZ-1.4.1/CHNOSZ/inst/TODO | 17 CHNOSZ-1.4.1/CHNOSZ/inst/doc/OBIGT.Rmd | 2 CHNOSZ-1.4.1/CHNOSZ/inst/doc/OBIGT.bib | 69 CHNOSZ-1.4.1/CHNOSZ/inst/doc/OBIGT.html | 56 CHNOSZ-1.4.1/CHNOSZ/inst/doc/anintro.R | 12 CHNOSZ-1.4.1/CHNOSZ/inst/doc/anintro.Rmd | 43 CHNOSZ-1.4.1/CHNOSZ/inst/doc/anintro.html | 242 - CHNOSZ-1.4.1/CHNOSZ/inst/doc/eos-regress.Rmd | 2 CHNOSZ-1.4.1/CHNOSZ/inst/doc/eos-regress.html | 14 CHNOSZ-1.4.1/CHNOSZ/inst/doc/equilibrium.Rmd | 14 CHNOSZ-1.4.1/CHNOSZ/inst/doc/equilibrium.html | 8 CHNOSZ-1.4.1/CHNOSZ/inst/doc/multi-metal.R | 873 +++++- CHNOSZ-1.4.1/CHNOSZ/inst/doc/multi-metal.Rmd | 503 +++ CHNOSZ-1.4.1/CHNOSZ/inst/doc/multi-metal.html | 1263 +++++---- CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/AkDi.csv | 48 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/Berman_cr.csv | 70 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/SLOP98.csv | 2 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/SUPCRT92.csv | 1 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/inorganic_aq.csv | 28 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/inorganic_cr.csv | 4 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/organic_aq.csv | 21 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/OBIGT/refs.csv | 7 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/adds/OBIGT_check.csv | 470 +-- CHNOSZ-1.4.1/CHNOSZ/inst/extdata/thermo/opt.csv | 4 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/thermo/protein.csv | 2 CHNOSZ-1.4.1/CHNOSZ/inst/extdata/thermo/stoich.csv.xz |binary CHNOSZ-1.4.1/CHNOSZ/man/CHNOSZ-package.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/DEW.Rd | 4 CHNOSZ-1.4.1/CHNOSZ/man/EOSregress.Rd | 4 CHNOSZ-1.4.1/CHNOSZ/man/IAPWS95.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/add.OBIGT.Rd | 21 CHNOSZ-1.4.1/CHNOSZ/man/affinity.Rd | 4 CHNOSZ-1.4.1/CHNOSZ/man/basis.Rd | 4 CHNOSZ-1.4.1/CHNOSZ/man/berman.Rd | 8 CHNOSZ-1.4.1/CHNOSZ/man/buffer.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/diagram.Rd | 27 CHNOSZ-1.4.1/CHNOSZ/man/eos.Rd | 19 CHNOSZ-1.4.1/CHNOSZ/man/equilibrate.Rd | 7 CHNOSZ-1.4.1/CHNOSZ/man/examples.Rd | 122 CHNOSZ-1.4.1/CHNOSZ/man/extdata.Rd | 38 CHNOSZ-1.4.1/CHNOSZ/man/ionize.aa.Rd | 4 CHNOSZ-1.4.1/CHNOSZ/man/mosaic.Rd | 24 CHNOSZ-1.4.1/CHNOSZ/man/nonideal.Rd | 18 CHNOSZ-1.4.1/CHNOSZ/man/objective.Rd | 4 CHNOSZ-1.4.1/CHNOSZ/man/palply.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/protein.info.Rd | 4 CHNOSZ-1.4.1/CHNOSZ/man/solubility.Rd | 227 - CHNOSZ-1.4.1/CHNOSZ/man/species.Rd | 3 CHNOSZ-1.4.1/CHNOSZ/man/subcrt.Rd | 16 CHNOSZ-1.4.1/CHNOSZ/man/thermo.Rd | 28 CHNOSZ-1.4.1/CHNOSZ/man/util.blast.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/util.data.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/util.formula.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/util.protein.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/util.water.Rd | 2 CHNOSZ-1.4.1/CHNOSZ/man/water.Rd | 22 CHNOSZ-1.4.1/CHNOSZ/tests/testthat/test-eos.R | 4 CHNOSZ-1.4.1/CHNOSZ/tests/testthat/test-info.R | 8 CHNOSZ-1.4.1/CHNOSZ/tests/testthat/test-ionize.aa.R | 11 CHNOSZ-1.4.1/CHNOSZ/tests/testthat/test-mix.R | 3 CHNOSZ-1.4.1/CHNOSZ/tests/testthat/test-mod.OBIGT.R | 2 CHNOSZ-1.4.1/CHNOSZ/tests/testthat/test-mosaic.R | 12 CHNOSZ-1.4.1/CHNOSZ/tests/testthat/test-solubility.R | 40 CHNOSZ-1.4.1/CHNOSZ/vignettes/CHNOSZ.dia |binary CHNOSZ-1.4.1/CHNOSZ/vignettes/CHNOSZ.png |binary CHNOSZ-1.4.1/CHNOSZ/vignettes/OBIGT.Rmd | 2 CHNOSZ-1.4.1/CHNOSZ/vignettes/OBIGT.bib | 69 CHNOSZ-1.4.1/CHNOSZ/vignettes/anintro.Rmd | 43 CHNOSZ-1.4.1/CHNOSZ/vignettes/eos-regress.Rmd | 2 CHNOSZ-1.4.1/CHNOSZ/vignettes/equilibrium.Rmd | 14 CHNOSZ-1.4.1/CHNOSZ/vignettes/multi-metal.Rmd | 503 +++ CHNOSZ-1.4.1/CHNOSZ/vignettes/vig.bib | 116 108 files changed, 4095 insertions(+), 4229 deletions(-)
Title: Early Detection of Public Health Threats from Twitter Data
Description: It allows you to automatically monitor trends of tweets by time, place and topic aiming at detecting public health threats early through the detection of signals (e.g. an unusual increase in the number of tweets). It was designed to focus on infectious diseases, and it can be extended to all hazards or other fields of study by modifying the topics and keywords.
Author: Francisco Orchard [aut, ctr] (<https://orcid.org/0000-0001-5793-3301>,
Author of the package and original code),
Laura Espinosa [aut, cre, fnd]
(<https://orcid.org/0000-0003-0748-9657>, Project manager, author
of the design and concept of the package, and package maintainer),
Ariana Wijermans [ctb] (Contributor to the design and concept of the
package),
Thomas Mollet [ctb, fnd] (Business owner of the project, and
contributor to the design and concept of the package),
Adrian Prodan [ctb],
Thomas Czernichow [ctb],
Maria Prieto Gonzalez [ctb],
Esther Kissling [ctb],
Michael Höhle [ctb]
Maintainer: Laura Espinosa <laura.espinosa@ecdc.europa.eu>
Diff between epitweetr versions 0.1.24 dated 2020-10-23 and 0.1.28 dated 2021-04-08
DESCRIPTION | 7 MD5 | 16 R/config.R | 2 build/vignette.rds |binary inst/doc/epitweetr-vignette.Rmd | 12 inst/doc/epitweetr-vignette.html | 1745 +++++++++++++-------------- inst/extdata/topics.xlsx |binary java/ecdc-twitter-bundle_2.12-1.0-source.zip |binary vignettes/epitweetr-vignette.Rmd | 12 9 files changed, 868 insertions(+), 926 deletions(-)
Title: Variable Table for Variable Documentation
Description: Automatically generates HTML variable documentation including variable names, labels, classes, value labels (if applicable), value ranges, and summary statistics. See the vignette "vtable" for a package overview.
Author: Nick Huntington-Klein [aut, cre]
Maintainer: Nick Huntington-Klein <nhuntington-klein@seattleu.edu>
Diff between vtable versions 1.2.7 dated 2021-03-01 and 1.3.1 dated 2021-04-08
DESCRIPTION | 9 MD5 | 45 +- NAMESPACE | 1 R/dftotable.R | 8 R/helpers.R | 59 +++ R/independencetest.R | 53 ++- R/sumtable.R | 123 ++++++- R/vtable.R | 5 build/vignette.rds |binary inst/doc/dftotable.html | 299 +++-------------- inst/doc/labeltable.html | 468 +--------------------------- inst/doc/sumtable.R | 2 inst/doc/sumtable.Rmd | 10 inst/doc/sumtable.html | 649 +++++++-------------------------------- inst/doc/vtable.html | 200 ------------ inst/doc/vtablefunction.html | 715 +++++++++---------------------------------- inst/doc/vtablehelpers.R | 9 inst/doc/vtablehelpers.Rmd | 22 + inst/doc/vtablehelpers.html | 286 +++-------------- man/independence.test.Rd | 5 man/sumtable.Rd | 8 man/weighted.sd.Rd |only vignettes/sumtable.Rmd | 10 vignettes/vtablehelpers.Rmd | 22 + 24 files changed, 737 insertions(+), 2271 deletions(-)
Title: Thresholded Partial Least Squares Model for Neuroimaging Data
Description: Uses thresholded partial least squares algorithm to create a regression or classification model. For more information, see Lee, Bradlow, and Kable <doi:10.1101/2021.02.09.430524>.
Author: Sangil Lee [aut, cre]
Maintainer: Sangil Lee <sangillee3rd@gmail.com>
Diff between TPLSr versions 1.0.1 dated 2020-11-02 and 1.0.3 dated 2021-04-08
DESCRIPTION | 11 ++++++----- MD5 | 6 +++--- NEWS.md | 12 ++++++++++++ README.md | 10 ++++++++-- 4 files changed, 29 insertions(+), 10 deletions(-)
Title: Computation of Variance-Based Sensitivity Indices
Description: It allows to rapidly compute, bootstrap and plot up to third-order Sobol'-based sensitivity indices using several state-of-the-art first and total-order estimators. Sobol' indices can be computed either for models that yield a scalar as a model output or for systems of differential equations. The package also provides a suit of benchmark tests functions and several options to obtain publication-ready figures of the model output uncertainty and sensitivity-related analysis. An overview of Sobol'-based sensitivity indices can be found in Saltelli et al. (2008, ISBN:9780470059975) and in Puy, Lo Piano, Saltelli, and Levin (2021) <arXiv:2101.10103>.
Author: Arnald Puy [aut, cre] (<https://orcid.org/0000-0001-9469-2156>),
Bertrand Ioos [ctb] (Author of included 'sensitivity' fragments),
Gilles Pujol [ctb] (Author of included 'sensitivity' fragments),
RStudio [cph] (Copyright holder of included 'sensitivity' fragments)
Maintainer: Arnald Puy <arnald.puy@pm.me>
Diff between sensobol versions 1.0.0 dated 2021-01-26 and 1.0.1 dated 2021-04-08
DESCRIPTION | 9 +- MD5 | 37 ++++++----- NAMESPACE | 3 NEWS.md | 8 ++ R/plot_sobol.R | 132 +++++++++++++++++++++++++++++++++++++++- R/sobol_indices.R | 67 ++++++++++++++------ R/sobol_matrices.R | 24 +++---- R/sobol_ode.R | 2 R/test_functions.R | 35 ++++++---- R/vars_matrices.R | 10 +++ R/vars_to.R | 50 ++++++++++++--- README.md | 18 +++-- build/partial.rdb |binary inst/doc/sensobol.pdf |binary man/plot.sensobol.Rd |only man/plot_sobol.Rd | 21 ------ man/print.sensobol.Rd |only man/print.vars.Rd |only man/sobol_indices.Rd | 2 man/vars_to.Rd | 1 vignettes/sensobol_vignette.pdf |binary 21 files changed, 312 insertions(+), 107 deletions(-)
Title: Select and Download Climate Data from 'DWD' (German Weather
Service)
Description: Handle climate data from the 'DWD' ('Deutscher Wetterdienst', see
<https://www.dwd.de/EN/climate_environment/cdc/cdc_node_en.html> for more information).
Choose observational time series from meteorological stations with 'selectDWD()'.
Find raster data from radar and interpolation according to <https://bookdown.org/brry/rdwd/raster-data.html>.
Download (multiple) data sets with progress bars and no re-downloads through 'dataDWD()'.
Read both tabular observational data and binary gridded datasets with 'readDWD()'.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>
Diff between rdwd versions 1.4.0 dated 2020-08-01 and 1.5.0 dated 2021-04-08
DESCRIPTION | 12 - MD5 | 115 ++++++------- NAMESPACE | 1 NEWS | 37 ++++ R/addBorders.R | 23 +- R/createIndex.R | 5 R/dataDWD.R | 13 - R/dirDWD.R | 2 R/fileType.R | 10 - R/index.R | 2 R/indexFTP.R | 7 R/nearbyStations.R | 3 R/plotRadar.R | 7 R/projectRasterDWD.R | 9 - R/rdwd-package.R | 3 R/readDWD.R | 156 +++++++++++++---- R/readVars.R | 417 +++++++++++++++++------------------------------- R/runLocalTests.R | 42 ++-- R/selectDWD.R | 4 R/updateIndexes.R | 23 +- R/updateRdwd.R | 9 - R/zzz.R | 8 README.md | 8 build/vignette.rds |binary data/fileIndex.rda |binary data/formatIndex.rda |binary data/geoIndex.rda |binary data/gridIndex.rda |binary data/metaIndex.rda |binary inst/doc/rdwd.html | 222 +------------------------ inst/extdata/DEU.rda |binary inst/extdata/EUR.rda |binary man/DEU.Rd | 17 + man/EUR.Rd | 3 man/addBorders.Rd | 3 man/createIndex.Rd | 3 man/dataDWD.Rd | 11 - man/dwdbase.Rd | 8 man/dwdparams.Rd | 2 man/fileType.Rd | 3 man/index.Rd | 2 man/indexFTP.Rd | 3 man/nearbyStations.Rd | 3 man/plotRadar.Rd | 6 man/projectRasterDWD.Rd | 7 man/rdwd.Rd | 3 man/readDWD.Rd | 2 man/readDWD.data.Rd | 8 man/readDWD.grib2.Rd |only man/readDWD.meta.Rd | 2 man/readDWD.multia.Rd | 2 man/readDWD.nc.Rd | 3 man/readDWD.radar.Rd | 13 - man/readDWD.raster.Rd | 2 man/readDWD.stand.Rd | 2 man/readVars.Rd | 9 - man/selectDWD.Rd | 2 man/updateIndexes.Rd | 8 man/updateRdwd.Rd | 2 59 files changed, 558 insertions(+), 709 deletions(-)
Title: Precision Based Sample Size Calculation
Description: Bland (2009) <doi:10.1136/bmj.b3985> recommended to
base study sizes on the width of the confidence interval rather the power of
a statistical test. The goal of 'presize' is to provide functions for such
precision based sample size calculations. For a given sample size, the
functions will return the precision (width of the confidence interval), and
vice versa.
Author: Armando Lenz [aut],
Alan G. Haynes [cre, aut],
Andreas Limacher [aut],
Odile Stalder [ctb]
Maintainer: Alan G. Haynes <alan.haynes@ctu.unibe.ch>
Diff between presize versions 0.1.3 dated 2020-09-02 and 0.2.3 dated 2021-04-08
presize-0.1.3/presize/inst/fig/scto_ctu_member_cmyk.jpg |only presize-0.2.3/presize/DESCRIPTION | 16 presize-0.2.3/presize/MD5 | 116 - presize-0.2.3/presize/NAMESPACE | 3 presize-0.2.3/presize/NEWS.md | 30 presize-0.2.3/presize/R/correlation_measures.R | 82 presize-0.2.3/presize/R/descriptive_stats.R | 99 - presize-0.2.3/presize/R/diagnostic.R | 59 presize-0.2.3/presize/R/differences.R | 180 +- presize-0.2.3/presize/R/helper_functions.R | 10 presize-0.2.3/presize/R/presize-package.R |only presize-0.2.3/presize/R/shinyApp.R | 19 presize-0.2.3/presize/build |only presize-0.2.3/presize/inst/extdata/baplotdata | 66 presize-0.2.3/presize/inst/fig/SCTO_Platform_Logo_2020_RZ_SM.jpg |only presize-0.2.3/presize/inst/fig/SCTO_Platform_Logo_2020_RZ_SM.png |only presize-0.2.3/presize/inst/shinyApp/app.R | 174 ++ presize-0.2.3/presize/inst/shinyApp/ui/00_helppage.R | 22 presize-0.2.3/presize/inst/shinyApp/ui/01_mean.R | 87 - presize-0.2.3/presize/inst/shinyApp/ui/02_proportion.R | 103 - presize-0.2.3/presize/inst/shinyApp/ui/03_rate.R | 115 - presize-0.2.3/presize/inst/shinyApp/ui/04_meandiff.R | 113 - presize-0.2.3/presize/inst/shinyApp/ui/05_riskdiff.R | 127 - presize-0.2.3/presize/inst/shinyApp/ui/06_oddsratio.R | 113 - presize-0.2.3/presize/inst/shinyApp/ui/07_riskratio.R | 113 - presize-0.2.3/presize/inst/shinyApp/ui/08_rateratio.R | 98 - presize-0.2.3/presize/inst/shinyApp/ui/09_corcoef.R | 96 - presize-0.2.3/presize/inst/shinyApp/ui/10_icc.R | 86 - presize-0.2.3/presize/inst/shinyApp/ui/11_limitagreement.R | 85 - presize-0.2.3/presize/inst/shinyApp/ui/12_cohenskappa.R | 103 - presize-0.2.3/presize/inst/shinyApp/ui/13_sensitivity.R | 16 presize-0.2.3/presize/inst/shinyApp/ui/14_specificity.R | 16 presize-0.2.3/presize/inst/shinyApp/ui/15_auc.R | 93 - presize-0.2.3/presize/inst/shinyApp/ui/16_lr.R | 115 - presize-0.2.3/presize/inst/shinyApp/ui/17_lrpos.R | 105 - presize-0.2.3/presize/inst/shinyApp/ui/18_lrneg.R | 105 - presize-0.2.3/presize/inst/shinyApp/ui/99_helpers.R | 118 - presize-0.2.3/presize/inst/shinyApp/www/SCTO_Platform_Logo_2020_RZ_SM.jpg |only presize-0.2.3/presize/man/figures |only presize-0.2.3/presize/man/launch_presize_app.Rd | 14 presize-0.2.3/presize/man/prec_auc.Rd | 96 - presize-0.2.3/presize/man/prec_cor.Rd | 18 presize-0.2.3/presize/man/prec_icc.Rd | 2 presize-0.2.3/presize/man/prec_kappa.Rd | 3 presize-0.2.3/presize/man/prec_lim_agree.Rd | 10 presize-0.2.3/presize/man/prec_lr.Rd | 2 presize-0.2.3/presize/man/prec_mean.Rd | 6 presize-0.2.3/presize/man/prec_meandiff.Rd | 3 presize-0.2.3/presize/man/prec_or.Rd | 20 presize-0.2.3/presize/man/prec_prop.Rd | 10 presize-0.2.3/presize/man/prec_rate.Rd | 14 presize-0.2.3/presize/man/prec_rateratio.Rd | 5 presize-0.2.3/presize/man/prec_riskdiff.Rd | 8 presize-0.2.3/presize/man/prec_riskratio.Rd | 156 - presize-0.2.3/presize/man/presize-package.Rd |only presize-0.2.3/presize/man/sensspec.Rd | 2 presize-0.2.3/presize/tests/presize.R | 8 presize-0.2.3/presize/tests/testthat/test-correlation_measures.R | 214 +- presize-0.2.3/presize/tests/testthat/test-descriptive_stats.R | 2 presize-0.2.3/presize/tests/testthat/test-diagnostic.R | 372 ++-- presize-0.2.3/presize/tests/testthat/test-differences.R | 848 +++++----- presize-0.2.3/presize/tests/testthat/test-helpers.R | 68 presize-0.2.3/presize/tests/testthat/test-vectorized.R |only 63 files changed, 2579 insertions(+), 1985 deletions(-)
Title: Dirichlet Process Bayesian Clustering, Profile Regression
Description: Bayesian clustering using a Dirichlet process mixture model. This model is an alternative to regression models, non-parametrically linking a response vector to covariate data through cluster membership. The package allows Bernoulli, Binomial, Poisson, Normal, survival and categorical response, as well as Normal and discrete covariates. It also allows for fixed effects in the response model, where a spatial CAR (conditional autoregressive) term can be also included. Additionally, predictions may be made for the response, and missing values for the covariates are handled. Several samplers and label switching moves are implemented along with diagnostic tools to assess convergence. A number of R functions for post-processing of the output are also provided. In addition to fitting mixtures, it may additionally be of interest to determine which covariates actively drive the mixture components. This is implemented in the package as variable selection. The main reference for the package is Liverani, Hastie, Azizi, Papathomas and Richardson (2015) <doi:10.18637/jss.v064.i07>.
Author: David I. Hastie, Silvia Liverani <liveranis@gmail.com> and Sylvia Richardson with contributions from Aurore J. Lavigne, Lucy Leigh, Lamiae Azizi, Xi Liu, Ruizhu Huang, Austin Gratton, Wei Jing
Maintainer: Silvia Liverani <liveranis@gmail.com>
Diff between PReMiuM versions 3.2.3 dated 2019-11-02 and 3.2.5 dated 2021-04-08
ChangeLog | 7 ++++++- DESCRIPTION | 14 +++++++------- MD5 | 11 ++++++----- NAMESPACE | 1 - R/generateData.R | 42 ++++++++++++++++++++++++++++++++++++++++++ inst/CITATION | 2 +- man/rALD.Rd |only 7 files changed, 62 insertions(+), 15 deletions(-)
Title: Calculate (Stratified) Percentiles
Description: Calculate (stratified) percentiles on a data.frame
Stratification will split the data.frame into subgroups and calculate percentiles for each independently.
Author: J. Peter Marquardt <peter@kmarquardt.de> [aut, cre]
Maintainer: J. Peter Marquardt <peter@kmarquardt.de>
Diff between percentiles versions 0.2.1 dated 2021-02-15 and 0.2.2 dated 2021-04-08
DESCRIPTION | 9 ++++----- MD5 | 10 +++++----- NAMESPACE | 1 + R/Stratified_percentile_calculator.R | 1 + R/calculate_percentiles.R | 8 ++++++-- man/calculate_stratified_percentiles.Rd | 7 +++++-- 6 files changed, 22 insertions(+), 14 deletions(-)
Title: Processing of Model Parameters
Description: Utilities for processing the parameters of various
statistical models. Beyond computing p values, CIs, and other indices
for a wide variety of models (see support list of insight; Lüdecke,
Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), this package
implements features like bootstrapping or simulating of parameters and
models, feature reduction (feature extraction and variable selection)
as well as functions to describe data and variable characteristics
(e.g. skewness, kurtosis, smoothness or distribution).
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>,
@strengejacke),
Dominique Makowski [aut] (<https://orcid.org/0000-0001-5375-9967>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [aut] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Søren Højsgaard [aut],
Zen J. Lau [ctb],
Vincent Arel-Bundock [ctb] (<https://orcid.org/0000-0003-1995-6531>,
@vincentab),
Jeffrey Girard [ctb] (<https://orcid.org/0000-0002-7359-3746>,
@jeffreymgirard)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between parameters versions 0.12.0 dated 2021-02-21 and 0.13.0 dated 2021-04-08
parameters-0.12.0/parameters/R/standardize_names.R |only parameters-0.13.0/parameters/DESCRIPTION | 37 parameters-0.13.0/parameters/MD5 | 388 ++-- parameters-0.13.0/parameters/NAMESPACE | 42 parameters-0.13.0/parameters/NEWS.md | 157 + parameters-0.13.0/parameters/R/1_model_parameters.R | 77 parameters-0.13.0/parameters/R/2_ci.R | 1 parameters-0.13.0/parameters/R/3_p_value.R | 1 parameters-0.13.0/parameters/R/5_simulate_model.R | 7 parameters-0.13.0/parameters/R/bootstrap_model-emmeans.R | 15 parameters-0.13.0/parameters/R/bootstrap_model.R | 38 parameters-0.13.0/parameters/R/bootstrap_parameters.R | 7 parameters-0.13.0/parameters/R/center.R | 6 parameters-0.13.0/parameters/R/check_factorstructure.R | 79 parameters-0.13.0/parameters/R/ci_kenward.R | 20 parameters-0.13.0/parameters/R/ci_ml1.R | 9 parameters-0.13.0/parameters/R/ci_profile_boot.R | 3 parameters-0.13.0/parameters/R/ci_wald.R | 1 parameters-0.13.0/parameters/R/compare_parameters.R | 32 parameters-0.13.0/parameters/R/describe_distribution.R | 45 parameters-0.13.0/parameters/R/display.R | 9 parameters-0.13.0/parameters/R/dof.R | 4 parameters-0.13.0/parameters/R/equivalence_test.R | 113 - 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Title: Datasets, Functions and Scripts for Semiparametric Regression
Supporting Harezlak, Ruppert & Wand (2018)
Description: The book "Semiparametric Regression with R" by J. Harezlak, D. Ruppert & M.P. Wand (2018, Springer; ISBN: 978-1-4939-8851-8) makes use of datasets and scripts to explain semiparametric regression concepts. Each of the book's scripts are contained in this package as well as datasets that are not within other R packages. Functions that aid semiparametric regression analysis are also included.
Author: Jaroslaw Harezlak [aut],
David Ruppert [aut],
Matt P. Wand [aut, cre]
Maintainer: Matt P. Wand <matt.wand@uts.edu.au>
Diff between HRW versions 1.0-3 dated 2019-02-11 and 1.0-4 dated 2021-04-08
HRW-1.0-3/HRW/data/datalist |only HRW-1.0-4/HRW/DESCRIPTION | 12 ++-- HRW-1.0-4/HRW/MD5 | 69 +++++++++++++--------------- HRW-1.0-4/HRW/data/BCR.rda |binary HRW-1.0-4/HRW/data/BanglaContrac.rda |binary HRW-1.0-4/HRW/data/BostonMortgages.rda |binary HRW-1.0-4/HRW/data/CHD.rda |binary HRW-1.0-4/HRW/data/SydneyRealEstate.rda |binary HRW-1.0-4/HRW/data/SydneyRealEstateBdry.rda |binary HRW-1.0-4/HRW/data/TreasuryRate.rda |binary HRW-1.0-4/HRW/data/UtahPEF.rda |binary HRW-1.0-4/HRW/data/WarsawApts.rda |binary HRW-1.0-4/HRW/data/brainImage.rda |binary HRW-1.0-4/HRW/data/capm.rda |binary HRW-1.0-4/HRW/data/carAuction.rda |binary HRW-1.0-4/HRW/data/coral.rda |binary HRW-1.0-4/HRW/data/femSBMD.rda |binary HRW-1.0-4/HRW/data/growthIndiana.rda |binary HRW-1.0-4/HRW/data/indonRespir.rda |binary HRW-1.0-4/HRW/data/lidar.rda |binary HRW-1.0-4/HRW/data/ozoneSub.rda |binary HRW-1.0-4/HRW/data/plankton.rda |binary HRW-1.0-4/HRW/data/protein.rda |binary HRW-1.0-4/HRW/data/ragweed.rda |binary HRW-1.0-4/HRW/data/scallop.rda |binary HRW-1.0-4/HRW/data/schoolResults.rda |binary HRW-1.0-4/HRW/data/yields.rda |binary HRW-1.0-4/HRW/demo/BostMortFacByCurv.R | 11 ++-- HRW-1.0-4/HRW/demo/BostMortGAMfit.R | 9 ++- HRW-1.0-4/HRW/demo/carAucRadialSVM.R | 4 - HRW-1.0-4/HRW/demo/ozoneAna.R | 2 HRW-1.0-4/HRW/man/BostonMortgages.Rd | 5 +- HRW-1.0-4/HRW/man/WarsawApts.Rd | 4 - HRW-1.0-4/HRW/man/carAuction.Rd | 4 - HRW-1.0-4/HRW/man/plankton.Rd | 2 HRW-1.0-4/HRW/man/ragweed.Rd | 2 36 files changed, 64 insertions(+), 60 deletions(-)
Title: Residual Diagnostics for Hierarchical (Multi-Level / Mixed)
Regression Models
Description: The 'DHARMa' package uses a simulation-based approach to create
readily interpretable scaled (quantile) residuals for fitted (generalized) linear mixed
models. Currently supported are linear and generalized linear (mixed) models from 'lme4'
(classes 'lmerMod', 'glmerMod'), 'glmmTMB' 'GLMMadaptive' and 'spaMM', generalized additive models
('gam' from 'mgcv'), 'glm' (including 'negbin' from 'MASS', but excluding quasi-distributions) and
'lm' model classes. Moreover, externally created simulations, e.g. posterior predictive simulations
from Bayesian software such as 'JAGS', 'STAN', or 'BUGS' can be processed as well.
The resulting residuals are standardized to values between 0 and 1 and can be interpreted
as intuitively as residuals from a linear regression. The package also provides a number of
plot and test functions for typical model misspecification problems, such as
over/underdispersion, zero-inflation, and residual spatial and temporal autocorrelation.
Author: Florian Hartig [aut, cre] (<https://orcid.org/0000-0002-6255-9059>),
Lukas Lohse [ctb]
Maintainer: Florian Hartig <florian.hartig@biologie.uni-regensburg.de>
Diff between DHARMa versions 0.4.0 dated 2021-03-28 and 0.4.1 dated 2021-04-08
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS | 8 ++++++++ R/simulateResiduals.R | 9 ++++++--- R/tests.R | 6 +++++- inst/doc/DHARMa.html | 8 ++++---- inst/doc/DHARMaForBayesians.html | 4 ++-- man/simulateResiduals.Rd | 2 +- 8 files changed, 37 insertions(+), 22 deletions(-)
Title: R Interface to 'FishBase'
Description: A programmatic interface to 'FishBase', re-written
based on an accompanying 'RESTful' API. Access tables describing over 30,000
species of fish, their biology, ecology, morphology, and more. This package also
supports experimental access to 'SeaLifeBase' data, which contains
nearly 200,000 species records for all types of aquatic life not covered by
'FishBase.'
Author: Carl Boettiger [cre, aut] (<https://orcid.org/0000-0002-1642-628X>),
Scott Chamberlain [aut] (<https://orcid.org/0000-0003-1444-9135>),
Duncan Temple Lang [aut],
Peter Wainwright [aut],
Kevin Cazelles [ctb] (<https://orcid.org/0000-0001-6619-9874>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between rfishbase versions 3.1.6 dated 2021-02-10 and 3.1.7 dated 2021-04-08
DESCRIPTION | 9 +++++---- MD5 | 22 +++++++++++----------- NAMESPACE | 2 +- NEWS.md | 5 +++++ R/00-endpoint.R | 4 ++-- R/load_taxa.R | 7 +++---- R/refs.R | 15 +++++---------- R/species.R | 3 --- R/synonyms.R | 14 +++++++++----- inst/doc/rfishbase.html | 9 ++++++++- tests/testthat/test-db_create.R | 2 +- tests/testthat/test_endpoint.R | 3 +++ 12 files changed, 53 insertions(+), 42 deletions(-)
Title: Learn Computer and Data Science using Algorithmic Trading
Description: Provide sets of functions and methods to learn and practice data science using idea of algorithmic trading.
Main goal is to process information within "Decision Support System" to come up with analysis or predictions.
There are several utilities such as dynamic and adaptive risk management using reinforcement learning
and even functions to generate predictions of price changes using pattern recognition deep regression learning.
Summary of Methods used: Awesome H2O tutorials: <https://github.com/h2oai/awesome-h2o>,
Market Type research of Van Tharp Institute: <https://www.vantharp.com/>,
Reinforcement Learning R package: <https://CRAN.R-project.org/package=ReinforcementLearning>.
Author: Vladimir Zhbanko
Maintainer: Vladimir Zhbanko <vladimir.zhbanko@gmail.com>
Diff between lazytrade versions 0.4.5 dated 2021-03-15 and 0.5.1 dated 2021-04-08
lazytrade-0.4.5/lazytrade/R/load_asset_data.R |only lazytrade-0.4.5/lazytrade/man/load_asset_data.Rd |only lazytrade-0.5.1/lazytrade/DESCRIPTION | 6 lazytrade-0.5.1/lazytrade/MD5 | 56 - lazytrade-0.5.1/lazytrade/NAMESPACE | 2 lazytrade-0.5.1/lazytrade/NEWS.md | 30 - lazytrade-0.5.1/lazytrade/R/aml_collect_data.R | 47 + lazytrade-0.5.1/lazytrade/R/aml_consolidate_results.R | 10 lazytrade-0.5.1/lazytrade/R/aml_make_model.R | 297 +++++++--- lazytrade-0.5.1/lazytrade/R/aml_score_data.R | 10 lazytrade-0.5.1/lazytrade/R/aml_simulation.R |only lazytrade-0.5.1/lazytrade/R/create_transposed_data.R | 2 lazytrade-0.5.1/lazytrade/R/mt_import_data.R | 2 lazytrade-0.5.1/lazytrade/R/mt_make_model.R | 2 lazytrade-0.5.1/lazytrade/R/mt_stat_evaluate.R | 2 lazytrade-0.5.1/lazytrade/R/opt_aggregate_results.R | 12 lazytrade-0.5.1/lazytrade/R/to_m.R | 3 lazytrade-0.5.1/lazytrade/README.md | 50 + lazytrade-0.5.1/lazytrade/inst/extdata/AI_RSIADXCADCHF60.csv |only lazytrade-0.5.1/lazytrade/inst/extdata/AI_RSIADXEURNZD60.csv |only lazytrade-0.5.1/lazytrade/man/aml_collect_data.Rd | 15 lazytrade-0.5.1/lazytrade/man/aml_consolidate_results.Rd | 1 lazytrade-0.5.1/lazytrade/man/aml_make_model.Rd | 98 ++- lazytrade-0.5.1/lazytrade/man/aml_score_data.Rd | 10 lazytrade-0.5.1/lazytrade/man/aml_simulation.Rd |only lazytrade-0.5.1/lazytrade/man/create_transposed_data.Rd | 2 lazytrade-0.5.1/lazytrade/man/mt_import_data.Rd | 2 lazytrade-0.5.1/lazytrade/man/mt_make_model.Rd | 2 lazytrade-0.5.1/lazytrade/man/mt_stat_evaluate.Rd | 4 lazytrade-0.5.1/lazytrade/man/opt_aggregate_results.Rd | 6 lazytrade-0.5.1/lazytrade/man/to_m.Rd | 3 lazytrade-0.5.1/lazytrade/tests/testthat/test-aml_collect_data.R | 8 32 files changed, 508 insertions(+), 174 deletions(-)
Title: Sub-National Geospatial Data Archive: Geoprocessing Toolkit
Description: Tools for integrating spatially-misaligned GIS datasets. Part of the Sub-National Geospatial Data Archive System (<https://www.nsf.gov/awardsearch/showAward?AWD_ID=1925693&HistoricalAwards=false>).
Author: Jason Byers, Marty Davidson, Yuri M. Zhukov
Maintainer: Yuri M. Zhukov <zhukov@umich.edu>
Diff between SUNGEO versions 0.2.1 dated 2021-02-10 and 0.2.22 dated 2021-04-08
DESCRIPTION | 12 ++--- MD5 | 36 +++++++++-------- NAMESPACE | 7 +++ R/data.R | 2 R/point2poly_krige.R |only R/point2poly_simp.R | 5 +- R/point2poly_tess.R | 16 +++---- R/poly2poly_ap.R | 6 +- R/utm_select.R | 85 +++++++++++++++++++++++++++++++----------- README.md | 93 ++++++++++++++++++++++++++++++++-------------- data/clea_deu2009.rda |binary data/clea_deu2009_df.rda |binary data/clea_deu2009_pt.rda |binary data/gpw4_deu2010.rda |binary data/hex_05_deu.rda |binary data/highways_deu1992.rda |binary man/highways_deu1992.Rd | 2 man/point2poly_krige.Rd |only man/point2poly_simp.Rd | 3 + man/utm_select.Rd | 4 - 20 files changed, 182 insertions(+), 89 deletions(-)
Title: Reproducible Retrieval of Pew Research Center Datasets
Description: Reproducible, programmatic retrieval of survey datasets from the
Pew Research Center.
Author: Frederick Solt [aut, cre],
Yue Hu [aut],
Eric Persson [ctb]
Maintainer: Frederick Solt <frederick-solt@uiowa.edu>
Diff between pewdata versions 0.3.1 dated 2020-02-05 and 0.3.2 dated 2021-04-08
DESCRIPTION | 12 +- MD5 | 18 +-- NEWS.md | 3 R/pew_download.R | 14 -- README.md | 4 build/vignette.rds |binary inst/doc/pewdata-vignette.Rmd | 4 inst/doc/pewdata-vignette.html | 231 +++++------------------------------------ man/pew_download.Rd | 15 +- vignettes/pewdata-vignette.Rmd | 4 10 files changed, 68 insertions(+), 237 deletions(-)
Title: Power and Sample Size for Health Researchers via Shiny
Description: Power and Sample Size for Health Researchers is a Shiny application that brings together a series of functions related to sample size and power calculations for common analysis in the healthcare field. There are functionalities to calculate the power, sample size to estimate or test hypotheses for means and proportions (including test for correlated groups, equivalence, non-inferiority and superiority), association, Pearson's correlation coefficient, regression coefficients (linear, logistic and Cox), linear mixed model, Cronbach's alpha, interobserver agreement, intraclass correlation coefficients, limit of agreement on Bland-Altman plots, area under the curve, sensitivity and specificity incorporating the prevalence of disease. You can also use the online version at <https://hcpa-unidade-bioestatistica.shinyapps.io/PSS_Health/>.
Author: Rogério Boff Borges [aut, cre]
(<https://orcid.org/0000-0002-2548-1889>),
Guilherme Serpa Azambuja [aut]
(<https://orcid.org/0000-0001-6246-4538>),
Aline Castello Branco Mancuso [aut]
(<https://orcid.org/0000-0001-6033-8335>),
Vanessa Bielefeldt Leotti [aut]
(<https://orcid.org/0000-0003-3860-9367>),
Vânia Naomi Hirakata [aut] (<https://orcid.org/0000-0003-4645-2080>),
Suzi Alves Camey [aut] (<https://orcid.org/0000-0002-5564-081X>),
Stela Maris de Jezus Castro [aut]
(<https://orcid.org/0000-0001-5862-6709>),
Hospital de Clínicas de Porto Alegre [fnd]
Maintainer: Rogério Boff Borges <roborges@hcpa.edu.br>
Diff between PSS.Health versions 0.1.5 dated 2020-11-30 and 0.1.6 dated 2021-04-08
PSS.Health-0.1.5/PSS.Health/R/help_buttom.R |only PSS.Health-0.1.5/PSS.Health/inst/PSS.Health/Markdown |only PSS.Health-0.1.5/PSS.Health/man/help_buttom.Rd |only PSS.Health-0.1.6/PSS.Health/DESCRIPTION | 28 PSS.Health-0.1.6/PSS.Health/MD5 | 25 PSS.Health-0.1.6/PSS.Health/NAMESPACE | 15 PSS.Health-0.1.6/PSS.Health/R/PSS_Health.R | 6 PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/global.R | 214 PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/server.R | 6123 +++++++++++++------ PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/ui.R | 3021 +++------ PSS.Health-0.1.6/PSS.Health/inst/PSS.Health/www |only 11 files changed, 5910 insertions(+), 3522 deletions(-)
Title: NEON Data Store
Description: The National Ecological Observatory Network (NEON) provides access
to its numerous data products through its REST API,
<https://data.neonscience.org/data-api/>. This package provides a
high-level user interface for downloading and storing NEON data products.
While each of NEON data products consist of hundreds or thousands of individual
files. Unlike 'neonUtilities', this package will avoid repeated downloading,
provides persistent storage, and improves performance. 'neonstore' can also
construct a local 'duckdb' database of stacked tables, making it possible
to work with tables that are far to big to fit into memory.
Author: Carl Boettiger [aut, cre] (<https://orcid.org/0000-0002-1642-628X>),
Quinn Thomas [aut] (<https://orcid.org/0000-0003-1282-7825>),
Christine Laney [aut] (<https://orcid.org/0000-0002-4944-2083>),
Claire Lunch [aut] (<https://orcid.org/0000-0001-8753-6593>),
Noam Ross [ctb] (<https://orcid.org/0000-0002-2136-0000>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between neonstore versions 0.4.0 dated 2021-03-08 and 0.4.2 dated 2021-04-08
DESCRIPTION | 16 +++---- MD5 | 24 +++++------ NAMESPACE | 2 NEWS.md | 9 ++++ R/neon_data.R | 1 R/neon_download.R | 4 - R/neon_filename_parser.R | 6 +- R/neon_sites.R | 2 R/neon_store.R | 79 ++++++++++++++++++++++++------------- R/utilities.R | 5 +- README.md | 83 +++++++++++++++++++++++++++++++++++++++ inst/WORDLIST | 1 tests/testthat/test-additional.R | 10 ++-- 13 files changed, 179 insertions(+), 63 deletions(-)
Title: Genomic Annotation in Livestock for Positional Candidate LOci
Description: The accurate annotation of genes and Quantitative Trait Loci (QTLs) located within candidate markers and/or regions (haplotypes, windows, CNVs, etc) is a crucial step the most common genomic analyses performed in livestock, such as Genome-Wide Association Studies or transcriptomics. The Genomic Annotation in Livestock for positional candidate LOci (GALLO) is an R package designed to provide an intuitive and straightforward environment to annotate positional candidate genes and QTLs from high-throughput genetic studies in livestock. Moreover, GALLO allows the graphical visualization of gene and QTL annotation results, data comparison among different grouping factors (e.g., methods, breeds, tissues, statistical models, studies, etc.), and QTL enrichment in different livestock species including cattle, pigs, sheep, and chicken, among others.
Author: Pablo Fonseca [aut, cre],
Aroa Suarez-Vega [aut],
Gabriele Marras [aut],
Angela Cánovas [aut]
Maintainer: Pablo Fonseca <pfonseca@uoguelph.ca>
Diff between GALLO versions 1.1 dated 2020-11-06 and 1.2 dated 2021-04-08
DESCRIPTION | 15 +++++++-------- MD5 | 18 ++++++++++-------- NEWS | 10 +++++++++- R/QTLmarkers.R | 2 +- R/QTLwindows.R | 2 +- R/splitQTL_comment.R | 4 ++-- build/partial.rdb |only inst/CITATION |only inst/doc/GALLO.html | 32 ++++++++++++++++---------------- man/QTLmarkers.Rd | 2 +- man/QTLwindows.Rd | 2 +- 11 files changed, 48 insertions(+), 39 deletions(-)
Title: Boxplots for Directional Data
Description: Functions for drawing boxplots for data on (the boundary of) a unit circle (i.e., circular and axial data), from Buttarazzi D., Pandolfo G., Porzio G.C. (2018) <doi:10.1111/biom.12889>.
Author: Davide Buttarazzi [aut, cre]
Maintainer: Davide Buttarazzi <davidebuttarazzi@outlook.com>
Diff between bpDir versions 0.1.1 dated 2020-05-06 and 0.1.2 dated 2021-04-08
DESCRIPTION | 9 ++++----- MD5 | 6 +++--- R/CircularBoxplot.R | 15 +++++++++++++-- man/CircularBoxplot.Rd | 2 ++ 4 files changed, 22 insertions(+), 10 deletions(-)
Title: Facilities for Simulating from ODE-Based Models
Description: Facilities for running simulations from ordinary
differential equation ('ODE') models, such as pharmacometrics and other
compartmental models. A compilation manager translates the ODE model
into C, compiles it, and dynamically loads the object code into R for
improved computational efficiency. An event table object facilitates
the specification of complex dosing regimens (optional) and sampling
schedules. NB: The use of this package requires both C and
Fortran compilers, for details on their use with R please see
Section 6.3, Appendix A, and Appendix D in the "R Administration and
Installation" manual. Also the code is mostly released under GPL. The
'VODE' and 'LSODA' are in the public domain. The information is available
in the inst/COPYRIGHTS.
Author: Matthew L. Fidler [aut] (<https://orcid.org/0000-0001-8538-6691>),
Melissa Hallow [aut],
Wenping Wang [aut, cre],
Zufar Mulyukov [ctb],
Alan Hindmarsh [ctb],
Awad H. Al-Mohy [ctb],
Matt Dowle [ctb],
Cleve Moler [ctb],
David Cooley [ctb],
Daniel C. Dillon [ctb],
Drew Schmidt [ctb],
Arun Srinivasan [ctb],
Ernst Hairer [ctb],
Gerhard Wanner [ctb],
Goro Fuji [ctb],
Hadley Wickham [ctb],
Jack Dongarra [ctb],
Linda Petzold [ctb],
Martin Maechler [ctb],
Matteo Fasiolo [ctb],
Morwenn [ctb],
Nicholas J. Higham [ctb],
Roger B. Sidje [ctb],
Simon Frost [ctb],
Kevin Ushey [ctb],
Yu Feng [ctb]
Maintainer: Wenping Wang <wwang8198@gmail.com>
Diff between RxODE versions 1.0.6 dated 2021-03-21 and 1.0.7 dated 2021-04-08
RxODE-1.0.6/RxODE/inst/doc/RxODE-syntax.R |only RxODE-1.0.7/RxODE/DESCRIPTION | 14 RxODE-1.0.7/RxODE/MD5 | 21 RxODE-1.0.7/RxODE/NEWS.md | 8 RxODE-1.0.7/RxODE/R/RxODE_md5.R | 2 RxODE-1.0.7/RxODE/R/rxode-options.R | 13 RxODE-1.0.7/RxODE/build/partial.rdb |binary RxODE-1.0.7/RxODE/build/vignette.rds |binary RxODE-1.0.7/RxODE/inst/doc/RxODE-syntax.Rmd | 6 RxODE-1.0.7/RxODE/inst/doc/RxODE-syntax.html | 3181 --------------------------- RxODE-1.0.7/RxODE/src/ode.h | 4 RxODE-1.0.7/RxODE/vignettes/RxODE-syntax.Rmd | 6 12 files changed, 56 insertions(+), 3199 deletions(-)
Title: R Speaks 'Simulx'
Description: Provide useful tools which supplement the use of Simulx software and R connectors (Monolix Suite). 'Simulx' is an easy, efficient and flexible application for clinical trial simulations. You need 'Simulx' software to be installed in order to use 'RsSimulx' package. Among others tasks, 'RsSimulx' provides the same functions as package 'mlxR' does with a compatibility with 'Simulx' software.
Author: Clemence Pinaud [aut, cre],
Jonathan Chauvin [aut],
Marc Lavielle [ctb]
Maintainer: Clemence Pinaud <clemence.pinaud@lixoft.com>
Diff between RsSimulx versions 1.0.0 dated 2021-01-21 and 1.0.1 dated 2021-04-08
RsSimulx-1.0.0/RsSimulx/R/smlx-connectors.R |only RsSimulx-1.0.0/RsSimulx/R/smlx-init.R |only RsSimulx-1.0.0/RsSimulx/man/initRssimulx.Rd |only RsSimulx-1.0.1/RsSimulx/DESCRIPTION | 12 RsSimulx-1.0.1/RsSimulx/MD5 | 50 RsSimulx-1.0.1/RsSimulx/NAMESPACE | 2 RsSimulx-1.0.1/RsSimulx/R/apiManager.R |only RsSimulx-1.0.1/RsSimulx/R/apiTools.R |only RsSimulx-1.0.1/RsSimulx/R/exposure.R | 13 RsSimulx-1.0.1/RsSimulx/R/prctilemlx.R | 13 RsSimulx-1.0.1/RsSimulx/R/simpop.R | 115 + RsSimulx-1.0.1/RsSimulx/R/simulxR.R | 310 ++-- RsSimulx-1.0.1/RsSimulx/R/smlx-checks.R | 140 +- RsSimulx-1.0.1/RsSimulx/R/smlx-data.R |only RsSimulx-1.0.1/RsSimulx/R/smlx-project.R |only RsSimulx-1.0.1/RsSimulx/R/smlx-tools.R | 838 +++++++------ RsSimulx-1.0.1/RsSimulx/R/statmlx.R | 14 RsSimulx-1.0.1/RsSimulx/R/utils.R | 154 -- RsSimulx-1.0.1/RsSimulx/R/writeData.R | 76 - RsSimulx-1.0.1/RsSimulx/R/zzz.R | 20 RsSimulx-1.0.1/RsSimulx/man/initRsSimulx.Rd |only RsSimulx-1.0.1/RsSimulx/man/lixoft.read.table.Rd | 2 RsSimulx-1.0.1/RsSimulx/man/read.vector.Rd | 2 RsSimulx-1.0.1/RsSimulx/man/simpopmlx.Rd | 5 RsSimulx-1.0.1/RsSimulx/man/simulx.Rd | 1 RsSimulx-1.0.1/RsSimulx/tests/testthat/test-demos.R | 52 RsSimulx-1.0.1/RsSimulx/tests/testthat/test-initRssimulx.R |only RsSimulx-1.0.1/RsSimulx/tests/testthat/test-prcilemlx.R |only RsSimulx-1.0.1/RsSimulx/tests/testthat/test-simpop.R | 238 ++- RsSimulx-1.0.1/RsSimulx/tests/testthat/test-simulation.R | 578 ++++++++ RsSimulx-1.0.1/RsSimulx/tests/testthat/test-writedata.R | 252 +++ 31 files changed, 1950 insertions(+), 937 deletions(-)
Title: Rare Variant Analysis and Genetic Simulations
Description: Rare variant association tests: burden tests (Bocher et al. 2019 <doi:10.1002/gepi.22210>) and the Sequence Kernel Association Test (Bocher et al. 2021 <doi:10.1038/s41431-020-00792-8>); and genetic simulations.
Author: Ozvan Bocher and Hervé Perdry
Maintainer: Ozvan Bocher <bocherozvan@gmail.com>
Diff between Ravages versions 0.1.2 dated 2021-03-16 and 0.1.3 dated 2021-04-08
DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- R/burden_mlogit.r | 2 +- inst/doc/Ravages_Simulations_vignette.html | 2 +- inst/doc/Ravages_vignette.html | 10 +++++----- 5 files changed, 17 insertions(+), 16 deletions(-)
Title: Template Model Builder: A General Random Effect Tool Inspired by
'ADMB'
Description: With this tool, a user should be able to quickly implement
complex random effect models through simple C++ templates. The package combines
'CppAD' (C++ automatic differentiation), 'Eigen' (templated matrix-vector
library) and 'CHOLMOD' (sparse matrix routines available from R) to obtain
an efficient implementation of the applied Laplace approximation with exact
derivatives. Key features are: Automatic sparseness detection, parallelism
through 'BLAS' and parallel user templates.
Author: Kasper Kristensen [aut, cre, cph],
Brad Bell [cph],
Hans Skaug [ctb],
Arni Magnusson [ctb],
Casper Berg [ctb],
Anders Nielsen [ctb],
Martin Maechler [ctb],
Theo Michelot [ctb],
Mollie Brooks [ctb],
Alex Forrence [ctb],
Christoffer Moesgaard Albertsen [ctb],
Cole Monnahan [ctb]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between TMB versions 1.7.19 dated 2021-02-05 and 1.7.20 dated 2021-04-08
DESCRIPTION | 8 ++-- MD5 | 10 ++--- NEWS | 10 +++++ R/TMB.R | 16 +++++--- inst/include/tiny_ad/tiny_ad/tiny_ad.hpp | 56 ++++++++++++++----------------- src/solve_subset.c | 2 - 6 files changed, 57 insertions(+), 45 deletions(-)
Title: Computer Algebra
Description: Computer algebra via the 'SymPy' library (<https://www.sympy.org/>).
This makes it possible to solve equations symbolically,
find symbolic integrals, symbolic sums and other important quantities.
Author: Mikkel Meyer Andersen [aut, cre, cph],
Søren Højsgaard [aut, cph]
Maintainer: Mikkel Meyer Andersen <mikl@math.aau.dk>
Diff between caracas versions 1.0.0 dated 2020-05-21 and 1.1.0 dated 2021-04-08
caracas-1.0.0/caracas/R/as_symbol.R |only caracas-1.0.0/caracas/inst/doc/naive-bayes.R |only caracas-1.0.0/caracas/inst/doc/naive-bayes.Rmd |only caracas-1.0.0/caracas/inst/doc/naive-bayes.html |only caracas-1.0.0/caracas/man/as_r.Rd |only caracas-1.0.0/caracas/man/as_symbol.Rd |only caracas-1.0.0/caracas/man/determinant.caracas_symbol.Rd |only caracas-1.0.0/caracas/man/eigen_val.Rd |only caracas-1.0.0/caracas/man/eigen_vec.Rd |only caracas-1.0.0/caracas/man/grapes-times-grapes-.caracas_symbol.Rd |only caracas-1.0.0/caracas/man/grapes-times-grapes.Rd |only caracas-1.0.0/caracas/man/have_sympy.Rd |only caracas-1.0.0/caracas/man/intf.Rd |only caracas-1.0.0/caracas/man/inv.Rd |only caracas-1.0.0/caracas/man/limf.Rd |only caracas-1.0.0/caracas/man/prodf.Rd |only caracas-1.0.0/caracas/man/sumf.Rd |only caracas-1.0.0/caracas/tests/testthat/test-as_r.R |only caracas-1.0.0/caracas/tests/testthat/test-as_symbol.R |only caracas-1.0.0/caracas/vignettes/naive-bayes.Rmd |only caracas-1.1.0/caracas/DESCRIPTION | 14 caracas-1.1.0/caracas/MD5 | 191 +- caracas-1.1.0/caracas/NAMESPACE | 57 caracas-1.1.0/caracas/NEWS.md | 23 caracas-1.1.0/caracas/R/Ops-math.R | 132 + caracas-1.1.0/caracas/R/as_sym.R |only caracas-1.1.0/caracas/R/assumptions.R |only caracas-1.1.0/caracas/R/calculus.R | 150 + caracas-1.1.0/caracas/R/coerce.R |only caracas-1.1.0/caracas/R/def_sym.R |only caracas-1.1.0/caracas/R/init.R | 65 caracas-1.1.0/caracas/R/lin-alg-advanced.R |only caracas-1.1.0/caracas/R/lin-alg.R | 381 ++-- caracas-1.1.0/caracas/R/matrix-symbol.R |only caracas-1.1.0/caracas/R/numeric_eval.R |only caracas-1.1.0/caracas/R/output.R | 30 caracas-1.1.0/caracas/R/parse_python.R | 29 caracas-1.1.0/caracas/R/simplify.R | 2 caracas-1.1.0/caracas/R/solve.R | 43 caracas-1.1.0/caracas/R/subset.R | 22 caracas-1.1.0/caracas/R/symbol.R | 348 +++ caracas-1.1.0/caracas/R/vector.R | 8 caracas-1.1.0/caracas/R/zzz.R |only caracas-1.1.0/caracas/README.md | 25 caracas-1.1.0/caracas/build/vignette.rds |binary caracas-1.1.0/caracas/inst/define_printers.py |only caracas-1.1.0/caracas/inst/doc/ar-ssm.R |only caracas-1.1.0/caracas/inst/doc/ar-ssm.Rmd |only caracas-1.1.0/caracas/inst/doc/ar-ssm.html |only caracas-1.1.0/caracas/inst/doc/arbitrary-precision-arithmetic.R |only caracas-1.1.0/caracas/inst/doc/arbitrary-precision-arithmetic.Rmd |only caracas-1.1.0/caracas/inst/doc/arbitrary-precision-arithmetic.html |only caracas-1.1.0/caracas/inst/doc/fastest-route.R | 20 caracas-1.1.0/caracas/inst/doc/fastest-route.Rmd | 28 caracas-1.1.0/caracas/inst/doc/fastest-route.html | 33 caracas-1.1.0/caracas/inst/doc/introduction.R | 11 caracas-1.1.0/caracas/inst/doc/introduction.Rmd | 11 caracas-1.1.0/caracas/inst/doc/introduction.html | 54 caracas-1.1.0/caracas/inst/doc/linear-algebra.R |only caracas-1.1.0/caracas/inst/doc/linear-algebra.Rmd |only caracas-1.1.0/caracas/inst/doc/linear-algebra.html |only caracas-1.1.0/caracas/inst/doc/reference.R | 136 - caracas-1.1.0/caracas/inst/doc/reference.Rmd | 162 + caracas-1.1.0/caracas/inst/doc/reference.html | 948 +++++----- caracas-1.1.0/caracas/inst/doc/sympy-object.R | 4 caracas-1.1.0/caracas/inst/doc/sympy-object.Rmd | 4 caracas-1.1.0/caracas/inst/doc/sympy-object.html | 75 caracas-1.1.0/caracas/man/N.Rd |only caracas-1.1.0/caracas/man/as.character.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/as_character_matrix.Rd | 8 caracas-1.1.0/caracas/man/as_diag.Rd |only caracas-1.1.0/caracas/man/as_expr.Rd |only caracas-1.1.0/caracas/man/as_sym.Rd |only caracas-1.1.0/caracas/man/ask.Rd |only caracas-1.1.0/caracas/man/def_sym.Rd |only caracas-1.1.0/caracas/man/der.Rd | 25 caracas-1.1.0/caracas/man/der2.Rd | 12 caracas-1.1.0/caracas/man/diag-set-.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/diag-set.Rd | 3 caracas-1.1.0/caracas/man/diag_.Rd |only caracas-1.1.0/caracas/man/do_la.Rd |only caracas-1.1.0/caracas/man/doit.Rd | 4 caracas-1.1.0/caracas/man/drop_remainder.Rd |only caracas-1.1.0/caracas/man/eval_to_symbol.Rd | 4 caracas-1.1.0/caracas/man/expand_log.Rd | 2 caracas-1.1.0/caracas/man/fraction_parts.Rd |only caracas-1.1.0/caracas/man/get_py.Rd |only caracas-1.1.0/caracas/man/get_sympy.Rd | 2 caracas-1.1.0/caracas/man/has_sympy.Rd |only caracas-1.1.0/caracas/man/int.Rd |only caracas-1.1.0/caracas/man/lim.Rd |only caracas-1.1.0/caracas/man/linalg.Rd |only caracas-1.1.0/caracas/man/listify.Rd |only caracas-1.1.0/caracas/man/matrify.Rd |only caracas-1.1.0/caracas/man/matrix-products.Rd |only caracas-1.1.0/caracas/man/matrix_.Rd |only caracas-1.1.0/caracas/man/pipe.Rd |only caracas-1.1.0/caracas/man/prod_.Rd |only caracas-1.1.0/caracas/man/reciprocal_matrix.Rd |only caracas-1.1.0/caracas/man/solve_sys.Rd | 16 caracas-1.1.0/caracas/man/sub-.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/subs.Rd | 8 caracas-1.1.0/caracas/man/subs_lst.Rd | 12 caracas-1.1.0/caracas/man/subs_vec.Rd |only caracas-1.1.0/caracas/man/subset-.caracas_symbol.Rd | 4 caracas-1.1.0/caracas/man/sum_.Rd |only caracas-1.1.0/caracas/man/symbol.Rd | 20 caracas-1.1.0/caracas/man/sympy_func.Rd |only caracas-1.1.0/caracas/man/sympy_version.Rd | 2 caracas-1.1.0/caracas/man/taylor.Rd |only caracas-1.1.0/caracas/man/tuplify.Rd |only caracas-1.1.0/caracas/man/unbracket.Rd |only caracas-1.1.0/caracas/man/vec.Rd |only caracas-1.1.0/caracas/tests/testthat.R | 9 caracas-1.1.0/caracas/tests/testthat/helper-skip.R | 2 caracas-1.1.0/caracas/tests/testthat/test-as_expr.R |only caracas-1.1.0/caracas/tests/testthat/test-as_sym.R |only caracas-1.1.0/caracas/tests/testthat/test-assumptions.R |only caracas-1.1.0/caracas/tests/testthat/test-calculus.R | 100 - caracas-1.1.0/caracas/tests/testthat/test-def_sym.R |only caracas-1.1.0/caracas/tests/testthat/test-linalg.R | 151 + caracas-1.1.0/caracas/tests/testthat/test-numeric_eval.R |only caracas-1.1.0/caracas/tests/testthat/test-output.R | 55 caracas-1.1.0/caracas/tests/testthat/test-solve.R | 81 caracas-1.1.0/caracas/tests/testthat/test-subset.R | 44 caracas-1.1.0/caracas/tests/testthat/test-symbol.R | 102 + caracas-1.1.0/caracas/tests/testthat/test-vector.R | 16 caracas-1.1.0/caracas/vignettes/ar-ssm.Rmd |only caracas-1.1.0/caracas/vignettes/arbitrary-precision-arithmetic.Rmd |only caracas-1.1.0/caracas/vignettes/fastest-route.Rmd | 28 caracas-1.1.0/caracas/vignettes/introduction.Rmd | 11 caracas-1.1.0/caracas/vignettes/linear-algebra.Rmd |only caracas-1.1.0/caracas/vignettes/reference.Rmd | 162 + caracas-1.1.0/caracas/vignettes/sympy-object.Rmd | 4 134 files changed, 2707 insertions(+), 1198 deletions(-)
Title: Compute Wasserstein Barycenters, Geodesics, PCA and Distances
Description: Includes a variety of methods to compute objects related to the 'Wasserstein distance' (also known as 'Kantorovich distance' or 'Earth-Mover distance'). The main effort of this package is to allow for computations of 'Wasserstein barycenter' using regularised, unregularised and stochastic methods. It also provides convenient wrappers to call the 'transport' package with more general inputs. Handy visual tools are provided to showcase, barycenters, animations of optimal transport geodesics and animations of principal components in the 'Wasserstein space'.
Author: Florian Heinemann [aut, cre], Nicholas Bonneel [ctb]
Maintainer: Florian Heinemann <florian.heinemann@uni-goettingen.de>
Diff between WSGeometry versions 1.0 dated 2021-01-05 and 1.1 dated 2021-04-08
DESCRIPTION | 15 +++++++-------- MD5 | 14 +++++++------- NAMESPACE | 1 - R/barycenter_lp.R | 15 ++++++++++++++- R/import_packages.R | 4 ++-- R/multimarginal_LP.R | 14 +++++++++++++- src/RcppExports.cpp | 4 ++-- src/iterative_bary.cpp | 5 ++++- 8 files changed, 49 insertions(+), 23 deletions(-)
Title: Difference Benchmarking for Multivariate Small Area Estimation
Description: Implements Benchmarking Method for Multivariate Small Area Estimation under Fay Herriot Model. Multivariate Small Area Estimation (MSAE) is a development of Univariate Small Area Estimation that considering the correlation among response variables and borrowing the strength from related areas and auxiliary variables to increase the effectiveness of sample size, the multivariate model in this package is based on multivariate model 1 proposed by Roberto Benavent and Domingo Morales (2016) <doi:10.1016/j.csda.2015.07.013>. Benchmarking in Small Area Estimation is a modification of Small Area Estimation model to guarantee that the aggregate weighted mean of the county predictors equals the corresponding weighted mean of survey estimates. Difference Benchmarking is the simplest benchmarking method but widely used by multiplying empirical best linear unbiased prediction (EBLUP) estimator by the common adjustment factors (J.N.K Rao and Isabel Molina, 2015).
Author: Zaza Yuda Perwira, Azka Ubaidillah
Maintainer: Zaza Yuda Perwira <221710086@stis.ac.id>
Diff between msaeDB versions 0.2.0 dated 2021-03-30 and 0.2.1 dated 2021-04-08
DESCRIPTION | 6 ++--- MD5 | 32 ++++++++++++++--------------- R/datamsaeDBns.R | 3 +- R/msaedbns.R | 23 +++++++-------------- R/msaefhns.R | 2 + R/saedb.R | 8 +++++++ R/saedbns.R | 48 ++++++++++++++++++++++++++------------------ R/saefh.R | 3 ++ R/saefhns.R | 7 ++++++ inst/doc/Zaza_vignette.html | 9 +++++++- man/datamsaeDBns.Rd | 3 +- man/msaedbns.Rd | 3 ++ man/msaefhns.Rd | 2 + man/saedb.Rd | 8 +++++++ man/saedbns.Rd | 7 ++++++ man/saefh.Rd | 3 ++ man/saefhns.Rd | 7 ++++++ 17 files changed, 118 insertions(+), 56 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-21 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-04 0.1.1
2020-06-29 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-27 3.1.0
2016-06-16 3.0
2015-03-08 2.0
2014-12-02 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-02-13 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-10-10 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-31 1.0.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-12-14 1.0.2
2016-03-28 1.0.1
2016-01-25 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-10-14 0.99.3
2016-11-21 0.99.2
2016-08-31 0.99.1
Title: Population and Evolutionary Genetics Analysis System
Description: Functions for reading, writing, plotting, analysing, and manipulating allelic and haplotypic data, including from VCF files, and for the analysis of population nucleotide sequences and micro-satellites including coalescent analyses, linkage disequilibrium, population structure (Fst, Amova) and equilibrium (HWE), haplotype networks, minimum spanning tree and network, and median-joining networks.
Author: Emmanuel Paradis [aut, cre, cph]
(<https://orcid.org/0000-0003-3092-2199>),
Thibaut Jombart [aut, cph] (<https://orcid.org/0000-0003-2226-8692>),
Zhian N. Kamvar [aut, cph] (<https://orcid.org/0000-0003-1458-7108>),
Brian Knaus [aut, cph] (<https://orcid.org/0000-0003-1665-4343>),
Klaus Schliep [aut, cph] (<https://orcid.org/0000-0003-2941-0161>),
Alastair Potts [aut, cph] (<https://orcid.org/0000-0003-0919-7279>),
David Winter [aut, cph] (<https://orcid.org/0000-0002-6165-0029>)
Maintainer: Emmanuel Paradis <Emmanuel.Paradis@ird.fr>
Diff between pegas versions 0.14 dated 2020-09-16 and 1.0 dated 2021-04-08
DESCRIPTION | 16 MD5 | 84 ++--- NAMESPACE | 36 +- NEWS | 74 ++++ R/Fst.R | 12 R/IO.R | 71 ++++ R/allelicrichness.R | 18 - R/conversion.R | 10 R/dist.asd.R | 10 R/geo.R | 6 R/haplotype.R | 684 ++++++++++++++++++++++++++++++++++------- R/mjn.R | 78 ++-- R/options_themes_haploNet.R |only R/zzz.R | 34 +- build/partial.rdb |only build/vignette.rds |binary inst/doc/PlotHaploNet.R |only inst/doc/PlotHaploNet.Rnw |only inst/doc/PlotHaploNet.pdf |only inst/doc/ReadingFiles.R | 24 - inst/doc/ReadingFiles.Rnw | 17 - inst/doc/ReadingFiles.pdf |binary man/F234.Rd | 6 man/Fst.Rd | 4 man/LDscan.Rd | 2 man/allelicrichness.Rd | 6 man/by.loci.Rd | 2 man/conversion.Rd | 1 man/cophenetic.haploNet.Rd |only man/diffHaplo.Rd | 13 man/dist.asd.Rd | 6 man/haploNet.Rd | 13 man/haplotype.Rd | 2 man/haplotype.loci.Rd | 4 man/heterozygosity.Rd | 2 man/jaguar.Rd | 2 man/mjn.Rd | 42 +- man/mst.Rd | 20 + man/mutations.Rd |only man/options_themes_haploNet.Rd |only man/read.vcf.Rd | 14 man/replot.Rd | 8 man/theta.msat.Rd | 7 src/pegas.c | 184 ++++++++++- vignettes/PlotHaploNet.Rnw |only vignettes/ReadingFiles.Rnw | 17 - vignettes/ape.sty |only vignettes/pegas.bib | 53 +++ 48 files changed, 1257 insertions(+), 325 deletions(-)
Title: Importing and Analysing SNP and Silicodart Data Generated by
Genome-Wide Restriction Fragment Analysis
Description: Functions are provided that facilitate the import and analysis of
SNP (single nucleotide polymorphism) and silicodart (presence/absence) data. The main focus is on data generated
by DarT (Diversity Arrays Technology). However, once SNP or related fragment
presence/absence data from any source is imported into a genlight object many
of the functions can be used. Functions are available for input and output of
SNP and silicodart data, for reporting on and filtering on various criteria
(e.g. CallRate, Heterozygosity, Reproducibility, maximum allele frequency).
Advanced filtering is based on Linkage Disequilibrium and HWE (Hardy-Weinberg equilibrium). Other functions
are available for visualization after PCoA (Principle Coordinate Analysis), or to facilitate transfer of data
between genlight/genind objects and newhybrids, related, phylip, structure, faststructure packages.
Author: Bernd Gruber [aut, cre],
Arthur Georges [aut],
Jose L. Mijangos [aut],
Peter J. Unmack [ctb],
Oliver Berry [ctb],
Lindsay V. Clark [ctb],
Floriaan Devloo-Delva [ctb]
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Diff between dartR versions 1.9.1 dated 2021-04-03 and 1.9.4 dated 2021-04-08
DESCRIPTION | 14 ++--- MD5 | 37 +++++++------ NAMESPACE | 10 ++- R/datasets.r | 2 R/gi2gl.R | 9 ++- R/gl.genleastcost.r | 1 R/gl.grm.network.r | 2 R/gl.install.vanilla.dartR.r |only R/gl.pcoa.plot.3d.r | 6 +- R/gl.percent.freq.r | 81 ++++++++++++++++------------- R/gl.report.ld.r | 15 ++--- R/zzz.r |only inst/doc/IntroTutorial_dartR.pdf |binary inst/doc/dartRTutorials.pdf |binary man/gi2gl.Rd | 4 - man/gl.filter.locmetric.Rd | 106 +++++++++++++++++++------------------- man/gl.install.vanilla.dartR.Rd |only man/gl.report.ld.Rd | 3 + man/gl.report.locmetric.Rd | 108 +++++++++++++++++++-------------------- man/gl2hiphop.Rd | 60 ++++++++++----------- man/platy.Rd | 2 21 files changed, 245 insertions(+), 215 deletions(-)
Title: Understand and Describe Bayesian Models and Posterior
Distributions
Description: Provides utilities to describe posterior
distributions and Bayesian models. It includes point-estimates such as
Maximum A Posteriori (MAP), measures of dispersion (Highest Density
Interval - HDI; Kruschke, 2015 <doi:10.1016/C2012-0-00477-2>) and
indices used for null-hypothesis testing (such as ROPE percentage, pd
and Bayes factors).
Author: Dominique Makowski [aut, cre] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Mattan S. Ben-Shachar [aut] (<https://orcid.org/0000-0002-4287-4801>),
Indrajeet Patil [aut] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Michael D. Wilson [aut] (<https://orcid.org/0000-0003-4143-7308>),
Paul-Christian Bürkner [rev],
Tristan Mahr [rev] (<https://orcid.org/0000-0002-8890-5116>),
Henrik Singmann [ctb] (<https://orcid.org/0000-0002-4842-3657>),
Quentin F. Gronau [ctb] (<https://orcid.org/0000-0001-5510-6943>),
Sam Crawley [ctb] (<https://orcid.org/0000-0002-7847-0411>)
Maintainer: Dominique Makowski <dom.makowski@gmail.com>
Diff between bayestestR versions 0.8.2 dated 2021-01-26 and 0.9.0 dated 2021-04-08
bayestestR-0.8.2/bayestestR/R/mhdior.R |only bayestestR-0.8.2/bayestestR/R/print.bayesfactor_inclusion.R |only bayestestR-0.8.2/bayestestR/R/print.bayesfactor_parameters.R |only bayestestR-0.8.2/bayestestR/R/print.bayesfactor_restricted.R |only bayestestR-0.8.2/bayestestR/R/print.ci.R |only bayestestR-0.8.2/bayestestR/R/print.describe_posterior.R |only bayestestR-0.8.2/bayestestR/R/print.map_estimate.R |only bayestestR-0.8.2/bayestestR/R/print.mhdior.R |only bayestestR-0.8.2/bayestestR/R/print.p_direction.R |only bayestestR-0.8.2/bayestestR/R/print.p_map.R |only bayestestR-0.8.2/bayestestR/R/print.p_rope.R |only bayestestR-0.8.2/bayestestR/R/print.p_significance.R |only bayestestR-0.8.2/bayestestR/R/print.point_estimate.R |only bayestestR-0.8.2/bayestestR/R/reshape_ci.R |only bayestestR-0.8.2/bayestestR/R/utils_get_parameter_names.R |only bayestestR-0.8.2/bayestestR/inst/doc/indicesEstimationComparison.R |only bayestestR-0.8.2/bayestestR/inst/doc/indicesEstimationComparison.Rmd |only 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Title: Seeded-LDA for Topic Modeling
Description: Implements the seeded-LDA model (Lu, Ott, Cardie & Tsou 2010) <doi:10.1109/ICDMW.2011.125> using the quanteda package and the GibbsLDA++ library for semisupervised topic modeling.
Seeded-LDA allows users to pre-define topics with keywords to perform theory-driven analysis of textual data in social sciences and humanities (Watanabe & Zhou 2020) <doi:10.1177/0894439320907027>.
Author: Kohei Watanabe [aut, cre, cph],
Phan Xuan-Hieu [aut, cph] (GibbsLDA++)
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between seededlda versions 0.5.1 dated 2020-12-17 and 0.6.0 dated 2021-04-08
DESCRIPTION | 7 - MD5 | 26 +++--- NAMESPACE | 1 NEWS.md | 5 + R/RcppExports.R | 4 R/lda.R | 13 +-- R/predict.R |only R/seededlda.R | 97 ++++++++++++----------- man/predict.textmodel_lda.Rd |only man/textmodel_seededlda.Rd | 44 ++++++---- src/RcppExports.cpp | 11 +- src/lda.cpp | 16 ++- src/lda.h | 26 ++++-- tests/testthat/test-internal.R |only tests/testthat/test-textmodel_lda.R |only tests/testthat/test-textmodel_seededlda.R | 123 +++++++++++++----------------- 16 files changed, 203 insertions(+), 170 deletions(-)
Title: Australia Maps
Description: Maps of Australian coastline and administrative regions. Data
can be drawn or accessed directly as simple features objects. Includes
simple functions for country or state maps of Australia and in-built data
sets of administrative regions from the Australian Bureau of Statistics
<https://www.abs.gov.au/>. Layers include electoral divisions and local
government areas, simplified from the original sources but with sufficient
detail to allow mapping of a local municipality.
Author: Michael Sumner [aut, cre],
Dianne Cook [ctb],
Dario Herenu [ctb]
Maintainer: Michael Sumner <mdsumner@gmail.com>
Diff between ozmaps versions 0.3.6 dated 2020-04-02 and 0.4.0 dated 2021-04-08
ozmaps-0.3.6/ozmaps/data/datalist |only ozmaps-0.4.0/ozmaps/DESCRIPTION | 9 ++--- ozmaps-0.4.0/ozmaps/MD5 | 17 ++++------ ozmaps-0.4.0/ozmaps/NEWS.md | 6 +++ ozmaps-0.4.0/ozmaps/build/vignette.rds |binary ozmaps-0.4.0/ozmaps/data/abs_ced.rda |binary ozmaps-0.4.0/ozmaps/data/abs_lga.rda |binary ozmaps-0.4.0/ozmaps/data/abs_ste.rda |binary ozmaps-0.4.0/ozmaps/inst/doc/ozmaps.html | 52 ++++++++++++++++++++++++++----- ozmaps-0.4.0/ozmaps/man/oz.Rd | 6 +-- 10 files changed, 67 insertions(+), 23 deletions(-)
Title: Data Science for Psychologists
Description: All datasets and functions required for the examples and exercises of the book "Data Science for Psychologists" (by Hansjoerg Neth, Konstanz University, 2021), available at <https://bookdown.org/hneth/ds4psy/>. The book and course introduce principles and methods of data science to students of psychology and other biological or social sciences. The 'ds4psy' package primarily provides datasets, but also functions for data generation and manipulation (e.g., of text and time data) and graphics that are used in the book and its exercises. All functions included in 'ds4psy' are designed to be explicit and instructive, rather than elegant or efficient.
Author: Hansjoerg Neth [aut, cre] (<https://orcid.org/0000-0001-5427-3141>)
Maintainer: Hansjoerg Neth <h.neth@uni.kn>
Diff between ds4psy versions 0.5.0 dated 2020-09-01 and 0.6.0 dated 2021-04-08
DESCRIPTION | 12 - MD5 | 88 ++++++------- NAMESPACE | 4 NEWS.md | 91 +++++++++---- R/color_fun.R | 10 - R/data.R | 34 ++--- R/data_fun.R | 265 +++++++++++++++++++++++++++++----------- R/plot_fun.R | 52 +++---- R/start.R | 5 R/text_fun.R | 56 ++++---- R/theme_fun.R | 201 +++++++++++++++++++++++++++--- R/time_util_fun.R | 41 +++++- R/util_fun.R | 104 +++++++++++++++ README.md | 217 ++++++++++++++++---------------- build/partial.rdb |only data/Trumpisms.rda |binary data/fame.rda |binary inst/CITATION | 8 - inst/WORDLIST | 5 inst/doc/ds4psy.R | 4 inst/doc/ds4psy.Rmd | 10 - inst/doc/ds4psy.html | 324 +++++++++++++++++++++++++++++++++++++++++-------- man/Trumpisms.Rd | 13 - man/dice_2.Rd | 1 man/falsePosPsy_all.Rd | 4 man/fame.Rd | 2 man/get_set.Rd |only man/is_equal.Rd | 1 man/is_vector.Rd |only man/is_wholenumber.Rd | 1 man/make_grid.Rd | 4 man/num_as_char.Rd | 1 man/num_as_ordinal.Rd | 1 man/num_equal.Rd | 1 man/plot_fn.Rd | 3 man/plot_fun.Rd | 3 man/plot_n.Rd | 3 man/plot_text.Rd | 5 man/plot_tiles.Rd | 3 man/posPsy_AHI_CESD.Rd | 2 man/posPsy_long.Rd | 2 man/posPsy_p_info.Rd | 2 man/posPsy_wide.Rd | 2 man/theme_clean.Rd | 6 man/theme_ds4psy.Rd | 14 +- man/theme_empty.Rd |only vignettes/ds4psy.Rmd | 10 - 47 files changed, 1168 insertions(+), 447 deletions(-)
More information about strucchangeRcpp at CRAN
Permanent link
Title: Read and Write Sparse Matrices in 'SVMLight' and 'LibSVM'
Formats
Description: Read and write labelled sparse matrices in text format as used by
software such as 'SVMLight', 'LibSVM', 'ThunderSVM', 'LibFM', 'xLearn', 'XGBoost', 'LightGBM',
and others. Supports labelled data for regression, classification (binary, multi-class, multi-label),
and ranking (with 'qid' field), and can handle header metadata and comments in files.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between readsparse versions 0.1.1-2 dated 2021-04-06 and 0.1.2 dated 2021-04-07
DESCRIPTION | 8 - MD5 | 26 ++-- NAMESPACE | 1 R/RcppExports.R | 16 +++ R/read_sparse.R | 38 ++++++- man/read.sparse.Rd | 5 man/readsparse_nonascii_support.Rd |only man/write.sparse.Rd | 2 src/RcppExports.cpp | 43 ++++++++ src/Rwrapper.cpp | 197 +++++++++++++++++++++++++++++++++---- src/python_streams.h |only src/reader.h | 21 ++- src/readsparse_internal.h | 35 ++++++ src/utils.h | 103 +++++++++++++++++++ tests/testthat/test-read-write.R | 60 ++++++----- 15 files changed, 481 insertions(+), 74 deletions(-)
Title: Algorithms for Quantitative Pedology
Description: The Algorithms for Quantitative Pedology (AQP) project was started in 2009 to organize a loosely-related set of concepts and source code on the topic of soil profile visualization, aggregation, and classification into this package (aqp). Over the past 8 years, the project has grown into a suite of related R packages that enhance and simplify the quantitative analysis of soil profile data. Central to the AQP project is a new vocabulary of specialized functions and data structures that can accommodate the inherent complexity of soil profile information; freeing the scientist to focus on ideas rather than boilerplate data processing tasks <doi:10.1016/j.cageo.2012.10.020>. These functions and data structures have been extensively tested and documented, applied to projects involving hundreds of thousands of soil profiles, and deeply integrated into widely used tools such as SoilWeb <https://casoilresource.lawr.ucdavis.edu/soilweb-apps/>. Components of the AQP project (aqp, soilDB, sharpshootR, soilReports packages) serve an important role in routine data analysis within the USDA-NRCS Soil Science Division. The AQP suite of R packages offer a convenient platform for bridging the gap between pedometric theory and practice.
Author: Dylan Beaudette [aut, cre],
Pierre Roudier [aut, ctb],
Andrew Brown [aut, ctb]
Maintainer: Dylan Beaudette <dylan.beaudette@usda.gov>
Diff between aqp versions 1.27 dated 2021-01-26 and 1.29 dated 2021-04-07
aqp-1.27/aqp/R/make.segments.R |only aqp-1.27/aqp/R/mutate.R |only aqp-1.27/aqp/R/permute_profile.R |only aqp-1.27/aqp/R/test_hz_logic.R |only aqp-1.27/aqp/inst/CITATION |only aqp-1.27/aqp/man/find-fix-overlap.Rd |only aqp-1.27/aqp/man/group_by.Rd |only aqp-1.27/aqp/man/mutate.Rd |only aqp-1.27/aqp/man/permute_profile.Rd |only aqp-1.27/aqp/man/summarize.Rd |only aqp-1.27/aqp/man/union-list-missing-method.Rd |only aqp-1.29/aqp/DESCRIPTION | 16 aqp-1.29/aqp/MD5 | 222 +-- aqp-1.29/aqp/NAMESPACE | 6 aqp-1.29/aqp/NEWS.md | 44 aqp-1.29/aqp/R/AAAA.R | 15 aqp-1.29/aqp/R/Class-SoilProfileCollection.R | 44 aqp-1.29/aqp/R/HzDepthLogicSubset.R |only aqp-1.29/aqp/R/SoilProfileCollection-methods.R | 189 -- aqp-1.29/aqp/R/SoilProfileCollection-operators.R | 540 ++++---- aqp-1.29/aqp/R/SoilProfileCollection-setters.R | 23 aqp-1.29/aqp/R/SoilProfileCollection-slice-methods.R | 37 aqp-1.29/aqp/R/SoilProfileCollection-spatial.R | 37 aqp-1.29/aqp/R/accuracy_uncertainty.R | 2 aqp-1.29/aqp/R/addBracket.R | 24 aqp-1.29/aqp/R/addVolumeFraction.R | 17 aqp-1.29/aqp/R/alignTransect.R |only aqp-1.29/aqp/R/bootstrapSoilTexture.R | 2 aqp-1.29/aqp/R/checkHzDepthLogic.R | 188 +- aqp-1.29/aqp/R/combine.R | 106 - aqp-1.29/aqp/R/contrastChart.R | 11 aqp-1.29/aqp/R/data-documentation.R | 663 ---------- aqp-1.29/aqp/R/datadots.R |only aqp-1.29/aqp/R/dice.R |only aqp-1.29/aqp/R/duplicate.R | 2 aqp-1.29/aqp/R/estimateAWC.R |only aqp-1.29/aqp/R/evalMissingData.R | 4 aqp-1.29/aqp/R/explainPlotSPC.R | 31 aqp-1.29/aqp/R/factor-level-setters.R | 30 aqp-1.29/aqp/R/fillHzGaps.R |only aqp-1.29/aqp/R/findOverlap-fixOverlap.R | 471 +++++-- aqp-1.29/aqp/R/getCambicBounds.R | 2 aqp-1.29/aqp/R/getLastHorizonID.R |only aqp-1.29/aqp/R/glom.R | 316 +--- aqp-1.29/aqp/R/glomApply.R | 2 aqp-1.29/aqp/R/group_by.R | 61 aqp-1.29/aqp/R/harmonize.R | 2 aqp-1.29/aqp/R/mixMunsell.R | 338 +++-- aqp-1.29/aqp/R/munsell2rgb.R | 27 aqp-1.29/aqp/R/mutate_profile.R | 38 aqp-1.29/aqp/R/panel.depth_function.R | 469 ++++--- aqp-1.29/aqp/R/perturb.R |only aqp-1.29/aqp/R/plotColorMixture.R | 115 + aqp-1.29/aqp/R/plotMultipleSPC.R | 307 ++++ aqp-1.29/aqp/R/plotSPC.R | 420 ++++-- aqp-1.29/aqp/R/prepanel.depth_function.R | 75 - aqp-1.29/aqp/R/previewColors.R | 19 aqp-1.29/aqp/R/profile_compare.R | 16 aqp-1.29/aqp/R/repairMissingHzDepths.R |only aqp-1.29/aqp/R/sim.R | 236 +-- aqp-1.29/aqp/R/sketch-utils.R | 11 aqp-1.29/aqp/R/spc2mpspline.R | 64 aqp-1.29/aqp/R/split.R | 79 - aqp-1.29/aqp/R/summarize.R | 46 aqp-1.29/aqp/R/transform.R |only aqp-1.29/aqp/build/partial.rdb |binary aqp-1.29/aqp/man/HzDepthLogicSubset.Rd |only aqp-1.29/aqp/man/SoilProfileCollection-plotting-methods.Rd | 99 + aqp-1.29/aqp/man/SoilTextureLevels.Rd | 58 aqp-1.29/aqp/man/addBracket.Rd | 8 aqp-1.29/aqp/man/alignTransect.Rd |only aqp-1.29/aqp/man/bootstrapSoilTexture.Rd | 2 aqp-1.29/aqp/man/ca630.Rd | 57 aqp-1.29/aqp/man/checkHzDepthLogic.Rd | 18 aqp-1.29/aqp/man/combine-SoilProfileCollection-method.Rd | 28 aqp-1.29/aqp/man/correctAWC.Rd |only aqp-1.29/aqp/man/dice.Rd |only aqp-1.29/aqp/man/dot-data_dots.Rd |only aqp-1.29/aqp/man/duplicate.Rd | 3 aqp-1.29/aqp/man/estimateAWC.Rd |only aqp-1.29/aqp/man/evalMissingData.Rd | 2 aqp-1.29/aqp/man/explainPlotSPC.Rd | 23 aqp-1.29/aqp/man/fillHzGaps.Rd |only aqp-1.29/aqp/man/findOverlap.Rd |only aqp-1.29/aqp/man/fixOverlap.Rd |only aqp-1.29/aqp/man/getCambicBounds.Rd | 2 aqp-1.29/aqp/man/getLastHorizonID.Rd |only aqp-1.29/aqp/man/glom-SoilProfileCollection-method.Rd | 22 aqp-1.29/aqp/man/groupSPC.Rd |only aqp-1.29/aqp/man/harmonize-SoilProfileCollection-method.Rd | 2 aqp-1.29/aqp/man/mixMunsell.Rd | 60 aqp-1.29/aqp/man/overlapMetrics.Rd |only aqp-1.29/aqp/man/panel.depth_function.Rd | 135 +- aqp-1.29/aqp/man/pbindlist.Rd | 2 aqp-1.29/aqp/man/perturb.Rd |only aqp-1.29/aqp/man/plotColorMixture.Rd | 15 aqp-1.29/aqp/man/plotMultipleSPC.Rd | 138 +- aqp-1.29/aqp/man/previewColors.Rd | 16 aqp-1.29/aqp/man/profileGroupLabels.Rd | 3 aqp-1.29/aqp/man/repairMissingHzDepths.Rd |only aqp-1.29/aqp/man/rgb2munsell.Rd | 4 aqp-1.29/aqp/man/sierraTransect.Rd | 4 aqp-1.29/aqp/man/sim.Rd | 86 - aqp-1.29/aqp/man/singlebracket.Rd | 24 aqp-1.29/aqp/man/slice-methods.Rd | 18 aqp-1.29/aqp/man/sp1.Rd | 48 aqp-1.29/aqp/man/sp2.Rd | 73 - aqp-1.29/aqp/man/sp3.Rd | 130 - aqp-1.29/aqp/man/sp4.Rd | 127 - aqp-1.29/aqp/man/sp5.Rd | 139 -- aqp-1.29/aqp/man/sp6.Rd | 44 aqp-1.29/aqp/man/spc2mpspline-SoilProfileCollection-method.Rd | 2 aqp-1.29/aqp/man/split-SoilProfileCollection-method.Rd | 2 aqp-1.29/aqp/man/summarizeSPC.Rd |only aqp-1.29/aqp/man/transform.Rd |only aqp-1.29/aqp/tests/testthat/test-DT-tbl.R | 43 aqp-1.29/aqp/tests/testthat/test-SPC-combine.R | 3 aqp-1.29/aqp/tests/testthat/test-SPC-k-keywords.R |only aqp-1.29/aqp/tests/testthat/test-SPC-objects.R | 25 aqp-1.29/aqp/tests/testthat/test-alignTransect.R |only aqp-1.29/aqp/tests/testthat/test-awc.R |only aqp-1.29/aqp/tests/testthat/test-checkHzDepthLogic.R | 41 aqp-1.29/aqp/tests/testthat/test-color-signature.R | 9 aqp-1.29/aqp/tests/testthat/test-dice.R |only aqp-1.29/aqp/tests/testthat/test-dplyr-verbs.R | 18 aqp-1.29/aqp/tests/testthat/test-fillHzGaps.R |only aqp-1.29/aqp/tests/testthat/test-fix-find-overlap.R |only aqp-1.29/aqp/tests/testthat/test-getLastHorizonID.R |only aqp-1.29/aqp/tests/testthat/test-glom.R | 29 aqp-1.29/aqp/tests/testthat/test-mixMunsell.R | 42 aqp-1.29/aqp/tests/testthat/test-plotSPC.R | 14 aqp-1.29/aqp/tests/testthat/test-repairMissingHzDepths.R |only aqp-1.29/aqp/tests/testthat/test-sim.R | 23 aqp-1.29/aqp/tests/testthat/test-slabPlot.R |only aqp-1.29/aqp/tests/testthat/test-spc2mpspline.R | 2 135 files changed, 3838 insertions(+), 3172 deletions(-)
Title: DataCrunchers (PogromcyDanych) is the Massive Online Open Course
that Brings R and Statistics to the People
Description: The data sets used in the online course ,,PogromcyDanych''. You can process data in many ways. The course Data Crunchers will introduce you to this variety. For this reason we will work on datasets of different size (from several to several hundred thousand rows), with various level of complexity (from two to two thousand columns) and prepared in different formats (text data, quantitative data and qualitative data). All of these data sets were gathered in a single big package called PogromcyDanych to facilitate access to them. It contains all sorts of data sets such as data about offer prices of cars, results of opinion polls, information about changes in stock market indices, data about names given to newborn babies, ski jumping results or information about outcomes of breast cancer patients treatment.
Author: Przemyslaw Biecek
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between PogromcyDanych versions 1.5 dated 2015-03-01 and 1.7 dated 2021-04-07
PogromcyDanych-1.5/PogromcyDanych/data/datalist |only PogromcyDanych-1.7/PogromcyDanych/DESCRIPTION | 11 +++++----- PogromcyDanych-1.7/PogromcyDanych/MD5 | 5 +--- PogromcyDanych-1.7/PogromcyDanych/man/PogromcyDanych-package.Rd | 2 - 4 files changed, 9 insertions(+), 9 deletions(-)
More information about PogromcyDanych at CRAN
Permanent link
Title: Dynamically Pluralize Phrases
Description: Converts English phrases to singular or plural form based on
the length of an associated vector. Contains helper functions to
create natural language lists from vectors and to include the length
of a vector in natural language.
Author: Alexander Rossell Hayes [aut, cre, cph]
(<https://orcid.org/0000-0001-9412-0457>)
Maintainer: Alexander Rossell Hayes <alexander@rossellhayes.com>
Diff between plu versions 0.2.0 dated 2021-01-11 and 0.2.1 dated 2021-04-07
plu-0.2.0/plu/R/isTRUE.R |only plu-0.2.1/plu/DESCRIPTION | 19 - plu-0.2.1/plu/MD5 | 51 ++--- plu-0.2.1/plu/NAMESPACE | 1 plu-0.2.1/plu/NEWS.md | 28 ++ plu-0.2.1/plu/R/errors.R |only plu-0.2.1/plu/R/get_fun.R | 38 +-- plu-0.2.1/plu/R/is_capital.R | 65 +++--- plu-0.2.1/plu/R/onLoad.R |only plu-0.2.1/plu/R/plu_more.R | 20 - plu-0.2.1/plu/R/plu_ral.R | 255 ++++++++++++++++++------- plu-0.2.1/plu/R/plu_ralize.R | 54 ++--- plu-0.2.1/plu/R/plu_split.R |only plu-0.2.1/plu/R/plu_stick.R | 54 +---- plu-0.2.1/plu/R/release_questions.R |only plu-0.2.1/plu/R/sysdata.rda |binary plu-0.2.1/plu/R/tosentence.R | 2 plu-0.2.1/plu/README.md | 8 plu-0.2.1/plu/build/plu.pdf |binary plu-0.2.1/plu/man/capitalize.Rd | 7 plu-0.2.1/plu/man/plu-package.Rd | 10 plu-0.2.1/plu/man/plu_ral.Rd | 106 ++++++++-- plu-0.2.1/plu/man/plu_ralize.Rd | 35 +++ plu-0.2.1/plu/man/plu_stick.Rd | 12 - plu-0.2.1/plu/tests/testthat/test-get_fun.R | 4 plu-0.2.1/plu/tests/testthat/test-is_capital.R | 126 ++++++------ plu-0.2.1/plu/tests/testthat/test-plu_ral.R | 188 +++++++++++++++++- plu-0.2.1/plu/tests/testthat/test-plu_ralize.R | 10 plu-0.2.1/plu/tests/testthat/test-plu_stick.R | 43 ---- 29 files changed, 759 insertions(+), 377 deletions(-)
Title: 'Neuroconductor' Base Package with Helper Functions for 'nifti'
Objects
Description: Base package for 'Neuroconductor', which includes many helper
functions that interact with objects of class 'nifti', implemented by
package 'oro.nifti', for reading/writing and also other manipulation
functions.
Author: John Muschelli [aut, cre]
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between neurobase versions 1.32.0 dated 2021-03-31 and 1.32.1 dated 2021-04-07
DESCRIPTION | 6 - MD5 | 18 +-- NAMESPACE | 1 NEWS.md | 4 R/ortho2.R | 7 - R/read_rpi.R | 1 inst/doc/neurobase.html | 13 +- inst/doc/nifti_basics.html | 237 ++++++++++++++++++++++++++++++--------------- inst/doc/simple_io.html | 11 +- man/ortho2.Rd | 2 10 files changed, 201 insertions(+), 99 deletions(-)
Title: Testing Neighbor Effects in Marker-Based Regressions
Description: To incorporate neighbor genotypic identity into genome-wide association studies, the package provides a set of functions for variation partitioning and association mapping. The theoretical background of the method is described in Sato et al. (2021) <doi:10.1038/s41437-020-00401-w>.
Author: Yasuhiro Sato [aut, cre] (<https://orcid.org/0000-0002-6466-723X>),
Eiji Yamamoto [aut],
Kentaro K. Shimizu [aut] (<https://orcid.org/0000-0002-6483-1781>),
Atsushi J. Nagano [aut] (<https://orcid.org/0000-0001-7891-5049>)
Maintainer: Yasuhiro Sato <sato.yasuhiro.36c@kyoto-u.jp>
Diff between rNeighborGWAS versions 1.2.2 dated 2020-11-23 and 1.2.3 dated 2021-04-07
rNeighborGWAS-1.2.2/rNeighborGWAS/README.md |only rNeighborGWAS-1.2.3/rNeighborGWAS/DESCRIPTION | 16 rNeighborGWAS-1.2.3/rNeighborGWAS/MD5 | 32 rNeighborGWAS-1.2.3/rNeighborGWAS/R/nei_lm.R | 196 +- rNeighborGWAS-1.2.3/rNeighborGWAS/R/nei_lmm.R | 220 +- rNeighborGWAS-1.2.3/rNeighborGWAS/R/rNeighborGWAS-package.R | 58 rNeighborGWAS-1.2.3/rNeighborGWAS/build/vignette.rds |binary rNeighborGWAS-1.2.3/rNeighborGWAS/inst/CITATION | 13 rNeighborGWAS-1.2.3/rNeighborGWAS/inst/doc/rNeighborGWAS.R | 201 +- rNeighborGWAS-1.2.3/rNeighborGWAS/inst/doc/rNeighborGWAS.Rmd | 270 +-- rNeighborGWAS-1.2.3/rNeighborGWAS/inst/doc/rNeighborGWAS.html | 808 +++------- rNeighborGWAS-1.2.3/rNeighborGWAS/man/nei_lm.Rd | 5 rNeighborGWAS-1.2.3/rNeighborGWAS/man/nei_lmm.Rd | 5 rNeighborGWAS-1.2.3/rNeighborGWAS/man/rNeighborGWAS-package.Rd | 4 rNeighborGWAS-1.2.3/rNeighborGWAS/tests/testthat/test-neiGWAS.R |only rNeighborGWAS-1.2.3/rNeighborGWAS/tests/testthat/test-nei_lm.R | 117 - rNeighborGWAS-1.2.3/rNeighborGWAS/tests/testthat/test-nei_lmm.R | 116 - rNeighborGWAS-1.2.3/rNeighborGWAS/vignettes/rNeighborGWAS.Rmd | 270 +-- 18 files changed, 1156 insertions(+), 1175 deletions(-)
Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to help safely and efficiently organize Monte Carlo simulations in R.
The package controls the structure and back-end of Monte Carlo simulations
by utilizing a general generate-analyse-summarise strategy. The functions provided control
common simulation issues such as re-simulating non-convergent results, support parallel
back-end and MPI distributed computations, save and restore temporary files,
aggregate results across independent nodes, and provide native support for debugging.
For a pedagogical introduction to the package refer to
Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>, and for an in-depth overview of
the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
Author: Phil Chalmers [aut, cre] (<https://orcid.org/0000-0001-5332-2810>),
Matthew Sigal [ctb],
Ogreden Oguzhan [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between SimDesign versions 2.2 dated 2020-11-07 and 2.3 dated 2021-04-07
DESCRIPTION | 6 MD5 | 36 ++--- R/SimClean.R | 12 - R/SimExtract.R | 1 R/reSummarise.R | 126 ++++++++++++++---- R/rejectionSampling.R | 273 ++++++++++++++++++++++++--------------- R/rtruncate.R | 68 +++++---- R/runSimulation.R | 1 R/util.R | 2 build/partial.rdb |binary inst/doc/Catch_errors.html | 16 +- inst/doc/Fixed_obj_fun.html | 10 - inst/doc/Parallel-computing.html | 4 inst/doc/Saving-results.html | 28 ++-- inst/doc/SimDesign-intro.html | 20 +- man/SimClean.Rd | 11 - man/reSummarise.Rd | 57 +++++++- man/rejectionSampling.Rd | 213 ++++++++++++++++++------------ man/rtruncate.Rd | 61 ++++---- 19 files changed, 593 insertions(+), 352 deletions(-)
Title: Solving Ordinary Differential Equations to Understand
Luminescence
Description: A collection of functions to simulate luminescence signals in quartz and Al2O3 based on published models.
Author: Johannes Friedrich [aut, trl, cre]
(<https://orcid.org/0000-0002-0805-9547>),
Sebastian Kreutzer [aut, ths] (<https://orcid.org/0000-0002-0734-2199>),
Christoph Schmidt [aut, ths] (<https://orcid.org/0000-0002-2309-3209>)
Maintainer: Johannes Friedrich <johannes.friedrich@posteo.de>
Diff between RLumModel versions 0.2.7 dated 2020-09-04 and 0.2.8 dated 2021-04-07
RLumModel-0.2.7/RLumModel/vignettes/elsevier-harvard.csl |only RLumModel-0.2.8/RLumModel/DESCRIPTION | 15 RLumModel-0.2.8/RLumModel/MD5 | 73 RLumModel-0.2.8/RLumModel/NEWS.md | 190 - RLumModel-0.2.8/RLumModel/R/RLumModel-package.R | 21 RLumModel-0.2.8/RLumModel/R/translate_sequence.R | 103 RLumModel-0.2.8/RLumModel/README.md | 20 RLumModel-0.2.8/RLumModel/build/vignette.rds |binary RLumModel-0.2.8/RLumModel/inst/doc/RLumModel_-_Getting_started_with_RLumModel.html | 1069 +++++----- RLumModel-0.2.8/RLumModel/inst/doc/RLumModel_-_Getting_started_with_RLumModel.html.asis | 2 RLumModel-0.2.8/RLumModel/inst/doc/RLumModel_-_Simulating_luminescence_in_Al2O3.html | 567 +---- RLumModel-0.2.8/RLumModel/inst/doc/RLumModel_-_Using_own_parameter_sets.html | 541 +---- RLumModel-0.2.8/RLumModel/man/RLumModel-package.Rd | 25 RLumModel-0.2.8/RLumModel/man/figures/README-unnamed-chunk-4-1.png |binary RLumModel-0.2.8/RLumModel/man/figures/RLumModel_logo.png |only RLumModel-0.2.8/RLumModel/man/figures/RLumModel_logo.svg |only RLumModel-0.2.8/RLumModel/man/model_LuminescenceSignals.Rd | 2 RLumModel-0.2.8/RLumModel/man/read_SEQ2R.Rd | 2 RLumModel-0.2.8/RLumModel/tests/testthat/test-create_DRT.sequence.R | 54 RLumModel-0.2.8/RLumModel/tests/testthat/test-create_SAR.sequence.R | 51 RLumModel-0.2.8/RLumModel/tests/testthat/test-model_LuminescenceSignals.R | 136 - RLumModel-0.2.8/RLumModel/tests/testthat/test-own-parameter-sets.R | 53 RLumModel-0.2.8/RLumModel/tests/testthat/test-read_SEQ2R.R | 23 RLumModel-0.2.8/RLumModel/tests/testthat/test-set_pars.R | 42 RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_CW_OSL.R | 94 RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_LM_OSL.R | 109 - RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_RF.R | 190 - RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_RF_and_heating.R | 183 - RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_TL.R | 61 RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_heating.R | 51 RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_illumination.R | 88 RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_irradiation.R | 124 - RLumModel-0.2.8/RLumModel/tests/testthat/test-simulate_pause.R | 53 RLumModel-0.2.8/RLumModel/tests/testthat/test-translate_sequence.R | 29 RLumModel-0.2.8/RLumModel/vignettes/RLumModel.bib | 6 RLumModel-0.2.8/RLumModel/vignettes/RLumModel_-_Getting_started_with_RLumModel.Rmd | 34 RLumModel-0.2.8/RLumModel/vignettes/RLumModel_-_Getting_started_with_RLumModel.html.asis | 2 RLumModel-0.2.8/RLumModel/vignettes/RLumModel_-_Simulating_luminescence_in_Al2O3.Rmd | 7 RLumModel-0.2.8/RLumModel/vignettes/RLumModel_-_Using_own_parameter_sets.Rmd | 7 39 files changed, 1924 insertions(+), 2103 deletions(-)
Title: Enterprise Streamlined 'Shiny' Application Framework
Description: An enterprise-targeted scalable and UI-standardized 'shiny' framework
including a variety of developer convenience functions with the goal of both
streamlining robust application development while assisting with creating a
consistent user experience regardless of application or developer.
Author: Constance Brett [aut, cre],
Isaac Neuhaus [aut] (canvasXpress JavaScript Library Maintainer),
Ger Inberg [ctb],
Bristol-Meyers Squibb (BMS) [cph]
Maintainer: Constance Brett <connie@aggregate-genius.com>
Diff between periscope versions 0.6.2 dated 2021-03-22 and 0.6.3 dated 2021-04-07
DESCRIPTION | 11 +- MD5 | 40 +++++----- NEWS.md | 6 + R/fw_helpers_external.R | 12 ++- R/fw_helpers_internal.R | 2 R/generate_template.R | 4 + R/periscope.R | 9 ++ build/vignette.rds |binary inst/doc/downloadFile-module.html | 4 - inst/doc/downloadablePlot-module.html | 4 - inst/doc/downloadableTable-module.html | 4 - inst/doc/new-application.html | 4 - inst/fw_templ/p_example/server_local.R | 3 inst/fw_templ/p_example/server_local_no_left.R | 3 inst/fw_templ/p_example/server_local_plus.R | 17 ++-- inst/fw_templ/p_example/server_local_plus_no_left.R | 9 +- tests/testthat/sample_app/program/server_local.R | 3 tests/testthat/sample_app_both_sidebar/program/server_local.R | 17 ++-- tests/testthat/sample_app_no_sidebar/program/server_local.R | 3 tests/testthat/sample_app_no_sidebar_no_resetbutton/program/server_local.R | 3 tests/testthat/sample_app_r_sidebar/program/server_local.R | 3 21 files changed, 90 insertions(+), 71 deletions(-)
Title: Geometric Median, k-Medians Clustering and Robust Median PCA
Description: Fast algorithms for robust estimation with large samples of multivariate observations. Estimation of the geometric median, robust k-Gmedian clustering, and robust PCA based on the Gmedian covariation matrix.
Author: Herve Cardot
Maintainer: Herve Cardot <herve.cardot@u-bourgogne.fr>
Diff between Gmedian versions 1.2.5 dated 2020-03-02 and 1.2.6 dated 2021-04-07
DESCRIPTION | 12 ++++++------ MD5 | 16 ++++++++-------- NEWS | 4 ++++ build/partial.rdb |binary man/Gmedian.Rd | 8 ++++---- man/GmedianCov.Rd | 2 +- man/Weiszfeld.Rd | 6 +++--- man/WeiszfeldCov.Rd | 2 +- src/Weiszfeld.cpp | 15 +++++++++++---- 9 files changed, 38 insertions(+), 27 deletions(-)
Title: Nested and Crossed Block Designs for Factorial and Unstructured
Treatment Sets
Description: Constructs treatment and block designs for linear treatment models
with crossed or nested block factors. The treatment design can be any feasible
linear model and the block design can be any feasible combination of crossed or
nested block factors. The block design is a sum of one or more block factors
and the block design is optimized sequentially with the levels of each successive
block factor optimized conditional on all previously optimized block factors.
D-optimality is used throughout except for square or rectangular lattice block designs
which are constructed algebraically using mutually orthogonal Latin squares.
Crossed block designs with interaction effects are optimized using a weighting scheme
which allows for differential weighting of first and second-order block effects.
Outputs include a table showing the allocation of treatments to blocks and tables showing
the achieved D-efficiency factors for each block and treatment design.
Edmondson, R.N. Multi-level Block Designs for Comparative Experiments.
JABES 25, 500–522 (2020) <doi:10.1007/s13253-020-00416-0>.
Author: R. N. Edmondson.
Maintainer: Rodney Edmondson <rodney.edmondson@gmail.com>
Diff between blocksdesign versions 4.8 dated 2021-02-26 and 4.9 dated 2021-04-07
DESCRIPTION | 10 - MD5 | 16 + NAMESPACE | 1 R/blocks.R | 42 ++-- R/design.R | 455 ++++++++++++++--------------------------------------- R/fraction.R |only R/nestedBlocks.R | 3 build/vignette.rds |binary man/design.Rd | 75 +++----- man/fraction.Rd |only 10 files changed, 193 insertions(+), 409 deletions(-)
Title: Bayesian Hierarchical Models for Basket Trials
Description: Provides functions for the evaluation of basket
trial designs with binary endpoints. Operating characteristics of a
basket trial design are assessed by simulating trial data according to
scenarios, analyzing the data with Bayesian hierarchical models (BHMs), and
assessing decision probabilities on stratum and trial-level based on Go / No-go decision making.
The package is build for high flexibility regarding decision rules,
number of interim analyses, number of strata, and recruitment.
The BHMs proposed by
Berry et al. (2013) <doi:10.1177/1740774513497539>
and Neuenschwander et al. (2016) <doi:10.1002/pst.1730>,
as well as a model that combines both approaches are implemented.
Functions are provided to implement Bayesian decision rules as for example
proposed by Fisch et al. (2015) <doi:10.1177/2168479014533970>.
In addition, posterior point estimates (mean/median) and credible intervals
for response rates and some model parameters can be calculated.
For simulated trial data, bias and mean squared errors of posterior
point estimates for response rates can be provided.
Author: Stephan Wojciekowski [aut, cre]
Maintainer: Stephan Wojciekowski <stephan.wojciekowski@boehringer-ingelheim.com>
Diff between bhmbasket versions 0.9.1 dated 2021-02-15 and 0.9.2 dated 2021-04-07
DESCRIPTION | 11 ++++++----- MD5 | 14 +++++++------- NEWS.md | 10 ++++++++++ R/AnalysisFunctions.R | 25 ++++++++++++++++++------- R/OCFunctions.R | 13 +++++-------- inst/doc/reproduceExNex.html | 4 ++-- man/loadAnalyses.Rd | 9 +++++++-- man/performAnalyses.Rd | 16 +++++++++++++--- 8 files changed, 68 insertions(+), 34 deletions(-)
Title: Normalised Prediction Distribution Errors for Nonlinear
Mixed-Effect Models
Description: Provides routines to compute normalised prediction distribution errors, a metric designed to evaluate non-linear mixed effect models such as those used in pharmacokinetics and pharmacodynamics. Documentation about 'npde' is provided by a comprehensive user guide on the github repository (<https://github.com/ecomets/npde30/blob/main/userguide_npde_3.0.pdf>), and references concerning the methods include the papers by Brendel et al. (2006, <doi:10.1007/s11095-006-9067-5>; 2010, <doi:10.1007/s10928-009-9143-7>), Comets et al. (2008, <doi:10.1016/j.cmpb.2007.12.002> ; 2010, <http://journal-sfds.fr/article/view/45>), and Nguyen et al. (2012, <doi:10.1007/s10928-012-9264-2>). See 'citation("npde")' for details.
Author: Emmanuelle Comets [aut, cre] (<https://orcid.org/0000-0002-9150-9886>),
Karl Brendel [ctb],
Thi Huyen Tram Nguyen [ctb],
Romain Leroux [ctb],
France Mentre [ctb]
Maintainer: Emmanuelle Comets <emmanuelle.comets@inserm.fr>
Diff between npde versions 3.0 dated 2021-02-25 and 3.1 dated 2021-04-07
CHANGES | 8 ++++++ DESCRIPTION | 10 +++---- MD5 | 24 +++++++++---------- R/aaa_generics.R | 1 R/compute_pd.R | 3 ++ R/mainNpde.R | 54 +++++++++++++++++++------------------------ R/npdeControl.R | 4 ++- R/plotNpde-auxScatterPlot.R | 23 ++++++++---------- R/plotNpde-methods.R | 19 +++++++++++++-- R/plotNpde-plotFunctions.R | 10 ++++--- R/plotNpde-scatterplot.R | 13 +++++++--- man/npde.plot.scatterplot.Rd | 4 ++- man/npde.plot.select.Rd | 8 +++--- 13 files changed, 108 insertions(+), 73 deletions(-)
Title: White Matter Normalization for Magnetic Resonance Images using
WhiteStripe
Description: Shinohara (2014) <doi:10.1016/j.nicl.2014.08.008>
introduced 'WhiteStripe', an intensity-based normalization of T1
and T2 images, where normal
appearing white matter performs well, but requires segmentation.
This method performs white matter mean and standard deviation
estimates on data that has been rigidly-registered to the 'MNI'
template and uses histogram-based methods.
Author: R. Taki Shinohara [aut],
John Muschelli [aut, cre] (<https://orcid.org/0000-0001-6469-1750>)
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between WhiteStripe versions 2.3.2 dated 2019-10-01 and 2.4.0 dated 2021-04-07
DESCRIPTION | 31 ++-- MD5 | 28 +-- NEWS.md | 5 R/whitestripe_ind.R | 11 + build/vignette.rds |binary inst/doc/Running_WhiteStripe.R | 24 +-- inst/doc/Running_WhiteStripe.html | 293 ++++++++------------------------------ man/get.first.mode.Rd | 3 man/get.last.mode.Rd | 3 man/s.hist.Rd | 4 man/smooth_hist.Rd | 10 + man/t1.voi.hist.Rd | 4 man/t2.voi.hist.Rd | 4 man/whitestripe.Rd | 16 +- man/xvals.Rd | 4 15 files changed, 163 insertions(+), 277 deletions(-)
Title: Steve's Toy Data for Teaching About a Variety of Methodological,
Social, and Political Topics
Description: This is an R package for all my toy data. Its main uses are for teaching.
My students, and academics like me who teach the same topics I teach, should find
this useful if their teaching workflow is also built around the R programming
language. The applications are multiple but mostly cluster on topics of statistical
methodology, international relations, and political economy.
Author: Steve Miller [aut, cre] (<https://orcid.org/0000-0003-4072-6263>)
Maintainer: Steve Miller <steven.v.miller@gmail.com>
Diff between stevedata versions 0.3.0 dated 2021-02-27 and 0.3.1 dated 2021-04-07
DESCRIPTION | 7 ++++--- MD5 | 14 +++++++------- R/rd-election_turnout.R | 11 ++++++++--- R/rd-min_wage.R | 2 +- data/election_turnout.rda |binary inst/doc/stevedata-description.html | 9 ++++++++- man/election_turnout.Rd | 11 ++++++++--- man/min_wage.Rd | 2 +- 8 files changed, 37 insertions(+), 19 deletions(-)
Title: Tidy Tools for Paleoenvironmental Archives
Description: Provides a set of functions with a common framework for age-depth model management,
stratigraphic visualization, and common statistical transformations. The focus of the
package is stratigraphic visualization, for which 'ggplot2' components are provided
to reproduce the scales, geometries, facets, and theme elements commonly used in
publication-quality stratigraphic diagrams. Helpers are also provided to reproduce
the exploratory statistical summaries that are frequently included on
stratigraphic diagrams.
Author: Dewey Dunnington [aut, cre, cph]
(<https://orcid.org/0000-0002-9415-4582>)
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between tidypaleo versions 0.1.0 dated 2021-03-31 and 0.1.1 dated 2021-04-07
DESCRIPTION | 6 MD5 | 15 NEWS.md |only README.md | 10 build/partial.rdb |binary inst/doc/age_depth.html | 297 ++---------- inst/doc/nested_analysis.html | 613 +++++++++----------------- inst/doc/strat_diagrams.html | 779 ++++++++++++---------------------- tests/testthat/test-age_depth_model.R | 5 9 files changed, 575 insertions(+), 1150 deletions(-)
Title: R Interface to API 'vk.com'
Description: Load data from vk.com api about your communiti users and views,
ads performance, post on user wall and etc. For more information
see API Documentation <https://vk.com/dev/first_guide>.
Author: Alexey Seleznev
Maintainer: Alexey Seleznev <selesnow@gmail.com>
Diff between rvkstat versions 3.0.0 dated 2021-01-15 and 3.0.1 dated 2021-04-07
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ R/vkAuth.R | 2 +- R/vkGetAds.R | 7 ++++--- README.md | 3 +++ build/partial.rdb |binary 7 files changed, 24 insertions(+), 14 deletions(-)
Title: Risk Tool Library
Description: Collection of functions and metadata to complement core packages
in Finance and Commodities, including futures expiry tables and <https://www.morningstar.com/products/commodities-and-energy>
API functions. See <https://github.com/risktoollib/RTL>.
Author: Philippe Cote [aut, cre],
Nima Safaian [aut]
Maintainer: Philippe Cote <pcote@ualberta.ca>
Diff between RTL versions 0.1.5 dated 2020-11-11 and 0.1.6 dated 2021-04-07
RTL-0.1.5/RTL/tests |only RTL-0.1.6/RTL/DESCRIPTION | 15 +-- RTL-0.1.6/RTL/MD5 | 103 ++++++++++----------- RTL-0.1.6/RTL/NAMESPACE | 2 RTL-0.1.6/RTL/NEWS.md | 22 ++++ RTL-0.1.6/RTL/R/chart_eia_sd.R | 6 - RTL-0.1.6/RTL/R/chart_pairs.R | 1 RTL-0.1.6/RTL/R/chart_spreads.R | 139 ++++++++++++++--------------- RTL-0.1.6/RTL/R/chart_zscore.R | 33 ++++-- RTL-0.1.6/RTL/R/eia2tidy.R | 6 - RTL-0.1.6/RTL/R/genscape.R |only RTL-0.1.6/RTL/R/globals.R | 2 RTL-0.1.6/RTL/R/morningstar.R | 66 ++++++++++--- RTL-0.1.6/RTL/R/promptBeta.R | 58 ++++++------ RTL-0.1.6/RTL/R/returns.R | 20 ++-- RTL-0.1.6/RTL/R/simGBM.R | 57 ++++++----- RTL-0.1.6/RTL/README.md | 1 RTL-0.1.6/RTL/data/cancrudeassays.rda |binary RTL-0.1.6/RTL/data/cancrudeassayssum.rda |binary RTL-0.1.6/RTL/data/cancrudeprices.rda |binary RTL-0.1.6/RTL/data/crudeassaysBP.rda |binary RTL-0.1.6/RTL/data/crudeassaysXOM.rda |binary RTL-0.1.6/RTL/data/crudepipelines.rda |binary RTL-0.1.6/RTL/data/crudes.rda |binary RTL-0.1.6/RTL/data/df_fut.rda |binary RTL-0.1.6/RTL/data/dflong.rda |binary RTL-0.1.6/RTL/data/dfwide.rda |binary RTL-0.1.6/RTL/data/eiaStocks.rda |binary RTL-0.1.6/RTL/data/eiaStorageCap.rda |binary RTL-0.1.6/RTL/data/fizdiffs.rda |binary RTL-0.1.6/RTL/data/lngterminals.rda |binary RTL-0.1.6/RTL/data/nghubs.rda |binary RTL-0.1.6/RTL/data/ngpipelines.rda |binary RTL-0.1.6/RTL/data/ngstorage.rda |binary RTL-0.1.6/RTL/data/planets.rda |binary RTL-0.1.6/RTL/data/productspipelines.rda |binary RTL-0.1.6/RTL/data/productsterminals.rda |binary RTL-0.1.6/RTL/data/refineries.rda |binary RTL-0.1.6/RTL/data/tradeCycle.rda |binary RTL-0.1.6/RTL/data/tradeprocess.rda |binary RTL-0.1.6/RTL/data/usSwapCurves.rda |binary RTL-0.1.6/RTL/data/usSwapCurvesPar.rda |binary RTL-0.1.6/RTL/data/usSwapIR.rda |binary RTL-0.1.6/RTL/data/usSwapIRdef.rda |binary RTL-0.1.6/RTL/man/chart_eia_sd.Rd | 2 RTL-0.1.6/RTL/man/chart_pairs.Rd | 1 RTL-0.1.6/RTL/man/chart_spreads.Rd | 8 - RTL-0.1.6/RTL/man/chart_zscore.Rd | 4 RTL-0.1.6/RTL/man/eia2tidy.Rd | 4 RTL-0.1.6/RTL/man/getGenscapePipeOil.Rd |only RTL-0.1.6/RTL/man/getGenscapeStorageOil.Rd |only RTL-0.1.6/RTL/man/getPrice.Rd | 6 - RTL-0.1.6/RTL/man/promptBeta.Rd | 21 ++-- RTL-0.1.6/RTL/man/returns.Rd | 4 54 files changed, 336 insertions(+), 245 deletions(-)
Title: Testing Workbench for Precision-Recall Curves
Description: A testing workbench for evaluating precision-recall curves under various conditions.
Author: Takaya Saito [aut, cre],
Marc Rehmsmeier [aut]
Maintainer: Takaya Saito <takaya.saito@outlook.com>
Diff between prcbench versions 0.9.1 dated 2021-01-07 and 1.0.1 dated 2021-04-07
DESCRIPTION | 14 ++--- MD5 | 17 +++--- NEWS.md | 24 ++++++--- README.md | 118 +++++++++++++++++++++++---------------------- build/vignette.rds |binary inst/CITATION | 4 - inst/doc/introduction.Rmd | 2 inst/doc/introduction.html | 41 +++++++++------ man/figures/logo.svg |only vignettes/introduction.Rmd | 2 10 files changed, 121 insertions(+), 101 deletions(-)
Title: Building Augmented Data to Run Multi-State Models with 'msm'
Package
Description: A fast and general method for restructuring classical longitudinal data into
augmented ones. The reason for this is to facilitate the modeling of longitudinal data under
a multi-state framework using the 'msm' package.
Author: Francesco Grossetti [aut, cre]
(<https://orcid.org/0000-0002-5130-7745>)
Maintainer: Francesco Grossetti <francesco.grossetti@unibocconi.it>
Diff between msmtools versions 1.3 dated 2017-06-08 and 2.0.0 dated 2021-04-07
DESCRIPTION | 19 - MD5 | 36 +- NAMESPACE | 28 + NEWS.md | 65 +++ R/augment.R | 10 R/onAttach.R | 4 R/prevplot.R | 362 ++++++-------------- R/survplot.R | 382 ++++++++-------------- README.md | 21 - build/vignette.rds |binary inst/doc/msmtools.Rmd | 268 ++++----------- inst/doc/msmtools.html | 848 +++++++++++++++++++++++++------------------------ man/augment.Rd | 29 + man/hosp.Rd | 6 man/msmtools.Rd | 1 man/polish.Rd | 13 man/prevplot.Rd | 85 ---- man/survplot.Rd | 190 ++-------- vignettes/msmtools.Rmd | 268 ++++----------- 19 files changed, 1090 insertions(+), 1545 deletions(-)
Title: Elliptical Symmetry Tests
Description: Given the omnipresence of the assumption of elliptical symmetry, it is essential to be able to test whether that assumption actually holds true or not for the data
at hand. This package provides several statistical tests for elliptical symmetry that are described in Babic et al. (2021) <arXiv:2011.12560v2>.
Author: Sladana Babic [aut] (<https://orcid.org/0000-0001-8076-4665>),
Marko Palangetic [aut, cre] (<https://orcid.org/0000-0002-6366-0634>),
Christophe Ley [aut] (<https://orcid.org/0000-0002-2290-8437>)
Maintainer: Marko Palangetic <marko.palangetic@ugent.be>
Diff between ellipticalsymmetry versions 0.1 dated 2020-11-30 and 0.1.2 dated 2021-04-07
DESCRIPTION | 29 +++--- MD5 | 32 +++--- NAMESPACE | 1 R/AuxilaryFunctions.R | 56 ++++++++---- R/HufferPark.R | 180 ++++++++++++++++++++++++--------------- R/KoltchinskiiSakhanenko.R | 109 +++++++++++++++-------- R/MPQ.R | 39 ++++---- R/PseudoGaussian.R | 70 ++++++++------- R/Schott.R | 34 +++---- R/SkewOptimal.R | 115 +++++++++++++----------- R/SphericalHarmonics-OrthBasis.R | 122 ++++++++++++++------------ man/HufferPark.Rd | 32 +++--- man/KoltchinskiiSakhanenko.Rd | 12 +- man/MPQ.Rd | 8 - man/PseudoGaussian.Rd | 11 +- man/Schott.Rd | 4 man/SkewOptimal.Rd | 34 +++---- 17 files changed, 510 insertions(+), 378 deletions(-)
More information about ellipticalsymmetry at CRAN
Permanent link
Title: 'caret' Applications for Spatial-Temporal Models
Description: Supporting functionality to run 'caret' with spatial or spatial-temporal data. 'caret' is a frequently used package for model training and prediction using machine learning. This package includes functions to improve spatial-temporal modelling tasks using 'caret'. It prepares data for Leave-Location-Out and Leave-Time-Out cross-validation which are target-oriented validation strategies for spatial-temporal models. To decrease overfitting and improve model performances, the package implements a forward feature selection that selects suitable predictor variables in view to their contribution to the target-oriented performance. CAST further includes functionality to estimate the (spatial) area of applicability of prediction models by analysing the similarity between new data and training data.
Author: Hanna Meyer [cre, aut],
Chris Reudenbach [ctb],
Marvin Ludwig [ctb],
Thomas Nauss [ctb],
Edzer Pebesma [ctb]
Maintainer: Hanna Meyer <hanna.meyer@uni-muenster.de>
Diff between CAST versions 0.5.0 dated 2021-02-19 and 0.5.1 dated 2021-04-07
DESCRIPTION | 10 MD5 | 24 - NEWS.md | 3 R/CreateSpacetimeFolds.R | 11 R/calibrate_aoa.R | 4 R/ffs.R | 3 build/partial.rdb |binary inst/doc/AOA-tutorial.Rmd | 2 inst/doc/AOA-tutorial.html | 6 inst/doc/CAST-intro.html | 1016 +++++++++++++++++++++++++------------------- man/CreateSpacetimeFolds.Rd | 11 man/ffs.Rd | 3 vignettes/AOA-tutorial.Rmd | 2 13 files changed, 626 insertions(+), 469 deletions(-)
Title: Raster Time Series Visualization
Description: A lightweight 'R' package to visualize large raster time series, building on a fast temporal interpolation core.
Author: Johannes Mast [aut, cre] (<https://orcid.org/0000-0001-6595-5834>),
Jakob Schwalb-Willmann [aut] (<https://orcid.org/0000-0003-2665-1509>)
Maintainer: Johannes Mast <johannes.mast@stud-mail.uni-wuerzburg.de>
Diff between rtsVis versions 0.0.1 dated 2021-02-24 and 0.0.2 dated 2021-04-07
DESCRIPTION | 8 - MD5 | 18 +-- NEWS.md | 4 R/ts_add_positions_to_frames.R | 10 - R/ts_fill_na.R | 31 ++++- R/ts_flow_frames.R | 6 - README.md | 203 ++++++++++++++++++++++++++++++++------ man/ts_add_positions_to_frames.Rd | 10 - man/ts_fill_na.Rd | 4 man/ts_flow_frames.Rd | 6 - 10 files changed, 233 insertions(+), 67 deletions(-)
Title: Data from the 'Access to Opportunities Project (AOP)'
Description: Download data from the 'Access to Opportunities Project (AOP)'. The
'aopdata' package brings annual estimates of access to employment,
health and education services by transport mode, as well as data
on the spatial distribution of population, schools and health-care
facilities at a fine spatial resolution for all cities included in
the study. More info on the 'AOP' website <https://www.ipea.gov.br/acessooportunidades/en/>.
Author: Rafael H. M. Pereira [aut, cre]
(<https://orcid.org/0000-0003-2125-7465>),
Daniel Herszenhut [aut] (<https://orcid.org/0000-0001-8066-1105>),
Marcus Saraiva [aut] (<https://orcid.org/0000-0001-6218-2338>),
Ipea - Institue for Applied Economic Research [cph, fnd]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between aopdata versions 0.2.0 dated 2021-03-31 and 0.2.1 dated 2021-04-07
aopdata-0.2.0/aopdata/man/rm_accent.Rd |only aopdata-0.2.1/aopdata/DESCRIPTION | 8 aopdata-0.2.1/aopdata/MD5 | 51 - aopdata-0.2.1/aopdata/NAMESPACE | 1 aopdata-0.2.1/aopdata/NEWS.md | 13 aopdata-0.2.1/aopdata/R/read_access.R | 18 aopdata-0.2.1/aopdata/R/read_grid.R | 2 aopdata-0.2.1/aopdata/R/read_population.R | 4 aopdata-0.2.1/aopdata/R/utils.R | 69 - aopdata-0.2.1/aopdata/inst/doc/access_inequality.html | 617 ---------------- aopdata-0.2.1/aopdata/inst/doc/access_maps.html | 616 --------------- aopdata-0.2.1/aopdata/inst/doc/intro_to_aopdata.html | 4 aopdata-0.2.1/aopdata/inst/doc/landuse_maps.html | 231 ----- aopdata-0.2.1/aopdata/man/aop_merge.Rd | 1 aopdata-0.2.1/aopdata/man/aop_spatial_join.Rd | 1 aopdata-0.2.1/aopdata/man/check_connection.Rd | 1 aopdata-0.2.1/aopdata/man/download_data.Rd | 1 aopdata-0.2.1/aopdata/man/load_data.Rd | 1 aopdata-0.2.1/aopdata/man/read_access.Rd | 6 aopdata-0.2.1/aopdata/man/read_grid.Rd | 2 aopdata-0.2.1/aopdata/man/read_population.Rd | 4 aopdata-0.2.1/aopdata/man/select_city_input.Rd | 1 aopdata-0.2.1/aopdata/man/select_metadata.Rd | 1 aopdata-0.2.1/aopdata/man/select_mode_input.Rd | 1 aopdata-0.2.1/aopdata/man/select_year_input.Rd | 1 aopdata-0.2.1/aopdata/tests/testthat/test_read_access.R | 33 aopdata-0.2.1/aopdata/tests/testthat/test_read_grid.R | 7 27 files changed, 122 insertions(+), 1573 deletions(-)
Title: Flags Acute Kidney Injury (AKI)
Description: Flagger to detect acute kidney injury (AKI) in a patient dataset.
Author: Ishan Saran [aut, cre],
Shivam Saran [aut],
Rishi Saran [aut],
Aditya Biswas [ctb],
Sankee Mummareddy [ctb],
Yu Yamamoto [ctb],
Francis Perry Wilson [ctb, ths]
Maintainer: Ishan Saran <ishansaran65@gmail.com>
Diff between akiFlagger versions 0.2.0 dated 2021-03-14 and 0.3.0 dated 2021-04-07
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++++++------ NAMESPACE | 1 + R/GUI.R |only R/data.R | 20 ++++++++++++++++++-- R/returnAKIpatients.R | 27 ++++++++++++++++----------- data/toy.demo.csv |only data/toy.demo.rda |only data/toy.rda |binary inst |only man/runGUI.Rd |only man/toy.Rd | 2 -- man/toy.demo.Rd |only 13 files changed, 54 insertions(+), 26 deletions(-)
Title: Zooarchaeological Analysis with Log-Ratios
Description: Includes functions and reference data to
generate and manipulate log-ratios (also known as log size index (LSI)
values) from measurements obtained on zooarchaeological material. Log
ratios are used to compare the relative (rather than the absolute)
dimensions of animals from archaeological contexts
(Meadow 1999, ISBN: 9783896463883).
zoolog is also able to seamlessly integrate data and references
with heterogeneous nomenclature, which is internally managed by a
zoolog thesaurus.
A preliminary version of the zoolog methods was first used by
Trentacoste, Nieto-Espinet, and Valenzuela-Lamas (2018)
<doi:10.1371/journal.pone.0208109>.
Author: Jose M Pozo [aut, cre] (<https://orcid.org/0000-0002-0759-3510>),
Silvia Valenzuela-Lamas [aut] (<https://orcid.org/0000-0001-9886-0372>),
Angela Trentacoste [aut] (<https://orcid.org/0000-0001-7096-5252>),
Ariadna Nieto-Espinet [aut] (<https://orcid.org/0000-0003-2567-1735>),
Silvia Guimarães Chiarelli [aut]
(<https://orcid.org/0000-0002-3778-3315>)
Maintainer: Jose M Pozo <josmpozo@gmail.com>
Diff between zoolog versions 0.2.1 dated 2021-02-17 and 0.3.0 dated 2021-04-07
DESCRIPTION | 8 MD5 | 92 ++++--- NEWS.md | 16 + R/CondenseLogs.R | 4 R/Data2Reference.R | 4 R/ReadCommentLines.R |only R/ThesaurusReaderWriter.R | 27 -- R/references.R | 107 +++----- README.md | 17 - build/partial.rdb |binary data/reference.rda |binary data/referenceSets.rda |binary data/referencesDatabase.rda |binary data/zoologThesaurus.rda |binary inst/REFERENCES.bib | 65 ++++- inst/doc/index.R | 8 inst/doc/index.Rmd | 38 +-- inst/doc/index.html | 247 ++++++++++++++------ inst/extdata/dataValenzuelaLamas2008.csv.gz |binary inst/extdata/elementThesaurus.csv | 50 ++-- inst/extdata/measureThesaurus.csv | 16 - inst/extdata/referenceCattle_Basel.csv | 126 +++++----- inst/extdata/referenceCattle_Degerbol.csv | 121 +++++---- inst/extdata/referenceCattle_Johnstone.csv | 72 +++-- inst/extdata/referenceCattle_Nieto.csv | 158 ++++++------- inst/extdata/referenceDama_Haifa.csv |only inst/extdata/referenceEquid_Haifa.csv |only inst/extdata/referenceEquid_Johnstone.csv |only inst/extdata/referenceGazelle_Haifa.csv |only inst/extdata/referenceGoat_Basel.csv | 94 +++---- inst/extdata/referenceGoat_Clutton.csv | 140 +++++------ inst/extdata/referenceGoat_Uerpmann.csv | 128 +++++----- inst/extdata/referencePig_Albarella.csv | 106 ++++---- inst/extdata/referencePig_Basel.csv | 106 ++++---- inst/extdata/referencePig_Hongo.csv | 221 +++++++++--------- inst/extdata/referencePig_Payne.csv | 92 +++---- inst/extdata/referenceRabbit_Nottingham.csv |only inst/extdata/referenceRedDeer_Basel.csv | 52 ++-- inst/extdata/referenceSets.csv | 10 inst/extdata/referenceSheep_Basel.csv | 96 ++++--- inst/extdata/referenceSheep_Clutton.csv | 162 ++++++------- inst/extdata/referenceSheep_Davis.csv | 68 ++--- inst/extdata/referenceSheep_Uerpmann.csv | 124 +++++----- inst/extdata/referencesDatabase.csv | 40 +-- inst/extdata/taxonThesaurus.csv | 34 +- man/figures/boxplotDataOCLength-1.pdf |only man/figures/boxplotDataOCWidths-1.pdf |only man/figures/boxplotVerticalDataOCWidths-1.pdf |only man/figures/histogramDataOCWidths-1.pdf |only man/figures/histogramPerSiteAndColourTaxon-1.pdf |only man/figures/histogramPerTaxonAndSite-1.pdf |only man/referencesDatabase.Rd | 279 +++++++++++++++-------- vignettes/index.Rmd | 38 +-- 53 files changed, 1623 insertions(+), 1343 deletions(-)
Title: Virome Sequencing Analysis Result Browser
Description: Experiments in which highly complex virome sequencing data is generated are difficult to visualize and unpack for a person without programming experience.
After processing of the raw sequencing data by a next generation sequencing (NGS) processing pipeline the usual output consists of contiguous sequences (contigs) in fasta format and an annotation file linking the
contigs to a reference sequence. The virome analysis browser app imports an annotation file, a corresponding fasta file containing the annotated contigs and a alignment file in BAM format of the sequence reads aligned to the contigs.
It facilitates browsing of annotations in multiple files and allows users to select and export specific annotated sequences from the associated fasta files. Various
annotation quality thresholds can be set to filter contigs from the annotation files. Further inspection of selected contigs can be done in the form of automatic open
reading frame (ORF) detection. Separate contigs and/or separate ORFs can be downloaded in nucleotide or amino acid format for further analysis.
Author: David Nieuwenhuijse [aut, cre]
Maintainer: David Nieuwenhuijse <d.nieuwenhuijse@erasmusmc.nl>
Diff between viromeBrowser versions 1.0.0 dated 2019-08-21 and 1.1.0 dated 2021-04-07
viromeBrowser-1.0.0/viromeBrowser/inst/extdata |only viromeBrowser-1.1.0/viromeBrowser/DESCRIPTION | 17 viromeBrowser-1.1.0/viromeBrowser/MD5 | 53 - viromeBrowser-1.1.0/viromeBrowser/NEWS.md | 11 viromeBrowser-1.1.0/viromeBrowser/README.md | 38 viromeBrowser-1.1.0/viromeBrowser/build/vignette.rds |binary viromeBrowser-1.1.0/viromeBrowser/inst/app/global.R | 3 viromeBrowser-1.1.0/viromeBrowser/inst/app/heatmap_panel.R | 342 +++++-- viromeBrowser-1.1.0/viromeBrowser/inst/app/modules.R | 436 ++++++---- viromeBrowser-1.1.0/viromeBrowser/inst/app/seq_info.R | 50 - viromeBrowser-1.1.0/viromeBrowser/inst/app/server.R | 9 viromeBrowser-1.1.0/viromeBrowser/inst/app/ui.R | 87 + viromeBrowser-1.1.0/viromeBrowser/inst/doc/viromeBrowser.R | 23 viromeBrowser-1.1.0/viromeBrowser/inst/doc/viromeBrowser.Rmd | 46 - viromeBrowser-1.1.0/viromeBrowser/inst/doc/viromeBrowser.html | 129 +- viromeBrowser-1.1.0/viromeBrowser/man/viromeBrowser.Rd | 7 viromeBrowser-1.1.0/viromeBrowser/vignettes/image1.png |binary viromeBrowser-1.1.0/viromeBrowser/vignettes/image2.png |binary viromeBrowser-1.1.0/viromeBrowser/vignettes/image3.png |binary viromeBrowser-1.1.0/viromeBrowser/vignettes/image4.png |binary viromeBrowser-1.1.0/viromeBrowser/vignettes/image5.png |binary viromeBrowser-1.1.0/viromeBrowser/vignettes/image6.png |binary viromeBrowser-1.1.0/viromeBrowser/vignettes/image7.png |binary viromeBrowser-1.1.0/viromeBrowser/vignettes/viromeBrowser.Rmd | 46 - 24 files changed, 852 insertions(+), 445 deletions(-)
Title: Build and Raytrace 3D Scenes
Description: Render scenes using pathtracing. Build 3D scenes out of spheres, cubes, planes, disks, triangles, cones, curves, line segments, cylinders, ellipsoids, and 3D models in the 'Wavefront' OBJ file format or the PLY Polygon File Format. Supports several material types, textures, multicore rendering, and tone-mapping. Based on the "Ray Tracing in One Weekend" book series. Peter Shirley (2018) <https://raytracing.github.io>.
Author: Tyler Morgan-Wall [aut, cph, cre]
(<https://orcid.org/0000-0002-3131-3814>),
Syoyo Fujita [ctb, cph],
Melissa O'Neill [ctb, cph],
Vilya Harvey [ctb, cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayrender versions 0.21.1 dated 2021-04-03 and 0.21.2 dated 2021-04-07
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/miniply.cpp | 4 ++++ 3 files changed, 9 insertions(+), 5 deletions(-)
Title: Chart Generation for 'Microsoft Word' and 'Microsoft PowerPoint'
Documents
Description: Create native charts for 'Microsoft PowerPoint' and 'Microsoft Word' documents.
These can then be edited and annotated. Functions are provided to let users create charts, modify
and format their content. The chart's underlying data is automatically saved within the
'Word' document or 'PowerPoint' presentation. It extends package 'officer' that does
not contain any feature for 'Microsoft' native charts production.
Author: David Gohel [aut, cre],
ArData [cph],
YouGov [fnd],
David Camposeco [ctb] (chart_data_smooth function)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between mschart versions 0.2.5 dated 2019-11-14 and 0.2.6 dated 2021-04-07
mschart-0.2.5/mschart/R/chart_data_color.R |only mschart-0.2.5/mschart/R/mschart.R |only mschart-0.2.5/mschart/R/ooml_code.R |only mschart-0.2.5/mschart/build |only mschart-0.2.5/mschart/inst/doc |only mschart-0.2.5/mschart/man/mschart.Rd |only mschart-0.2.5/mschart/man/ph_with_chart.Rd |only mschart-0.2.5/mschart/vignettes |only mschart-0.2.6/mschart/DESCRIPTION | 31 +- mschart-0.2.6/mschart/LICENSE | 4 mschart-0.2.6/mschart/MD5 | 76 +++--- mschart-0.2.6/mschart/NAMESPACE | 6 mschart-0.2.6/mschart/NEWS.md | 13 + mschart-0.2.6/mschart/R/axis_codes.R | 41 +-- mschart-0.2.6/mschart/R/body_add_chart.R | 4 mschart-0.2.6/mschart/R/chart_data_labels.R | 28 +- mschart-0.2.6/mschart/R/chart_data_styles.R |only mschart-0.2.6/mschart/R/chart_labels.R |only mschart-0.2.6/mschart/R/datasets.R |only mschart-0.2.6/mschart/R/defunct.R |only mschart-0.2.6/mschart/R/ms_chart.R | 251 ++++++++++----------- mschart-0.2.6/mschart/R/ph_with_chart.R | 27 -- mschart-0.2.6/mschart/R/series.R | 180 ++++++++------- mschart-0.2.6/mschart/R/simple_types.R | 2 mschart-0.2.6/mschart/R/to_pml.R |only mschart-0.2.6/mschart/R/utils.R | 11 mschart-0.2.6/mschart/README.md | 23 - mschart-0.2.6/mschart/inst/make |only mschart-0.2.6/mschart/man/body_add_chart.Rd | 4 mschart-0.2.6/mschart/man/browser_data.Rd | 6 mschart-0.2.6/mschart/man/browser_ts.Rd | 6 mschart-0.2.6/mschart/man/chart_ax_x.Rd | 2 mschart-0.2.6/mschart/man/chart_data_fill.Rd | 2 mschart-0.2.6/mschart/man/chart_data_line_style.Rd |only mschart-0.2.6/mschart/man/chart_data_line_width.Rd | 2 mschart-0.2.6/mschart/man/chart_data_size.Rd | 2 mschart-0.2.6/mschart/man/chart_data_smooth.Rd | 2 mschart-0.2.6/mschart/man/chart_data_stroke.Rd | 2 mschart-0.2.6/mschart/man/chart_data_symbol.Rd | 2 mschart-0.2.6/mschart/man/chart_labels.Rd | 2 mschart-0.2.6/mschart/man/chart_labels_text.Rd | 2 mschart-0.2.6/mschart/man/ms_areachart.Rd |only mschart-0.2.6/mschart/man/ms_barchart.Rd |only mschart-0.2.6/mschart/man/ms_linechart.Rd |only mschart-0.2.6/mschart/man/ms_scatterchart.Rd |only mschart-0.2.6/mschart/man/mschart-defunct.Rd |only 46 files changed, 370 insertions(+), 361 deletions(-)
Title: Design of Optimum-Path Forest Classifiers
Description: The 'LibOPF' is a framework to develop pattern recognition techniques based on optimum-path forests (OPF), João P. Papa and Alexandre X. Falcão (2008) <doi:10.1007/978-3-540-89639-5_89>, with methods for supervised learning and data clustering.
Author: Rafael Junqueira Martarelli [aut, cre],
João Paulo Papa [aut],
Alexandre Xavier Falcão [cph]
Maintainer: Rafael Junqueira Martarelli <rfel.jm@gmail.com>
Diff between LibOPF versions 2.6.0 dated 2020-04-12 and 2.6.1 dated 2021-04-07
DESCRIPTION | 15 +++++++-------- MD5 | 4 ++-- README.md | 8 +++++++- 3 files changed, 16 insertions(+), 11 deletions(-)
Title: Multiple Geometric Shape Point Layer for 'ggplot2'
Description: To create the multiple polygonal point layer for easily discernible shapes,
we developed the package, it is like the 'geom_point' of 'ggplot2'.
It can be used to draw the scatter plot.
Author: Shuangbin Xu [aut, cre] (<https://orcid.org/0000-0003-3513-5362>)
Maintainer: Shuangbin Xu <xshuangbin@163.com>
Diff between ggstar versions 1.0.1 dated 2021-02-10 and 1.0.2 dated 2021-04-07
DESCRIPTION | 13 ++-- MD5 | 22 +++---- NEWS.md | 2 R/geom-star.R | 21 ++++-- R/scale-starshape.R | 8 +- build/vignette.rds |binary inst/doc/ggstar.R | 4 - inst/doc/ggstar.Rmd | 4 - inst/doc/ggstar.html | 150 +++++++++++++++++++++++++++++-------------------- man/geom_star.Rd | 21 ++++-- man/scale_starshape.Rd | 10 +-- vignettes/ggstar.Rmd | 4 - 12 files changed, 156 insertions(+), 103 deletions(-)
Title: Stability Measures for Feature Selection
Description: An implementation of many measures for the
assessment of the stability of feature selection. Both simple measures
and measures which take into account the similarities between features
are available, see Bommert (2020) <doi:10.17877/DE290R-21906>.
Author: Andrea Bommert [aut, cre] (<https://orcid.org/0000-0002-1005-9351>),
Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>)
Maintainer: Andrea Bommert <bommert@statistik.tu-dortmund.de>
Diff between stabm versions 1.2.0 dated 2021-03-30 and 1.2.1 dated 2021-04-07
DESCRIPTION | 6 +++--- MD5 | 9 +++++---- README.md | 18 ++++++++++++++++++ build/partial.rdb |binary inst/CITATION |only inst/doc/stabm.pdf |binary 6 files changed, 26 insertions(+), 7 deletions(-)
Title: Mixed-Effect Models, Particularly Spatial Models
Description: Inference based on mixed-effect models, including generalized linear mixed models with spatial correlations, multivariate responses, and models with non-Gaussian random effects (e.g., Beta). Various approximations of likelihood or restricted likelihood are implemented, in particular Laplace approximation and h-likelihood (Lee and Nelder 2001 <doi:10.1093/biomet/88.4.987>). Both classical geostatistical models, and Markov random field models on irregular grids (as considered in the 'INLA' package, <https://www.r-inla.org>), can be fitted. Variation in residual variance (heteroscedasticity) can itself be represented by a mixed-effect model.
Author: François Rousset [aut, cre, cph]
(<https://orcid.org/0000-0003-4670-0371>),
Jean-Baptiste Ferdy [aut, cph],
Alexandre Courtiol [aut] (<https://orcid.org/0000-0003-0637-2959>),
GSL authors [ctb] (src/gsl_bessel.*)
Maintainer: François Rousset <francois.rousset@umontpellier.fr>
Diff between spaMM versions 3.7.2 dated 2021-02-26 and 3.7.34 dated 2021-04-07
DESCRIPTION | 10 MD5 | 137 +++++----- NAMESPACE | 2 R/COMPoisson.R | 165 +++++++----- R/HLCor.R | 4 R/HLCor_body.R | 6 R/HLfit.R | 8 R/HLfit_Internals.R | 191 +++++++++++--- R/HLfit_body.R | 25 + R/HLfit_body_augZXy.R | 7 R/HLframes.R | 12 R/RcppExports.R | 8 R/SEM.R | 2 R/augZXy_obj.R | 3 R/confint.R | 68 +++-- R/corrHLfit.R | 8 R/corrMM.LRT.R | 32 +- R/cov_new_fix.R | 2 R/extractors.R | 46 +++ R/fit_as_ZX.R | 7 R/fit_as_sparsePrecision.R | 22 - R/fitme.R | 8 R/fitmecorrHLfit_body_internals.R | 103 ++++--- R/get_inits_by_glm.R | 4 R/multinomial.R | 3 R/negbin.R | 2 R/newPLS.R | 40 --- R/plot.HLfit.R | 2 R/poisson.R | 31 -- R/postfit_internals.R | 13 R/predict.R | 54 +++- R/preprocess_MV.R | 26 + R/preprocess_internals.R | 9 R/profile.R | 4 R/sXaug_EigenDense_QRP_Chol_scaled.R | 209 +++++++-------- R/sXaug_Matrix_CHM.R |only R/sXaug_Matrix_QRP_CHM.R | 217 ++++++++-------- R/sXaug_sparsePrecisions.R | 373 +++++++++++----------------- R/separator.R | 3 R/simulate.HL.R | 2 R/spaMM_boot.R | 2 R/summary.HL.R | 55 ++-- R/update.HL.R | 2 build/partial.rdb |binary data/recond.RData |only inst/NEWS.Rd | 26 + man/COMPoisson.Rd | 17 - man/PLS-internals.Rd | 2 man/confint.Rd | 16 - man/convergence.Rd | 24 - man/freight.Rd | 2 man/get_inits_from_fit.Rd | 2 man/get_matrix.Rd | 2 man/get_ranPars.Rd | 5 man/inits.Rd |only man/multinomial.Rd | 21 - man/options.Rd | 4 man/residVar.Rd | 2 man/spaMM-internal.Rd | 2 src/RcppExports.cpp | 26 + src/internals.cpp | 12 tests/test-all.R | 2 tests/testthat/nestedFiles/test-mv-nested.R | 26 + tests/testthat/test-COMPoisson.R | 4 tests/testthat/test-IsoriX-new.R | 5 tests/testthat/test-adjacency-corrMatrix.R | 10 tests/testthat/test-cloglog.R | 4 tests/testthat/test-confint.R | 5 tests/testthat/test-fixedLRT.R | 5 tests/testthat/test-multinomial.R | 2 tests/testthat/test-mv.R | 15 + 71 files changed, 1267 insertions(+), 901 deletions(-)
Title: Simulation Methods for Legislative Redistricting
Description: Enables researchers to sample redistricting plans from a pre-specified
target distribution using Sequential Monte Carlo and Markov Chain Monte Carlo
algorithms. The package allows for the implementation of various constraints in
the redistricting process such as geographic compactness and population parity
requirements. Tools for analysis such as computation of various summary statistics
and plotting functionality are also included. The package implements methods
described in Fifield, Higgins, Imai and Tarr (2020) <doi: 10.1080/10618600.2020.1739532>,
Fifield, Imai, Kawahara, and Kenny (2020) <doi: 10.1080/2330443X.2020.1791773>,
and McCartan and Imai (2020) <arXiv: 2008.06131>.
Author: Christopher T. Kenny [aut, cre],
Cory McCartan [aut],
Ben Fifield [aut],
Kosuke Imai [aut],
Jun Kawahara [ctb],
Alexander Tarr [ctb],
Michael Higgins [ctb]
Maintainer: Christopher T. Kenny <christopherkenny@fas.harvard.edu>
Diff between redist versions 2.0.2 dated 2020-10-13 and 3.0.1 dated 2021-04-07
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Title: a Non-Parametric Statistical Significance Test for Rolling
Correlation
Description: Estimates and plots (as a heat map) the statistical significance of rolling window correlation coefficients, which is carried out through a non-parametric computing-intensive method. This method addresses the effects due to the multiple testing (inflation of the Type I error) when the statistical significance is estimated for the rolling window correlation coefficients. The method is based on Monte Carlo simulations by permuting one of the variables (dependent) under analysis and keeping fixed the other variable (independent). We improve the computational efficiency of this method to reduce the computation time through parallel computing. The 'NonParRolCor' package also provides examples with synthetic and real-life ecological time series to exemplify its use. Methods derived from R. Telford (2013) <https://quantpalaeo.wordpress.com/2013/01/04/> and J.M. Polanco-Martinez (2020) <doi:10.1016/j.ecoinf.2020.101163>.
Author: Josue M. Polanco-Martinez [aut, cph, cre]
(<https://orcid.org/0000-0001-7164-0185>),
Jose L. Lopez-Martinez [ctb] (<https://orcid.org/0000-0002-2489-7559>)
Maintainer: Josue M. Polanco-Martinez <josue.m.polanco@gmail.com>
Diff between NonParRolCor versions 0.4.0 dated 2021-03-31 and 0.6.0 dated 2021-04-07
DESCRIPTION | 6 ++--- MD5 | 14 ++++++------ R/estimation_NonParRolCor.R | 45 ++++++++++++++++++++--------------------- R/heatmap_NonParRolCor.R | 32 +++++++++++++++-------------- build/partial.rdb |binary man/NonParRolCor-package.Rd | 4 +-- man/estimation_NonParRolCor.Rd | 6 ++--- man/heatmap_NonParRolCor.Rd | 10 ++++----- 8 files changed, 60 insertions(+), 57 deletions(-)
Title: A Handbook of Statistical Analyses Using R (3rd Edition)
Description: Functions, data sets, analyses and examples from the
third edition of the book
''A Handbook of Statistical Analyses Using R'' (Torsten Hothorn and Brian S.
Everitt, Chapman & Hall/CRC, 2014). The first chapter
of the book, which is entitled ''An Introduction to R'',
is completely included in this package, for all other chapters,
a vignette containing all data analyses is available. In addition,
Sweave source code for slides of selected chapters is included in
this package (see HSAUR3/inst/slides). The publishers web page is
'<http://www.crcpress.com/product/isbn/9781482204582>'.
Author: Torsten Hothorn and Brian S. Everitt
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between HSAUR3 versions 1.0-10 dated 2020-09-21 and 1.0-11 dated 2021-04-07
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Title: Estimation of Hawkes Processes from Binned Observations
Description: Implements an estimation method for Hawkes processes when count data are only observed in discrete time, using a spectral approach derived from the Bartlett spectrum, see Cheysson and Lang (2020) <arXiv:2003.04314>. Some general use functions for Hawkes processes are also included: simulation of (in)homogeneous Hawkes process, maximum likelihood estimation, residual analysis, etc.
Author: Felix Cheysson [aut, cre] (<https://orcid.org/0000-0002-9095-2878>)
Maintainer: Felix Cheysson <felix@cheysson.fr>
Diff between hawkesbow versions 1.0.0 dated 2021-03-31 and 1.0.1 dated 2021-04-07
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NAMESPACE | 1 + R/hawkesbow-package.R | 2 +- inst/doc/hawkesbow.pdf |binary src/utils.cpp | 2 ++ 6 files changed, 12 insertions(+), 9 deletions(-)
Title: Port of 'Dparser' Package
Description: A Scannerless GLR parser/parser generator. Note that GLR standing for "generalized LR", where L stands for "left-to-right" and
R stands for "rightmost (derivation)". For more information see <https://en.wikipedia.org/wiki/GLR_parser>. This parser is based on the Tomita
(1987) algorithm. (Paper can be found at <https://www.aclweb.org/anthology/P84-1073.pdf>).
The original 'dparser' package documentation can be found at <http://dparser.sourceforge.net/>. This allows you to add mini-languages to R (like
RxODE's ODE mini-language Wang, Hallow, and James 2015 <DOI:10.1002/psp4.12052>) or to parse other languages like 'NONMEM' to automatically translate
them to R code. To use this in your code, add a LinkingTo dparser in your DESCRIPTION file and instead of using #include <dparse.h> use
#include <dparser.h>. This also provides a R-based port of the make_dparser <http://dparser.sourceforge.net/d/make_dparser.cat> command called
mkdparser(). Additionally you can parse an arbitrary grammar within R using the dparse() function, which works on most OSes and is mainly for grammar
testing. The fastest parsing, of course, occurs at the C level, and is suggested.
Author: Matthew Fidler [aut, cre],
John Plevyak [aut, cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between dparser versions 1.3.1-3 dated 2021-04-06 and 1.3.1-4 dated 2021-04-07
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 5 +++++ R/version.R | 2 +- src/write_tables.c | 8 ++++++-- tests/testthat/test-dparser.R | 3 --- 6 files changed, 20 insertions(+), 14 deletions(-)
Title: Tools to Make Developing R Packages Easier
Description: Collection of package development tools.
Author: Hadley Wickham [aut],
Jim Hester [aut, cre],
Winston Chang [aut],
RStudio [cph, fnd]
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between devtools versions 2.3.2 dated 2020-09-18 and 2.4.0 dated 2021-04-07
devtools-2.3.2/devtools/R/check-results.R |only devtools-2.3.2/devtools/R/cran.R |only devtools-2.3.2/devtools/R/inst.R |only devtools-2.3.2/devtools/R/upload-ftp.R |only devtools-2.3.2/devtools/man/check_failures.Rd |only devtools-2.3.2/devtools/man/devtest.Rd |only devtools-2.3.2/devtools/tests/testthat/test-examples.R |only devtools-2.3.2/devtools/tests/testthat/test-sort.R |only devtools-2.3.2/devtools/tests/testthat/test-source_gist.R |only devtools-2.3.2/devtools/tests/testthat/testReadme |only devtools-2.4.0/devtools/DESCRIPTION | 43 - devtools-2.4.0/devtools/LICENSE |only devtools-2.4.0/devtools/MD5 | 153 ++--- devtools-2.4.0/devtools/NAMESPACE | 10 devtools-2.4.0/devtools/NEWS.md | 40 + devtools-2.4.0/devtools/R/active.R |only devtools-2.4.0/devtools/R/build-manual.R | 6 devtools-2.4.0/devtools/R/build-readme.R | 31 - devtools-2.4.0/devtools/R/build-site.R | 4 devtools-2.4.0/devtools/R/check-devtools.R | 22 devtools-2.4.0/devtools/R/check-doc.R | 4 devtools-2.4.0/devtools/R/check-win.R | 51 + devtools-2.4.0/devtools/R/check.R | 50 + devtools-2.4.0/devtools/R/dev-mode.R | 19 devtools-2.4.0/devtools/R/document.R | 26 devtools-2.4.0/devtools/R/git.R | 2 devtools-2.4.0/devtools/R/github.R | 108 --- devtools-2.4.0/devtools/R/has-tests.R | 7 devtools-2.4.0/devtools/R/install.R | 4 devtools-2.4.0/devtools/R/lint.R | 4 devtools-2.4.0/devtools/R/package.R | 25 devtools-2.4.0/devtools/R/pkgbuild.R | 5 devtools-2.4.0/devtools/R/pkgload.R | 6 devtools-2.4.0/devtools/R/r-hub.R | 6 devtools-2.4.0/devtools/R/release.R | 48 - devtools-2.4.0/devtools/R/reload.R | 4 devtools-2.4.0/devtools/R/revdep.R | 5 devtools-2.4.0/devtools/R/run-examples.R | 16 devtools-2.4.0/devtools/R/run-source.R | 15 devtools-2.4.0/devtools/R/show-news.R | 4 devtools-2.4.0/devtools/R/sitrep.R | 27 devtools-2.4.0/devtools/R/spell-check.R | 2 devtools-2.4.0/devtools/R/test.R | 298 ++-------- devtools-2.4.0/devtools/R/uninstall.R | 4 devtools-2.4.0/devtools/R/utils.R | 130 ---- devtools-2.4.0/devtools/R/vignette-r.R | 90 +-- devtools-2.4.0/devtools/R/vignettes.R | 45 - devtools-2.4.0/devtools/R/wd.R | 6 devtools-2.4.0/devtools/R/zzz.R | 2 devtools-2.4.0/devtools/build/vignette.rds |binary devtools-2.4.0/devtools/inst/WORDLIST | 1 devtools-2.4.0/devtools/inst/doc/dependencies.html | 23 devtools-2.4.0/devtools/man/build.Rd | 5 devtools-2.4.0/devtools/man/build_vignettes.Rd | 2 devtools-2.4.0/devtools/man/check.Rd | 13 devtools-2.4.0/devtools/man/devtools-deprecated.Rd | 11 devtools-2.4.0/devtools/man/devtools.Rd | 4 devtools-2.4.0/devtools/man/install.Rd | 2 devtools-2.4.0/devtools/man/install_deps.Rd | 4 devtools-2.4.0/devtools/man/load_all.Rd | 12 devtools-2.4.0/devtools/man/package_file.Rd | 1 devtools-2.4.0/devtools/man/reexports.Rd | 7 devtools-2.4.0/devtools/man/revdep.Rd | 1 devtools-2.4.0/devtools/man/test.Rd | 49 - devtools-2.4.0/devtools/man/uses_testthat.Rd |only devtools-2.4.0/devtools/tests/testthat/helper.R | 27 devtools-2.4.0/devtools/tests/testthat/test-active.R |only devtools-2.4.0/devtools/tests/testthat/test-build-readme.R | 45 + devtools-2.4.0/devtools/tests/testthat/test-build-site.R | 13 devtools-2.4.0/devtools/tests/testthat/test-check.R | 35 - devtools-2.4.0/devtools/tests/testthat/test-install.R | 22 devtools-2.4.0/devtools/tests/testthat/test-reload.R | 6 devtools-2.4.0/devtools/tests/testthat/test-run-examples.R |only devtools-2.4.0/devtools/tests/testthat/test-run-source.R |only devtools-2.4.0/devtools/tests/testthat/test-sitrep.R | 1 devtools-2.4.0/devtools/tests/testthat/test-test.R | 49 - devtools-2.4.0/devtools/tests/testthat/test-uninstall.R | 18 devtools-2.4.0/devtools/tests/testthat/test-utils.R |only devtools-2.4.0/devtools/tests/testthat/test-vignettes.R | 133 ++-- devtools-2.4.0/devtools/tests/testthat/testTest/DESCRIPTION | 6 devtools-2.4.0/devtools/tests/testthat/testTest/tests/testthat/test-dummy.R | 2 devtools-2.4.0/devtools/tests/testthat/testTest/tests/testthat/test-envvar.R | 2 devtools-2.4.0/devtools/tests/testthat/testTestWithDepends/tests/testthat/test-dummy.R | 2 devtools-2.4.0/devtools/tests/testthat/testTestWithFailure/tests/testthat/test-fail.R | 2 devtools-2.4.0/devtools/tests/testthat/testTestWithFailure/tests/testthat/test-warn.R | 2 85 files changed, 800 insertions(+), 1022 deletions(-)
Title: Bayesian Structural Time Series
Description: Time series regression using dynamic linear models fit using
MCMC. See Scott and Varian (2014) <DOI:10.1504/IJMMNO.2014.059942>, among many
other sources.
Author: Steven L. Scott <steve.the.bayesian@gmail.com>
Maintainer: Steven L. Scott <steve.the.bayesian@gmail.com>
Diff between bsts versions 0.9.5 dated 2020-05-02 and 0.9.6 dated 2021-04-07
DESCRIPTION | 12 ++++++------ MD5 | 27 +++++++++++++++++---------- R/add.seasonal.R | 4 ++-- R/mixed.frequency.R | 4 ++-- R/update.bsts.R |only inst/tests/tests/testthat/test-ar.R |only inst/tests/tests/testthat/test-student.R |only inst/tests/testthat/test-ar.R |only inst/tests/testthat/test-student.R |only man/bsts.Rd | 4 ++-- man/dirm.Rd | 2 +- man/mbsts.Rd | 14 +++++++------- src/state_space_student_model_manager.cc | 11 ++++++----- tests/testthat/test-ar.R |only tests/testthat/test-dirm.R | 8 ++++---- tests/testthat/test-prediction-errors.R | 2 +- tests/testthat/test-regressionholiday.R | 4 ++-- tests/testthat/test-student.R |only 18 files changed, 50 insertions(+), 42 deletions(-)
Title: Predict and Visualize Population-Level Changes in Allele
Frequencies in Response to Climate Change
Description: Methods (Kindt, R. 2021. <doi:10.1101/2021.01.15.426775>) are provided of calibrating and predicting shifts in allele frequencies through redundancy analysis ('vegan::rda()') and generalized additive models ('mgcv::gam()'). Visualization functions for predicted changes in allele frequencies include 'shift.dot.ggplot()', 'shift.pie.ggplot()', 'shift.moon.ggplot()', 'shift.waffle.ggplot()' and 'shift.surf.ggplot()' that are made with input data sets that are prepared by helper functions for each visualization method. Examples in the documentation show how to prepare animated climate change graphics through a time series with the 'gganimate' package. Function 'amova.rda()' shows how Analysis of Molecular Variance can be directly conducted with the results from redundancy analysis.
Author: Roeland Kindt [cre, aut] (<https://orcid.org/0000-0002-7672-0712>)
Maintainer: Roeland Kindt <R.KINDT@CGIAR.ORG>
Diff between AlleleShift versions 0.9-2 dated 2021-01-29 and 1.0-1 dated 2021-04-07
DESCRIPTION | 8 - MD5 | 19 +-- NAMESPACE | 2 R/environmental.novel.R |only R/shift.dot.ggplot.R | 141 +++++++++++----------- R/shift.moon.ggplot.R | 272 ++++++++++++++++++++++---------------------- R/shift.pie.ggplot.R | 279 ++++++++++++++++++++++----------------------- R/shift.waffle.ggplot.R | 295 ++++++++++++++++++++++++------------------------ build/partial.rdb |binary inst/ChangeLog | 9 + man/population.shift.Rd | 32 +++-- 11 files changed, 543 insertions(+), 514 deletions(-)
More information about gghilbertstrings at CRAN
Permanent link
More information about ClaimsProblems at CRAN
Permanent link
Title: Bay Area Bike Share Trips in 2014
Description: Anonymised Bay Area bike share trip data for the year 2014.
Also contains additional metadata on stations and weather.
Author: Arunkumar Srinivasan [aut, cre]
Maintainer: Arunkumar Srinivasan <asrini@pm.me>
Diff between bikeshare14 versions 0.1.2 dated 2019-01-03 and 0.1.4 dated 2021-04-07
DESCRIPTION | 15 ++++++++------- MD5 | 10 +++++----- NEWS.md | 10 +++++++--- man/bastations.rd | 2 +- man/batrips.rd | 2 +- man/baweather.rd | 2 +- 6 files changed, 23 insertions(+), 18 deletions(-)
Title: Automatic Structural Time Series Models
Description: Automatic model selection for structural time series decomposition into trend, cycle, and seasonal components using the Kalman filter.
Koopman, Siem Jan and Marius Ooms (2012) "Forecasting Economic Time Series Using Unobserved Components Time Series Models" <doi:10.1093/oxfordhb/9780195398649.013.0006>.
Kim, Chang-Jin and Charles R. Nelson (1999) "State-Space Models with Regime Switching: Classical and Gibbs-Sampling Approaches with Applications" <doi:10.7551/mitpress/6444.001.0001><http://econ.korea.ac.kr/~cjkim/>.
Author: Alex Hubbard
Maintainer: Alex Hubbard <hubbard.alex@gmail.com>
Diff between autostsm versions 1.2.1 dated 2021-03-01 and 1.2.2 dated 2021-04-07
DESCRIPTION | 11 MD5 | 52 ++-- NAMESPACE | 34 +- R/RcppExports.R | 8 R/data.R | 79 +++--- R/stsm_constraints.R | 307 ++++++++++++-------------- R/stsm_data_checks.R | 2 R/stsm_detect_anomalies.R | 19 - R/stsm_detect_breaks.R | 158 +++++++------ R/stsm_detect_factors.R |only R/stsm_estimate.R | 50 ++-- R/stsm_forecast.R | 55 ++-- R/stsm_init_pars.R | 100 +------- R/stsm_init_vals.R | 10 R/stsm_multivar_ssm.R |only R/stsm_ssm.R | 464 +++++++++++++++++----------------------- data/sw_dcf.RData |only inst/doc/autostsm_vignette.R | 3 inst/doc/autostsm_vignette.Rmd | 47 ++-- inst/doc/autostsm_vignette.html | 360 +++++++++++++++---------------- man/stsm_check_exo.Rd | 38 +-- man/stsm_check_exo_fc.Rd | 38 +-- man/stsm_check_y.Rd | 34 +- man/stsm_estimate.Rd | 263 +++++++++++----------- man/stsm_format_exo.Rd | 42 +-- man/sw_dcf.Rd |only src/RcppExports.cpp | 49 +--- src/kalmanfilter.cpp | 107 +++------ vignettes/autostsm_vignette.Rmd | 47 ++-- 29 files changed, 1113 insertions(+), 1264 deletions(-)
Title: Multivariate Multiscale Spatial Analysis
Description: Tools for the multiscale spatial analysis of multivariate data.
Several methods are based on the use of a spatial weighting matrix and its
eigenvector decomposition (Moran's Eigenvectors Maps, MEM).
Several approaches are described in the review Dray et al (2012)
<doi:10.1890/11-1183.1>.
Author: Stéphane Dray, David Bauman, Guillaume Blanchet, Daniel Borcard,
Sylvie Clappe, Guillaume Guenard, Thibaut Jombart, Guillaume Larocque,
Pierre Legendre, Naima Madi, Helene H Wagner
Maintainer: Stéphane Dray <stephane.dray@univ-lyon1.fr>
Diff between adespatial versions 0.3-13 dated 2021-02-26 and 0.3-14 dated 2021-04-07
adespatial-0.3-13/adespatial/man/figures/logo.png |only adespatial-0.3-14/adespatial/DESCRIPTION | 10 ++-- adespatial-0.3-14/adespatial/MD5 | 16 +++---- adespatial-0.3-14/adespatial/R/LCBD.comp.R | 3 - adespatial-0.3-14/adespatial/R/globloc.rtests.R | 10 ---- adespatial-0.3-14/adespatial/inst/doc/tutorial.R | 7 +-- adespatial-0.3-14/adespatial/inst/doc/tutorial.Rmd | 9 +--- adespatial-0.3-14/adespatial/inst/doc/tutorial.html | 41 +++++++++++--------- adespatial-0.3-14/adespatial/man/figures/logo.svg |only adespatial-0.3-14/adespatial/vignettes/tutorial.Rmd | 9 +--- 10 files changed, 51 insertions(+), 54 deletions(-)
Title: Tools for Comparing Text Messages Across Time and Media
Description: A collection of tools for measuring the similarity of text messages and tracing the flow of messages over
time and across media.
Author: Kasper Welbers & Wouter van Atteveldt
Maintainer: Kasper Welbers <kasperwelbers@gmail.com>
Diff between RNewsflow versions 1.2.5 dated 2020-11-02 and 1.2.6 dated 2021-04-07
DESCRIPTION | 6 ++-- MD5 | 22 ++++++++-------- R/compare_documents.r | 8 +++--- R/cp_sensitive_lookup.r | 50 +++----------------------------------- R/crossprod.r | 5 +-- R/feature_preparation.r | 8 +++--- build/vignette.rds |binary inst/doc/RNewsflow.html | 10 +++---- man/compare_documents.Rd | 3 +- man/create_queries.Rd | 2 - tests/testthat/test_lookup_cooc.r | 3 +- tests/testthat/test_newsflow.r | 3 +- 12 files changed, 40 insertions(+), 80 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-01-24 0.4
2014-01-24 0.41
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-11-13 1.0.3
2016-05-23 0.1.6
2015-11-26 0.1.4
2015-07-01 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-04-25 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-05-08 2.3.0
2013-05-02 2.2.0
2012-08-17 2.0.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-10-28 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-12-15 2.2
2016-11-15 2.1
2016-03-07 2.0
2016-01-10 1.9
2016-01-09 1.8
2015-10-28 1.7
2015-10-25 1.5
2015-03-10 1.4
2014-12-10 1.3
2013-12-20 1.2
2011-12-10 1.1
2011-09-07 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-10-07 0.1.1
2014-10-05 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-26 4.4.3
2018-10-05 4.3.2
2018-01-24 4.2.6
2017-02-27 4.2.3
2016-11-30 4.2.1
2016-11-29 4.2.0
2015-11-27 4.0.2
2015-01-23 3.0.2
2014-01-16 3.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-18 0.1.3
2018-10-31 0.1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-07-18 1.0-2
2018-12-16 1.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-07-15 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-19 1.0.3
2015-03-25 1.0.1
2015-03-15 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-06 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-15 1.0.2
2020-12-11 1.0.1
2020-10-13 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-28 1.5-3-1.0.1
2021-03-24 1.5-3-1.0.0
Title: Estimation and Inference Methods for Sorted Causal Effects and
Classification Analysis
Description: Implements the estimation and inference methods for sorted causal effects and
classification analysis as in Chernozhukov, Fernandez-Val and Luo (2018) <doi:10.3982/ECTA14415>.
Author: Shuowen Chen [aut, cre],
Victor Chernozhukov [aut],
Ivan Fernandez-Val [aut],
Ye Luo [aut]
Maintainer: Shuowen Chen <swchen@bu.edu>
Diff between SortedEffects versions 1.2.0 dated 2020-04-01 and 1.3.0 dated 2021-04-07
DESCRIPTION | 8 +-- MD5 | 28 +++++------ NEWS.md | 8 ++- R/spe.R | 15 +++--- build/vignette.rds |binary inst/doc/SortedEffects.R | 24 +++++----- inst/doc/SortedEffects.html | 103 +++++++++++++++++++++++++++++++++++++------- man/ca.Rd | 31 ++++++++++--- man/mortgage.Rd | 6 +- man/plot.ca.Rd | 3 - man/plot.spe.Rd | 11 +++- man/plot.subpop.Rd | 16 +++++- man/spe.Rd | 25 ++++++++-- man/subpop.Rd | 23 +++++++-- man/wage2015.Rd | 6 +- 15 files changed, 224 insertions(+), 83 deletions(-)
Title: Tools for Biometry and Applied Statistics in Agricultural
Science
Description: Tools designed to perform and evaluate cluster analysis (including Tocher's algorithm),
discriminant analysis and path analysis (standard and under collinearity), as well as some
useful miscellaneous tools for dealing with sample size and optimum plot size calculations.
A test for seed sample heterogeneity is now available. Mantel's permutation test can be found in this package.
A new approach for calculating its power is implemented. biotools also contains tests for genetic covariance components.
Heuristic approaches for performing non-parametric spatial predictions of generic response variables and
spatial gene diversity are implemented.
Author: Anderson Rodrigo da Silva [aut, cre]
(<https://orcid.org/0000-0003-2518-542X>)
Maintainer: Anderson Rodrigo da Silva <anderson.agro@hotmail.com>
Diff between biotools versions 4.0 dated 2020-12-07 and 4.1 dated 2021-04-07
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++----- NAMESPACE | 4 +++- NEWS | 5 +++++ R/mvpaircomp.R |only inst/CITATION | 17 +++++++++++++++++ man/biotools-package.Rd | 6 ++---- man/mvpaircomp.Rd |only 8 files changed, 38 insertions(+), 14 deletions(-)
Title: RJ Clustering Algorithm
Description: Clustering algorithm for high dimensional data. This algorithm is ideal for data where N << P. Assuming that P feature measurements on N objects are arranged in an N×P matrix X, this package provides clustering based on the left Gram matrix XX^T. When the P-dimensional feature vectors of objects are drawn independently from a K distinct mixture distribution, the N-dimensional rows of the modified Gram matrix XX^T/P converges almost surely to K distinct cluster means. This transformation/projection thus allows the clusters to be tighter with order of P. To simulate data, type "help('simulate_HD_data')" and to learn how to use the clustering algorithm, type "help('RJclust')".
Author: Rachael Shudde [aut, cre],
Shahina Rahman [aut],
Valen Johnson [aut]
Maintainer: Rachael Shudde <rachael.shudde@gmail.com>
Diff between RJcluster versions 0.1.2 dated 2021-03-10 and 2.5.0 dated 2021-04-06
RJcluster-0.1.2/RJcluster/man/f_rez.Rd |only RJcluster-0.1.2/RJcluster/man/generateSimulationData.Rd |only RJcluster-0.1.2/RJcluster/man/scaleRJ.Rd |only RJcluster-0.1.2/RJcluster/src/Makevars |only RJcluster-2.5.0/RJcluster/DESCRIPTION | 17 RJcluster-2.5.0/RJcluster/MD5 | 55 +- RJcluster-2.5.0/RJcluster/NAMESPACE | 5 RJcluster-2.5.0/RJcluster/R/AlgorithmImplementation.R | 298 +++++++----- RJcluster-2.5.0/RJcluster/R/DATA_generate_test_data.R | 115 +++- RJcluster-2.5.0/RJcluster/R/FUNC_AMI_calculations.R | 89 ++- RJcluster-2.5.0/RJcluster/R/FUNC_Gcov.R |only RJcluster-2.5.0/RJcluster/R/FUNC_RJ_calls.R |only RJcluster-2.5.0/RJcluster/R/FUNC_RJmean.R |only RJcluster-2.5.0/RJcluster/R/FUNC_bic_RJclust.R |only RJcluster-2.5.0/RJcluster/R/RcppExports.R | 56 ++ RJcluster-2.5.0/RJcluster/R/WrapperFunctions.R | 11 RJcluster-2.5.0/RJcluster/R/old_RJmean.R |only RJcluster-2.5.0/RJcluster/README.md | 3 RJcluster-2.5.0/RJcluster/build/partial.rdb |only RJcluster-2.5.0/RJcluster/cleanup |only RJcluster-2.5.0/RJcluster/configure |only RJcluster-2.5.0/RJcluster/configure.ac |only RJcluster-2.5.0/RJcluster/inst/doc/RJclust_Vignette.R | 29 - RJcluster-2.5.0/RJcluster/inst/doc/RJclust_Vignette.Rmd | 48 + RJcluster-2.5.0/RJcluster/inst/doc/RJclust_Vignette.pdf |binary RJcluster-2.5.0/RJcluster/man/Mutual_Information.Rd |only RJcluster-2.5.0/RJcluster/man/RJclust.Rd | 53 +- RJcluster-2.5.0/RJcluster/man/RJcluster-package.Rd |only RJcluster-2.5.0/RJcluster/man/simulate_HD_data.Rd |only RJcluster-2.5.0/RJcluster/src/AlgorithmImplementation_c.cpp | 15 RJcluster-2.5.0/RJcluster/src/FUNC_Gcov_c.cpp |only RJcluster-2.5.0/RJcluster/src/FUNC_RJmean_c.cpp |only RJcluster-2.5.0/RJcluster/src/FUNC_bic_RJclust_c.cpp |only RJcluster-2.5.0/RJcluster/src/FUNC_dmvnrm_rcpp.cpp |only RJcluster-2.5.0/RJcluster/src/Makevars.in |only RJcluster-2.5.0/RJcluster/src/Makevars.win | 49 + RJcluster-2.5.0/RJcluster/src/MatrixOperations.cpp | 6 RJcluster-2.5.0/RJcluster/src/RcppExports.cpp | 217 ++++++++ RJcluster-2.5.0/RJcluster/vignettes/RJclust_Vignette.Rmd | 48 + 39 files changed, 820 insertions(+), 294 deletions(-)
Title: A Zero Dependency 'SVG' Icon Library for 'Shiny'
Description: An implementation of the 'Heroicons' icon library for 'shiny'
applications and other 'R' web-based projects. You can search, render,
and customize icons without 'CSS' or 'JavaScript' dependencies.
Author: David Ruvolo [aut, cre] (<https://orcid.org/0000-0002-5745-5298>),
Adam Wathan [ctb, cph] (Author of heroicons library),
Steve Schoger [ctb, cph] (Author of heroicons library)
Maintainer: David Ruvolo <dcruvolo@gmail.com>
Diff between rheroicons versions 0.3.1 dated 2021-02-26 and 0.3.2 dated 2021-04-06
DESCRIPTION | 7 +++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/sysdata.rda |binary README.md | 35 +++++++++++++++++++++++------------ 5 files changed, 34 insertions(+), 20 deletions(-)
Title: "Eating the Liver of Data Science"
Description: Provides a collection of helper functions that make various techniques from data science more user-friendly for non-experts. In this way, our aim is to allow non-experts to become familiar with the techniques with only a minimal level of coding knowledge. Indeed, following an ancient Persian idiom, we refer to this as "eating the liver of data science" which could be interpreted as "getting intimately close with data science". Examples of procedures we include are: data partitioning for out-of-sample testing, computing Mean Squared Error (MSE) for quantifying prediction accuracy, and data transformation (z-score and min-max). Besides such helper functions, the package also includes several interesting datasets that are useful for multivariate analysis.
Author: Reza Mohammadi [aut, cre] (<https://orcid.org/0000-0001-9538-0648>),
Kevin Burke [aut]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between liver versions 1.5 dated 2021-03-09 and 1.6 dated 2021-04-06
DESCRIPTION | 8 +++---- MD5 | 26 +++++++++++++++---------- NAMESPACE | 9 ++++++-- NEWS.md | 8 ++++++- R/conf.mat.R | 2 - R/conf.mat.plot.R |only R/kNN.R | 30 ++++++++++++++-------------- R/kNN.plot.R |only R/mae.R |only R/partition.R | 53 +++++++++++++++------------------------------------ man/conf.mat.Rd | 2 + man/conf.mat.plot.Rd |only man/kNN.plot.Rd |only man/mae.Rd |only man/marketing.Rd | 1 man/mse.Rd | 2 + man/partition.Rd | 4 ++- 17 files changed, 73 insertions(+), 72 deletions(-)
Title: Sustainable Transport Planning
Description: Tools for transport planning with an emphasis on spatial transport
data and non-motorized modes. Enables common transport planning tasks including:
downloading and cleaning transport datasets; creating geographic "desire lines"
from origin-destination (OD) data; route assignment, locally and via
interfaces to routing services such as <https://cyclestreets.net/> and
calculation of route segment attributes such as bearing.
The package implements the 'travel flow aggregration' method
described in Morgan and Lovelace (2020) <doi:10.1177/2399808320942779>.
Further information on the package's aim and scope can be found
in the vignettes and in a paper in the R Journal
(Lovelace and Ellison 2018) <doi:10.32614/RJ-2018-053>.
Author: Robin Lovelace [aut, cre] (<https://orcid.org/0000-0001-5679-6536>),
Richard Ellison [aut],
Malcolm Morgan [aut] (<https://orcid.org/0000-0002-9488-9183>),
Barry Rowlingson [ctb],
Nick Bearman [ctb],
Nikolai Berkoff [ctb],
Scott Chamberlain [rev] (Scott reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/10),
Mark Padgham [ctb],
Andrea Gilardi [ctb] (<https://orcid.org/0000-0002-9424-7439>)
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between stplanr versions 0.8.1 dated 2021-01-07 and 0.8.2 dated 2021-04-06
DESCRIPTION | 13 ++++++------- MD5 | 36 ++++++++++++++++++------------------ NEWS.md | 4 ++++ R/route.R | 28 +++++++++++----------------- README.md | 2 +- build/partial.rdb |binary build/vignette.rds |binary inst/doc/stplanr-od.R | 5 ----- inst/doc/stplanr-od.Rmd | 7 +------ inst/doc/stplanr-od.html | 17 ++++++++++++----- inst/doc/stplanr-paper.html | 9 ++++++++- inst/doc/stplanr-parallel.html | 9 ++++++++- inst/doc/stplanr-route-nets.html | 11 +++++++++-- inst/doc/stplanr-routing.html | 9 ++++++++- inst/doc/stplanr.Rmd | 4 ++-- inst/doc/stplanr.html | 29 ++++++++++++++++++----------- man/route.Rd | 2 +- vignettes/stplanr-od.Rmd | 7 +------ vignettes/stplanr.Rmd | 4 ++-- 19 files changed, 110 insertions(+), 86 deletions(-)
Title: Regression Data Analysis System
Description: Perform a supervised data analysis on a database through a 'shiny' graphical interface. It includes methods such as linear regression, penalized regression, k-nearest neighbors, decision trees, ada boosting, extreme gradient boosting, random forest, neural networks, deep learning and support vector machines.
Author: Oldemar Rodriguez R. [aut, cre],
Andres Navarro D. [ctb, prg],
Diego Jimenez A. [ctb, prg],
Ariel Arroyo S. [ctb, prg]
Maintainer: Oldemar Rodriguez R. <oldemar.rodriguez@ucr.ac.cr>
Diff between regressoR versions 1.1.9 dated 2020-07-01 and 1.2.1 dated 2021-04-06
DESCRIPTION | 34 ++++++++---------- MD5 | 33 ++++++++++-------- NAMESPACE | 17 ++++++++- R/code_generate.R | 4 ++ R/plots_manipulation.R | 14 +++---- R/shiny_tools.R | 2 + R/string_manipulation.R | 2 - inst/application/Utilities.R | 11 ++++++ inst/application/server.R | 2 - inst/application/ui.R | 33 +++++++++--------- inst/application/utils_inputs.R |only inst/application/www/regressor_inputs.css |only inst/application/www/regressor_inputs.js |only inst/application/www/style_regressor.css | 54 ------------------------------ inst/extdata/diccionario.csv | 20 ++++++----- inst/extdata/translation.bin |binary man/rd_model.Rd | 3 + man/rd_type.Rd | 3 + man/render_table_data.Rd | 3 + 19 files changed, 113 insertions(+), 122 deletions(-)
Title: A Minimalist Web Framework for R
Description: A minimalist web framework for developing application programming
interfaces in R that provides a flexible framework for handling common
HTTP-requests, errors, logging, and an ability to integrate any R code as
server middle-ware.
Author: Hans Martin [aut],
Jonathan Callahan [aut, cre]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between beakr versions 0.4.2 dated 2021-03-04 and 0.4.3 dated 2021-04-06
DESCRIPTION | 7 +++---- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/utils-middleware.R | 2 +- man/serveStaticFiles.Rd | 2 +- 5 files changed, 14 insertions(+), 10 deletions(-)
Title: World Development Indicators and Other World Bank Data
Description: Search and download data from over 40 databases hosted by the World Bank, including the World Development Indicators ('WDI'), International Debt Statistics, Doing Business, Human Capital Index, and Sub-national Poverty indicators.
Author: Vincent Arel-Bundock [aut, cre]
(<https://orcid.org/0000-0003-2042-7063>),
Etienne Bacher [ctb]
Maintainer: Vincent Arel-Bundock <vincent.arel-bundock@umontreal.ca>
Diff between WDI versions 2.7.3 dated 2021-03-30 and 2.7.4 dated 2021-04-06
DESCRIPTION | 6 MD5 | 34 - NAMESPACE | 20 NEWS.md | 144 +++--- R/WDI-package.R | 38 - R/WDI.R | 929 ++++++++++++++++++++++----------------------- README.md | 276 ++++++------- man/WDI-package.Rd | 50 +- man/WDI.Rd | 152 +++---- man/WDI_data.Rd | 84 ++-- man/WDIbulk.Rd | 46 +- man/WDIcache.Rd | 40 - man/WDIsearch.Rd | 70 +-- man/languages_supported.Rd | 38 - man/wdi.dl.Rd | 24 - man/wdi.query.Rd | 38 - tests/testthat.R | 8 tests/testthat/test-all.R | 285 ++++++------- 18 files changed, 1144 insertions(+), 1138 deletions(-)
Title: Bayesian Generalized Linear Models with Time-Varying
Coefficients
Description: Bayesian generalized linear models with time-varying coefficients
as in Helske (2020, <arXiv:2009.07063>). Gaussian, Poisson, and binomial
observations are supported. The Markov chain Monte Carlo (MCMC) computations are done using
Hamiltonian Monte Carlo provided by Stan, using a state space representation
of the model in order to marginalise over the coefficients for efficient sampling.
For non-Gaussian models, the package uses the importance sampling type estimators based on
approximate marginal MCMC as in Vihola, Helske, Franks (2020, <doi:10.1111/sjos.12492>).
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between walker versions 1.0.1-1 dated 2021-01-30 and 1.0.2 dated 2021-04-06
DESCRIPTION | 8 - MD5 | 29 +-- R/lfo.R | 40 ++--- R/print_fit.R | 4 R/walker.R | 8 - README.md | 5 inst/CITATION | 10 - inst/doc/walker.Rmd | 16 +- inst/doc/walker.html | 342 ++++++++++--------------------------------- inst/stan/walker_glm.stan | 4 inst/stan/walker_lm.stan | 6 src/stanExports_walker_glm.h | 30 +-- src/stanExports_walker_lm.h | 52 +++--- vignettes/dag.png |only vignettes/walker.Rmd | 16 +- vignettes/walker.bib | 16 ++ 16 files changed, 210 insertions(+), 376 deletions(-)
Title: Download and Explore Datasets from UCSC Xena Data Hubs
Description: Download and explore datasets from UCSC Xena data hubs, which are
a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
Databases are normalized so they can be combined, linked, filtered, explored and downloaded.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>),
Xue-Song Liu [aut] (<https://orcid.org/0000-0002-7736-0077>),
Martin Morgan [ctb],
Christine Stawitz [rev] (Christine reviewed the package for ropensci,
see <https://github.com/ropensci/software-review/issues/315>),
Carl Ganz [rev] (Carl reviewed the package for ropensci, see
<https://github.com/ropensci/software-review/issues/315>)
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between UCSCXenaTools versions 1.4.3 dated 2021-03-22 and 1.4.4 dated 2021-04-06
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 5 +++++ R/XenaDownload.R | 8 ++++++-- inst/doc/USCSXenaTools.html | 8 ++++---- 5 files changed, 22 insertions(+), 13 deletions(-)
Title: Functions and Datasets to Accompany Hollander, Wolfe, and
Chicken - Nonparametric Statistical Methods, Third Edition
Description: Designed to replace the tables which were in the back of the first two editions of Hollander and Wolfe - Nonparametric Statistical Methods. Exact procedures are performed when computationally possible. Monte Carlo and Asymptotic procedures are performed otherwise. For those procedures included in the base packages, our code simply provides a wrapper to standardize the output with the other procedures in the package.
Author: Grant Schneider, Eric Chicken, Rachel Becvarik
Maintainer: Grant Schneider <gschneidz@gmail.com>
Diff between NSM3 versions 1.15 dated 2020-08-31 and 1.16 dated 2021-04-06
DESCRIPTION | 8 +- MD5 | 4 - R/pKolSmirn.R | 162 +++++++++++++++++++++++++++++----------------------------- 3 files changed, 87 insertions(+), 87 deletions(-)
Title: (Non)Additive Genetic Relatedness Matrices
Description: Constructs (non)additive genetic relationship matrices, and their
inverses, from a pedigree to be used in linear mixed effect models (A.K.A.
the 'animal model'). Also includes other functions to facilitate the use of
animal models. Some functions have been created to be used in conjunction
with the R package 'asreml' for the 'ASReml' software, which can be
obtained upon purchase from 'VSN' international
(<https://www.vsni.co.uk/software/asreml>).
Author: Matthew Wolak [cre, aut]
Maintainer: Matthew Wolak <matthewwolak@gmail.com>
Diff between nadiv versions 2.17.0 dated 2021-01-14 and 2.17.1 dated 2021-04-06
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 8 +++++++- R/prepPed.R | 4 ++-- README.md | 33 +++++++++++++++++++-------------- 5 files changed, 36 insertions(+), 25 deletions(-)
Title: Retrieves Gene Expression Dataset and Gene Symbols from GEO Code
Description: A function that reads in the GEO code of a gene expression dataset, retrieves its data from GEO, (optional) retrieves the gene symbols of the dataset, and returns a simple dataframe table containing all the data. Platforms available: GPL11532, GPL23126, GPL6244, GPL80, GPL8300, GPL80, GPL96, GPL570, GPL571, GPL20115, GPL1293, GPL6102, GPL6104, GPL6883, GPL6884, GPL13497, GPL14550, GPL17077, GPL6480. GEO: Gene Expression Omnibus. ID: identifier code. The GEO datasets are downloaded from the URL <https://ftp.ncbi.nlm.nih.gov/geo/series/>.
Author: Davide Chicco [aut, cre]
Maintainer: Davide Chicco <davidechicco@davidechicco.it>
Diff between geneExpressionFromGEO versions 0.4 dated 2021-01-25 and 0.5 dated 2021-04-06
DESCRIPTION | 7 ++--- MD5 | 5 ++- R/geneExpressionFromGEO.r | 62 ++++++++++++++++++++++++++++++++++++++++++++++ man/readUrl.Rd |only 4 files changed, 68 insertions(+), 6 deletions(-)
More information about geneExpressionFromGEO at CRAN
Permanent link
Title: Port of 'Dparser' Package
Description: A Scannerless GLR parser/parser generator. Note that GLR standing for "generalized LR", where L stands for "left-to-right" and
R stands for "rightmost (derivation)". For more information see <https://en.wikipedia.org/wiki/GLR_parser>. This parser is based on the Tomita
(1987) algorithm. (Paper can be found at <https://www.aclweb.org/anthology/P84-1073.pdf>).
The original 'dparser' package documentation can be found at <http://dparser.sourceforge.net/>. This allows you to add mini-languages to R (like
RxODE's ODE mini-language Wang, Hallow, and James 2015 <DOI:10.1002/psp4.12052>) or to parse other languages like 'NONMEM' to automatically translate
them to R code. To use this in your code, add a LinkingTo dparser in your DESCRIPTION file and instead of using #include <dparse.h> use
#include <dparser.h>. This also provides a R-based port of the make_dparser <http://dparser.sourceforge.net/d/make_dparser.cat> command called
mkdparser(). Additionally you can parse an arbitrary grammar within R using the dparse() function, which works on most OSes and is mainly for grammar
testing. The fastest parsing, of course, occurs at the C level, and is suggested.
Author: Matthew Fidler [aut, cre],
John Plevyak [aut, cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between dparser versions 1.3.1-2 dated 2021-04-03 and 1.3.1-3 dated 2021-04-06
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 7 ++++++- R/dparser.R | 4 ++-- tests/testthat/test-dparser.R | 3 +-- 5 files changed, 16 insertions(+), 12 deletions(-)
Title: Simulate Package Installation and Attach
Description: Simulates the process of installing a package
and then attaching it. This is a key part of the 'devtools' package as it
allows you to rapidly iterate while developing a package.
Author: Hadley Wickham [aut],
Jim Hester [aut, cre],
Winston Chang [aut],
RStudio [cph],
R Core team [ctb] (Some namespace and vignette code extracted from base
R)
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between pkgload versions 1.2.0 dated 2021-02-23 and 1.2.1 dated 2021-04-06
DESCRIPTION | 13 ++--- MD5 | 20 ++++---- NEWS.md | 14 ++++++ R/load.r | 75 +++++++++++++++++++++------------ R/package.r | 12 ++++- R/unload.r | 12 +++-- R/zzz.r | 2 man/load_all.Rd | 23 +++++----- tests/testthat/test-load.r | 44 +++++++++++++++++-- tests/testthat/testS3removed/NAMESPACE | 2 tests/testthat/testS3removed/R/S3.r | 10 +++- 11 files changed, 160 insertions(+), 67 deletions(-)
Title: Equating of Multiple Forms
Description: Equating of multiple forms using Item Response Theory (IRT) methods (Battauz M. (2017) <doi:10.1007/s11336-016-9517-x> and Haberman S. J. (2009) <doi:10.1002/j.2333-8504.2009.tb02197.x>).
Author: Michela Battauz
Maintainer: Michela Battauz <michela.battauz@uniud.it>
Diff between equateMultiple versions 0.0.1 dated 2020-10-26 and 0.1.0 dated 2021-04-06
DESCRIPTION | 6 +- MD5 | 8 +-- R/EqMult.r | 47 +++++++++++-------- build/vignette.rds |binary inst/doc/equateMultiple_tutorial.html | 81 ++++++++++++++++------------------ 5 files changed, 74 insertions(+), 68 deletions(-)
More information about equateMultiple at CRAN
Permanent link
Title: Check the Clustering Tendency
Description: Calculate some statistics aiming to help analyzing the clustering tendency of given data. In the first version, Hopkins' statistic is implemented.
Author: Kevin Wright [aut, cre] (<https://orcid.org/0000-0002-0617-8673>),
Luo YiLan [aut],
Zeng RuTong [aut]
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between clustertend versions 1.4 dated 2015-05-19 and 1.5 dated 2021-04-06
DESCRIPTION | 20 ++++++++++++++------ MD5 | 5 +++-- NAMESPACE | 1 + NEWS.md |only 4 files changed, 18 insertions(+), 8 deletions(-)
Title: Conditional Graphical LASSO for Gaussian Graphical Models with
Censored and Missing Values
Description: Conditional graphical lasso estimator is an extension of the graphical lasso proposed to estimate the conditional dependence structure of a set of p response variables given q predictors. This package provides suitable extensions developed to study datasets with censored and/or missing values. Standard conditional graphical lasso is available as a special case. Furthermore, the package provides an integrated set of core routines for visualization, analysis, and simulation of datasets with censored and/or missing values drawn from a Gaussian graphical model. Details about the implemented models can be found in Augugliaro et al. (2020b) <doi: 10.1007/s11222-020-09945-7>, Augugliaro et al. (2020a) <doi: 10.1093/biostatistics/kxy043>, Yin et al. (2001) <doi: 10.1214/11-AOAS494> and Stadler et al. (2012) <doi: 10.1007/s11222-010-9219-7>.
Author: Luigi Augugliaro [aut, cre] (<https://orcid.org/0000-0002-4603-7541>),
Gianluca Sottile [aut] (<https://orcid.org/0000-0001-9347-7251>),
Ernst C. Wit [aut] (<https://orcid.org/0000-0002-3671-9610>),
Veronica Vinciotti [aut] (<https://orcid.org/0000-0002-2625-7977>)
Maintainer: Luigi Augugliaro <luigi.augugliaro@unipa.it>
Diff between cglasso versions 2.0.2 dated 2021-01-21 and 2.0.3 dated 2021-04-06
cglasso-2.0.2/cglasso/data/datalist |only cglasso-2.0.2/cglasso/man/aic.Rd |only cglasso-2.0.2/cglasso/man/bic.Rd |only cglasso-2.0.3/cglasso/ChangeLog | 27 ++++ cglasso-2.0.3/cglasso/DESCRIPTION | 8 - cglasso-2.0.3/cglasso/MD5 | 105 ++++++++------- cglasso-2.0.3/cglasso/NAMESPACE | 31 +++- cglasso-2.0.3/cglasso/R/GoF.R | 45 ++---- cglasso-2.0.3/cglasso/R/GoF_S3methods.R | 2 cglasso-2.0.3/cglasso/R/ShowStructure.R | 99 +++++++------- cglasso-2.0.3/cglasso/R/cggm.R | 59 ++------ cglasso-2.0.3/cglasso/R/cggm_S3methods.R | 7 - cglasso-2.0.3/cglasso/R/cglasso.R | 98 ++++++++++++-- cglasso-2.0.3/cglasso/R/cglasso_S3methods.R | 109 ++++++++-------- cglasso-2.0.3/cglasso/R/cglasso_tools.R | 8 - cglasso-2.0.3/cglasso/R/datacggm.R | 8 - cglasso-2.0.3/cglasso/R/datacggm_S3methods.R | 152 +++++++++++++---------- cglasso-2.0.3/cglasso/R/datacggm_tools.R | 109 +++++++++++----- cglasso-2.0.3/cglasso/R/to_graph.R | 14 +- cglasso-2.0.3/cglasso/build/partial.rdb |binary cglasso-2.0.3/cglasso/data/Example.RData |only cglasso-2.0.3/cglasso/data/MM.RData |binary cglasso-2.0.3/cglasso/man/AIC.cglasso.Rd |only cglasso-2.0.3/cglasso/man/BIC.cglasso.Rd |only cglasso-2.0.3/cglasso/man/ColMeans.Rd | 2 cglasso-2.0.3/cglasso/man/Example.Rd |only cglasso-2.0.3/cglasso/man/MKMEP.Rd | 2 cglasso-2.0.3/cglasso/man/MM.Rd | 4 cglasso-2.0.3/cglasso/man/QFun.Rd | 8 - cglasso-2.0.3/cglasso/man/cggm.Rd | 19 +- cglasso-2.0.3/cglasso/man/cglasso-package.Rd | 4 cglasso-2.0.3/cglasso/man/cglasso.Rd | 27 ++-- cglasso-2.0.3/cglasso/man/coef.cglasso.Rd | 4 cglasso-2.0.3/cglasso/man/datacggm.Rd | 6 cglasso-2.0.3/cglasso/man/dim.datacggm.Rd | 2 cglasso-2.0.3/cglasso/man/fitted.cglasso.Rd | 4 cglasso-2.0.3/cglasso/man/getGraph.Rd | 4 cglasso-2.0.3/cglasso/man/hist.datacggm.Rd | 2 cglasso-2.0.3/cglasso/man/impute.Rd | 4 cglasso-2.0.3/cglasso/man/is.cglasso2igraph.Rd | 2 cglasso-2.0.3/cglasso/man/nobs.datacggm.Rd | 32 ++-- cglasso-2.0.3/cglasso/man/plot.GoF.Rd | 29 ++-- cglasso-2.0.3/cglasso/man/plot.cggm.Rd | 2 cglasso-2.0.3/cglasso/man/plot.cglasso.Rd | 22 +-- cglasso-2.0.3/cglasso/man/plot.cglasso2igraph.Rd | 4 cglasso-2.0.3/cglasso/man/predict.cglasso.Rd | 5 cglasso-2.0.3/cglasso/man/qqcnorm.Rd | 2 cglasso-2.0.3/cglasso/man/residuals.cglasso.Rd | 4 cglasso-2.0.3/cglasso/man/select.cglasso.Rd | 44 +++--- cglasso-2.0.3/cglasso/man/summary.cglasso.Rd | 44 +++--- cglasso-2.0.3/cglasso/man/summary.datacggm.Rd | 5 cglasso-2.0.3/cglasso/man/to_graph.Rd | 8 - cglasso-2.0.3/cglasso/src/cggm_v1.f90 | 12 - cglasso-2.0.3/cglasso/src/cggm_v2.f90 | 12 - cglasso-2.0.3/cglasso/src/cglasso_v1.f90 | 13 + cglasso-2.0.3/cglasso/src/cglasso_v2.f90 | 14 +- cglasso-2.0.3/cglasso/src/multilasso.f90 | 6 57 files changed, 694 insertions(+), 539 deletions(-)
Title: Simple Interface to 'Microsoft Graph'
Description: A simple interface to the 'Microsoft Graph' API <https://docs.microsoft.com/en-us/graph/overview>. 'Graph' is a comprehensive framework for accessing data in various online Microsoft services. Currently, this package aims to provide an R interface only to the 'Azure Active Directory' part, with a view to supporting interoperability of R and 'Azure': users, groups, registered apps and service principals. However it can be easily extended to cover other services. Part of the 'AzureR' family of packages.
Author: Hong Ooi [aut, cre],
Microsoft [cph]
Maintainer: Hong Ooi <hongooi73@gmail.com>
Diff between AzureGraph versions 1.2.1 dated 2021-02-09 and 1.2.2 dated 2021-04-06
DESCRIPTION | 6 +++--- MD5 | 32 ++++++++++++++++++-------------- NAMESPACE | 2 ++ NEWS.md | 7 +++++++ R/batch.R |only R/call_graph.R | 16 ++++++++++++---- R/graph_login.R | 17 +++++++++++------ R/ms_graph.R | 8 +++++++- inst/doc/intro.Rmd | 3 +-- inst/doc/intro.html | 3 +-- man/call_batch_endpoint.Rd |only man/graph_login.Rd | 19 +++++++++++-------- man/graph_request.Rd |only man/ms_graph.Rd | 3 ++- tests/testthat/test01_auth.R | 1 + tests/testthat/test02_app_sp.R | 4 +++- tests/testthat/test03_usergrp.R | 4 +++- tests/testthat/test04_batch.R |only vignettes/intro.Rmd | 3 +-- 19 files changed, 83 insertions(+), 45 deletions(-)
Title: SYMPHONY in R
Description: An R interface to the SYMPHONY solver for mixed-integer linear programs.
Author: Reinhard Harter [aut],
Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>),
Stefan Theussl [aut],
Cyrille Szymanski [ctb],
Florian Schwendinger [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between Rsymphony versions 0.1-30 dated 2021-03-20 and 0.1-31 dated 2021-04-06
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/symphony.R | 3 ++- src/R_symphony.cc | 2 +- 4 files changed, 9 insertions(+), 8 deletions(-)
Title: Calculate Accurate Precision-Recall and ROC (Receiver Operator
Characteristics) Curves
Description: Accurate calculations and visualization of precision-recall and ROC (Receiver Operator Characteristics)
curves.
Author: Takaya Saito [aut, cre],
Marc Rehmsmeier [aut]
Maintainer: Takaya Saito <takaya.saito@outlook.com>
Diff between precrec versions 0.12.1 dated 2021-02-02 and 0.12.5 dated 2021-04-06
DESCRIPTION | 14 +- MD5 | 18 +-- NEWS.md | 17 ++ README.md | 31 ++--- build/vignette.rds |binary inst/CITATION | 2 inst/doc/introduction.html | 185 ++++++++++++++++--------------- tests/testthat.R | 1 tests/testthat/test_g_autoplot2_curves.R | 10 + tests/testthat/test_g_autoplot3_points.R | 72 ++++++------ 10 files changed, 185 insertions(+), 165 deletions(-)
Title: Molecular Detection Mapping and Analysis Platform
Description: Runs a Shiny web application that merges raw 'qPCR' fluorescence data with related
metadata to visualize species presence/absence detection patterns and assess data quality.
The application calculates threshold values from raw fluorescence data using a method based
on the second derivative method, Luu-The et al (2005) <doi:10.2144/05382RR05>, and utilizes
the ‘chipPCR’ package by Rödiger, Burdukiewicz, & Schierack (2015) <doi:10.1093/bioinformatics/btv205>
to calculate Cq values. The application has the ability to connect to a custom developed MySQL
database to populate the applications interface. The application allows users to interact with
visualizations such as a dynamic map, amplification curves and standard curves, that allow for
zooming and/or filtering. It also enables the generation of customized exportable reports based
on filtered mapping data.
Author: Alka Benawra <alkabenawra@rogers.com>
Maintainer: Alka Benawra <alkabenawra@rogers.com>
Diff between MDMAPR versions 0.2.1 dated 2021-03-30 and 0.2.2 dated 2021-04-06
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NAMESPACE | 1 + R/shinyAppServer.R | 1 + 4 files changed, 9 insertions(+), 7 deletions(-)
Title: Working with Files from 'LexisNexis'
Description: My PhD supervisor once told me that everyone doing newspaper
analysis starts by writing code to read in files from the 'LexisNexis' newspaper
archive (retrieved e.g., from <http://www.nexis.com/> or any of the partner
sites). However, while this is a nice exercise I do recommend, not everyone has
the time. This package takes files downloaded from the newspaper archive of
'LexisNexis', reads them into R and offers functions for further processing.
Author: Johannes Gruber [aut, cre]
Maintainer: Johannes Gruber <j.gruber.1@research.gla.ac.uk>
Diff between LexisNexisTools versions 0.3.3 dated 2020-12-13 and 0.3.4 dated 2021-04-06
LexisNexisTools-0.3.3/LexisNexisTools/tests/files/SQLite.RDS |only LexisNexisTools-0.3.3/LexisNexisTools/tests/files/tidytext.RDS |only LexisNexisTools-0.3.4/LexisNexisTools/DESCRIPTION | 9 LexisNexisTools-0.3.4/LexisNexisTools/MD5 | 30 LexisNexisTools-0.3.4/LexisNexisTools/NAMESPACE | 3 LexisNexisTools-0.3.4/LexisNexisTools/NEWS.md | 6 LexisNexisTools-0.3.4/LexisNexisTools/R/LexisNexisTools.R | 28 LexisNexisTools-0.3.4/LexisNexisTools/README.md | 215 +-- LexisNexisTools-0.3.4/LexisNexisTools/build/vignette.rds |binary LexisNexisTools-0.3.4/LexisNexisTools/inst/CITATION | 4 LexisNexisTools-0.3.4/LexisNexisTools/inst/WORDLIST | 3 LexisNexisTools-0.3.4/LexisNexisTools/inst/doc/demo.Rmd | 4 LexisNexisTools-0.3.4/LexisNexisTools/inst/doc/demo.html | 557 ++-------- LexisNexisTools-0.3.4/LexisNexisTools/man/figures |only LexisNexisTools-0.3.4/LexisNexisTools/man/lnt_diff.Rd | 2 LexisNexisTools-0.3.4/LexisNexisTools/tests/testthat/test-lnt_convert.R | 31 LexisNexisTools-0.3.4/LexisNexisTools/vignettes/demo.Rmd | 4 17 files changed, 336 insertions(+), 560 deletions(-)
More information about LexisNexisTools at CRAN
Permanent link
Title: An Introduction to Statistics for Geoscientists
Description: A collection of datasets and simplified functions for an introductory (geo)statistics module at University College London. Provides functionality for compositional, directional and spatial data, including ternary diagrams, Wulff and Schmidt stereonets, and ordinary kriging interpolation. Implements logistic and (additive and centred) logratio transformations. Computes vector averages and concentration parameters for the von-Mises distribution. Includes a collection of natural and synthetic fractals, and a simulator for deterministic chaos using a magnetic pendulum example. The main purpose of these functions is pedagogical. Researchers can find more complete alternatives for these tools in other packages such as 'compositions', 'robCompositions', 'sp', 'gstat' and 'RFOC'. All the functions are written in plain R, with no compiled code and a minimal number of dependencies. Theoretical background and worked examples are available at <https://tinyurl.com/UCLgeostats/>.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between geostats versions 1.2 dated 2021-03-13 and 1.3 dated 2021-04-06
DESCRIPTION | 8 ++--- MD5 | 10 +++---- R/helper.R | 72 ++++++++++++++++++++++----------------------------- R/kriging.R | 17 ++++++------ man/colourplot.Rd | 4 +- man/semivariogram.Rd | 2 - 6 files changed, 53 insertions(+), 60 deletions(-)
Title: Phylogenetic Reconstruction and Analysis
Description: Allows for estimation of phylogenetic trees and networks
using Maximum Likelihood, Maximum Parsimony, distance methods and
Hadamard conjugation. Offers methods for tree comparison, model
selection and visualization of phylogenetic networks as described in
Schliep et al. (2017) <doi:10.1111/2041-210X.12760>.
Author: Klaus Schliep [aut, cre] (<https://orcid.org/0000-0003-2941-0161>),
Emmanuel Paradis [aut] (<https://orcid.org/0000-0003-3092-2199>),
Leonardo de Oliveira Martins [aut]
(<https://orcid.org/0000-0001-5247-1320>),
Alastair Potts [aut],
Tim W. White [aut],
Cyrill Stachniss [ctb],
Michelle Kendall [ctb],
Keren Halabi [ctb],
Richel Bilderbeek [ctb],
Kristin Winchell [ctb],
Liam Revell [ctb],
Mike Gilchrist [ctb],
Jeremy Beaulieu [ctb],
Brian O'Meara [ctb],
Long Qu [ctb]
Maintainer: Klaus Schliep <klaus.schliep@gmail.com>
Diff between phangorn versions 2.6.2 dated 2021-03-22 and 2.6.3 dated 2021-04-06
phangorn-2.6.2/phangorn/TODO |only phangorn-2.6.3/phangorn/DESCRIPTION | 102 +- phangorn-2.6.3/phangorn/MD5 | 88 +- phangorn-2.6.3/phangorn/NEWS | 17 phangorn-2.6.3/phangorn/R/Densi.R | 2 phangorn-2.6.3/phangorn/R/RcppExports.R | 8 phangorn-2.6.3/phangorn/R/ancestral_pml.R | 5 phangorn-2.6.3/phangorn/R/bab.R | 6 phangorn-2.6.3/phangorn/R/bootstrap.R | 127 ++- phangorn-2.6.3/phangorn/R/codonTest.R | 2 phangorn-2.6.3/phangorn/R/discrete.gamma.R | 6 phangorn-2.6.3/phangorn/R/distTree.R | 6 phangorn-2.6.3/phangorn/R/fitch64.R | 30 phangorn-2.6.3/phangorn/R/networx.R | 2 phangorn-2.6.3/phangorn/R/parsimony.R | 50 - phangorn-2.6.3/phangorn/R/phylo.R | 10 phangorn-2.6.3/phangorn/R/pmlPart.R | 69 + phangorn-2.6.3/phangorn/R/read.phyDat.R | 2 phangorn-2.6.3/phangorn/R/simSeq.R | 5 phangorn-2.6.3/phangorn/R/transferBootstrap.R |only phangorn-2.6.3/phangorn/build/vignette.rds |binary phangorn-2.6.3/phangorn/inst/doc/AdvancedFeatures.html | 202 ++--- phangorn-2.6.3/phangorn/inst/doc/Ancestral.R | 6 phangorn-2.6.3/phangorn/inst/doc/Ancestral.Rmd | 3 phangorn-2.6.3/phangorn/inst/doc/Ancestral.html | 149 +--- phangorn-2.6.3/phangorn/inst/doc/IntertwiningTreesAndNetworks.html | 352 ++++----- phangorn-2.6.3/phangorn/inst/doc/Networx.html | 154 +--- phangorn-2.6.3/phangorn/inst/doc/Trees.html | 360 ++++------ phangorn-2.6.3/phangorn/inst/tinytest/test_dist_tree.R | 2 phangorn-2.6.3/phangorn/man/as.networx.Rd | 2 phangorn-2.6.3/phangorn/man/bootstrap.pml.Rd | 33 phangorn-2.6.3/phangorn/man/codonTest.Rd | 2 phangorn-2.6.3/phangorn/man/densiTree.Rd | 2 phangorn-2.6.3/phangorn/man/discrete.gamma.Rd | 6 phangorn-2.6.3/phangorn/man/maxCladeCred.Rd | 2 phangorn-2.6.3/phangorn/man/parsimony.Rd | 2 phangorn-2.6.3/phangorn/man/plotBS.Rd |only phangorn-2.6.3/phangorn/man/pmlPart.Rd | 3 phangorn-2.6.3/phangorn/man/read.phyDat.Rd | 2 phangorn-2.6.3/phangorn/man/simSeq.Rd | 5 phangorn-2.6.3/phangorn/src/Fitch.h | 2 phangorn-2.6.3/phangorn/src/RcppExports.cpp | 67 - phangorn-2.6.3/phangorn/src/fitch64.cpp | 13 phangorn-2.6.3/phangorn/src/phangorn_utils.cpp | 40 + phangorn-2.6.3/phangorn/vignettes/Ancestral.Rmd | 3 phangorn-2.6.3/phangorn/vignettes/phangorn.bib | 11 phangorn-2.6.3/phangorn/vignettes/seqLogo.png |only 47 files changed, 971 insertions(+), 989 deletions(-)
Title: A 'dplyr' Back End for Databases
Description: A 'dplyr' back end for databases that allows you to
work with remote database tables as if they are in-memory data frames.
Basic features works with any database that has a 'DBI' back end; more
advanced features require 'SQL' translation to be provided by the
package author.
Author: Hadley Wickham [aut, cre],
Maximilian Girlich [aut],
Edgar Ruiz [aut],
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between dbplyr versions 2.1.0 dated 2021-02-03 and 2.1.1 dated 2021-04-06
DESCRIPTION | 26 +++--- MD5 | 101 +++++++++++++-------------- NAMESPACE | 5 + NEWS.md | 17 ++++ R/backend-.R | 1 R/backend-access.R | 17 ++++ R/backend-hive.R | 2 R/backend-impala.R | 2 R/backend-mssql.R | 4 - R/backend-mysql.R | 2 R/backend-oracle.R | 2 R/backend-snowflake.R |only R/backend-teradata.R | 2 R/db-sql.R | 12 +-- R/partial-eval.R | 26 ++++++ R/schema.R | 2 R/translate-sql-window.R | 4 - R/verb-group_by.R | 6 + build/dbplyr.pdf |binary inst/doc/backend-2.Rmd | 4 - inst/doc/backend-2.html | 4 - man/arrange.tbl_lazy.Rd | 2 man/backend-snowflake.Rd |only man/count.tbl_lazy.Rd | 2 man/distinct.tbl_lazy.Rd | 2 man/filter.tbl_lazy.Rd | 2 man/group_by.tbl_lazy.Rd | 2 man/mutate.tbl_lazy.Rd | 2 man/select.tbl_lazy.Rd | 2 man/src_dbi.Rd | 2 man/summarise.tbl_lazy.Rd | 2 tests/testthat/_snaps/backend-.md | 25 ++++-- tests/testthat/_snaps/backend-hive.md | 4 - tests/testthat/_snaps/backend-impala.md | 4 - tests/testthat/_snaps/backend-mssql.md | 13 +-- tests/testthat/_snaps/backend-mysql.md | 4 - tests/testthat/_snaps/backend-oracle.md | 4 - tests/testthat/_snaps/backend-teradata.md | 4 - tests/testthat/_snaps/partial-eval.md | 38 ++++++++++ tests/testthat/_snaps/verb-arrange.md | 15 ---- tests/testthat/_snaps/verb-count.md | 1 tests/testthat/test-backend-.R | 9 +- tests/testthat/test-backend-access.R | 14 +++ tests/testthat/test-backend-hive.R | 2 tests/testthat/test-backend-impala.R | 2 tests/testthat/test-backend-mssql.R | 6 - tests/testthat/test-backend-mysql.R | 2 tests/testthat/test-backend-oracle.R | 2 tests/testthat/test-backend-teradata.R | 2 tests/testthat/test-partial-eval.R | 33 ++++++++ tests/testthat/test-test-backend-snowflake.R |only tests/testthat/test-verb-group_by.R | 7 + vignettes/backend-2.Rmd | 4 - 53 files changed, 305 insertions(+), 147 deletions(-)
Title: Advanced Basketball Statistics
Description: Provides different functionalities and calculations used in the world of basketball to analyze the statistics of the players, the statistics of the teams, the statistics of the quintets and the statistics of the plays. For more details of the calculations included in the package can be found in the book Basketball on Paper written by Dean Oliver.
Author: Francisco Javier Cantero [aut, cre],
Juan Jose Cuadrado [aut],
Universidad de Alcala de Henares [aut]
Maintainer: Francisco Javier Cantero <fco.cantero@edu.uah.es>
Diff between AdvancedBasketballStats versions 1.0.0 dated 2021-02-16 and 1.0.1 dated 2021-04-06
DESCRIPTION | 10 +++++----- MD5 | 11 ++++++----- R/individuals_games_adder.R | 20 ++++++++++++++++++++ R/lineups_data_adjustment.R | 6 +++--- R/play_games_adder.R | 9 +++++++++ inst/doc/BasketballAdvancedStats.html | 8 ++++---- vignettes/pandoc1ad4379a6e6.html |only 7 files changed, 47 insertions(+), 17 deletions(-)
More information about AdvancedBasketballStats at CRAN
Permanent link
Title: Retrieving Information of Proteins from Uniprot
Description: Connect to Uniprot <https://www.uniprot.org/> to retrieve information about proteins using their accession number such information could be name or taxonomy information, For detailed information kindly read the publication <https://www.sciencedirect.com/science/article/pii/S1874391919303859>.
Author: Mohamed Soudy [aut, cre],
Ali Mostafa [aut]
Maintainer: Mohamed Soudy <MohmedSoudy2009@gmail.com>
Diff between UniprotR versions 2.0.5 dated 2021-03-09 and 2.0.6 dated 2021-04-06
DESCRIPTION | 7 ++---- MD5 | 11 +++++---- R/PathwayAnalysis.R | 58 ++++++++++++++++++++++++++-------------------------- R/PlotGoInfo.R | 6 +++-- R/PlotGoterms.R | 29 ++++++++++++++++++++++++++ man/PlotGoInfo.Rd | 2 - man/PlotGoterms.Rd |only 7 files changed, 72 insertions(+), 41 deletions(-)
Title: R Commander Plug-in for Risk Demonstration
Description: R Commander plug-in to demonstrate various actuarial and financial risks. It includes valuation of bonds and stocks, portfolio optimization, classical ruin theory, demography and epidemic.
Author: Arto Luoma
Maintainer: Arto Luoma <arto.luoma@wippies.com>
Diff between RcmdrPlugin.RiskDemo versions 2.0 dated 2018-10-03 and 3.0 dated 2021-04-06
RcmdrPlugin.RiskDemo-2.0/RcmdrPlugin.RiskDemo/R/getStockList.R |only RcmdrPlugin.RiskDemo-2.0/RcmdrPlugin.RiskDemo/R/loadStockData.R |only RcmdrPlugin.RiskDemo-2.0/RcmdrPlugin.RiskDemo/R/print.lca.R |only RcmdrPlugin.RiskDemo-2.0/RcmdrPlugin.RiskDemo/R/readStockData.R |only RcmdrPlugin.RiskDemo-2.0/RcmdrPlugin.RiskDemo/data/countries.abbr.rda |only RcmdrPlugin.RiskDemo-2.0/RcmdrPlugin.RiskDemo/data/countries.rda |only RcmdrPlugin.RiskDemo-2.0/RcmdrPlugin.RiskDemo/man/countries.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/ChangeLog | 32 +++ RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/DESCRIPTION | 17 +- RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/MD5 | 83 ++++++---- RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/NAMESPACE | 8 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/bondDialog.R | 2 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/casesDialog.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/casesDialogFin.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/computeLifetable.R | 4 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/covidSmooth.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/drawBars.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/drawBarsFin.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/drawIncidence.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/drawIncidenceFin.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/drawPositiveRate.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/drawTests.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/estimateDemogmodel.R | 8 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/forecastDemogdata.R | 2 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/forecastDialogFin.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/globals.R | 59 +++---- RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/incidenceDialog.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/incidenceDialogFin.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/loglikCovid.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/plot.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/plotDemogdata.R | 14 - RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/plotForecast.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/repel.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/testsDialog.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/updateCovidData.R |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/R/viewDemogdata.R | 16 - RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/countries.mort.rda |binary RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/dataCovid.rda |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/dataCovidFin.rda |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/datalist | 5 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/fin.fcast.rda |binary RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/fin.lca.rda |binary RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/fin.rda |binary RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/params.rda |binary RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/data/popRegionsFin.rda |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/inst/etc/menus.txt | 64 ++++--- RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/RcmdrPlugin.RiskDemo-internal.Rd | 14 + RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/RcmdrPlugin.RiskDemo-package.Rd | 6 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/countries.mort.Rd | 6 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/covidSmooth.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/dataCovid.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/dataCovidFin.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/drawBars.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/drawBarsFin.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/drawIncidence.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/drawIncidenceFin.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/drawPositiveRate.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/drawTests.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/loglikCovid.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/params.Rd | 4 RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/plotForecast.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/plotR.Rd |only RcmdrPlugin.RiskDemo-3.0/RcmdrPlugin.RiskDemo/man/popRegionsFin.Rd |only 63 files changed, 200 insertions(+), 144 deletions(-)
More information about RcmdrPlugin.RiskDemo at CRAN
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Title: Scoring the EQ-5D Descriptive System
Description: EQ-5D is a standard instrument (<https://euroqol.org/eq-5d-instruments/>) that measures the quality of life
often used in clinical and economic evaluations of health care technologies. Both adult versions of EQ-5D (EQ-5D-3L and EQ-5D-5L)
contain a descriptive system and visual analog scale. The descriptive system measures the patient's health in 5 dimensions:
the 5L versions has 5 levels and 3L version has 3 levels. The descriptive system scores are usually converted to index values
using country specific values sets (that incorporates the country preferences). This package allows the calculation of both descriptive system
scores to the index value scores. The value sets for EQ-5D-3L are from the references mentioned in the website <https://euroqol.org/eq-5d-instruments/eq-5d-3l-about/valuation/>
The value sets for EQ-5D-3L for a total of 31 countries are used for the valuation (see the user guide for a complete list of references).
The value sets for EQ-5D-5L are obtained from references mentioned in the <https://euroqol.org/eq-5d-instruments/eq-5d-5l-about/valuation-standard-value-sets/> and other sources.
The value sets for EQ-5D-5L for a total of 17 countries are used for the valuation (see the user guide for a complete list of references).
The package can also be used to map 5L scores to 3L index values for 10 countries: Denmark, France, Germany, Japan, Netherlands, Spain, Thailand, UK, USA, and Zimbabwe.
The value set and method for mapping are obtained from Van Hout et al (2012) <doi: 10.1016/j.jval.2012.02.008>.
Author: Sheeja Manchira Krishnan [aut, cre]
Maintainer: Sheeja Manchira Krishnan <sheejamk@gmail.com>
Diff between valueEQ5D versions 0.6.1 dated 2020-11-03 and 0.7.1 dated 2021-04-06
DESCRIPTION | 8 MD5 | 32 +- R/data.R | 2 R/eq5d.R | 6 R/sysdata.rda |binary README.md | 16 + build/vignette.rds |binary data/EQ5D3L_indexvalues.df.rda |binary data/EQ5D3L_tariffs_TTO.df.rda |binary data/EQ5D5L_indexvalues.df.rda |binary inst/doc/User_Guide.R | 2 inst/doc/User_Guide.Rmd | 11 - inst/doc/User_Guide.html | 448 ++++++++++------------------------------- man/EQ5D3L_tariffs_TTO.df.Rd | 2 man/EQ5D5L_tariffs.df.Rd | 2 tests/testthat/test-eq5d.R | 18 + vignettes/User_Guide.Rmd | 11 - 17 files changed, 182 insertions(+), 376 deletions(-)
Title: Web Interface to 'IsoplotR'
Description: Provides a graphical user interface to the 'IsoplotR' package for radiometric geochronology. The GUI runs in an internet browser and can either be used offline, or hosted on a server to provide online access to the 'IsoplotR' toolbox.
Author: Pieter Vermeesch [aut, cre],
Tim Band [ctb]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotRgui versions 3.7 dated 2021-03-15 and 3.8 dated 2021-04-06
DESCRIPTION | 11 - MD5 | 98 +++++++------- R/IsoplotR.R | 33 +++- build/CRAN.md | 7 + build/docker.md | 7 + build/docker.sh | 10 - build/git.md | 7 + inst/www/css/IsoplotR.css | 4 inst/www/help/Ar-Ar.html | 22 +-- inst/www/help/Lu-Hf.html | 30 ++-- inst/www/help/Rb-Sr.html | 34 ++-- inst/www/help/Re-Os.html | 30 ++-- inst/www/help/Sm-Nd.html | 30 ++-- inst/www/help/Th-U.html | 44 +++--- inst/www/help/U-Pb.html | 86 ++++++------ inst/www/help/ages.html | 12 - inst/www/help/concordia.html | 20 +- inst/www/help/evolution.html | 6 inst/www/help/fissiontracks.html | 18 +- inst/www/help/isochron.html | 10 - inst/www/help/other.html | 10 - inst/www/help/spectrum.html | 4 inst/www/home/map.html | 64 +++++++-- inst/www/home/world.svg | 63 +++++++-- inst/www/index.html | 10 - inst/www/js/IsoplotR.js | 28 +++- inst/www/js/settings.json | 30 ++-- inst/www/locales/en/contextual_help.json | 10 - inst/www/locales/en/dictionary_id.json | 57 ++++---- inst/www/locales/en/home_id.json | 18 +- inst/www/locales/es/dictionary_id.json | 182 +++++++++++++++++++++++++- inst/www/locales/zh_Hans/contextual_help.json | 2 inst/www/locales/zh_Hans/dictionary_id.json | 40 ++--- inst/www/locales/zh_Hans/home_id.json | 16 +- inst/www/options/CAD.html | 26 +-- inst/www/options/KDE.html | 28 ++-- inst/www/options/Pb-Pb.html | 4 inst/www/options/Th-U.html | 8 - inst/www/options/U-Pb.html | 14 +- inst/www/options/ages.html | 20 +- inst/www/options/average.html | 24 +-- inst/www/options/concordia.html | 4 inst/www/options/fissiontracks.html | 2 inst/www/options/isochron.html | 26 ++- inst/www/options/other.html | 2 inst/www/options/radial.html | 34 ++-- inst/www/options/spectrum.html | 2 inst/www/version.txt | 2 man/IsoplotR.Rd | 5 man/daemon.Rd | 5 50 files changed, 796 insertions(+), 463 deletions(-)
More information about selection.index at CRAN
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Title: Convert Between Bibliography Formats
Description: Converts between a number of bibliography formats,
including 'BibTeX', 'BibLaTeX' and 'Bibentry'. Includes a port of the
'bibutils' utilities by Chris Putnam
<https://sourceforge.net/projects/bibutils/>. Supports all
bibliography formats and character encodings implemented in
'bibutils'.
Author: Georgi N. Boshnakov [aut, cre] (R port, modifications to bibutils' C
code),
Chris Putman [aut] (src/*, author of the bibutils libraries,
https://sourceforge.net/projects/bibutils/),
Richard Mathar [ctb] (src/addsout.c),
Johannes Wilm [ctb] (src/biblatexin.c, src/bltypes.c)
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between rbibutils versions 2.0 dated 2020-11-18 and 2.1 dated 2021-04-06
DESCRIPTION | 9 +- MD5 | 53 ++++++++------ NEWS.md | 24 ++++++ R/bib.R | 49 ++++++++++--- R/bibentry.R | 11 ++ R/convert.R | 43 +++++------ R/import.R |only README.md | 45 +++++++++++- TODO | 16 ++-- build/partial.rdb |binary inst/bib/auto/latin1accents_utf8c.el |only inst/bib/eaf_Grunert01.bib |only inst/bib/ex0.bibtex | 3 inst/bib/latin1accents_utf8.bib | 7 + inst/bib/latin1accents_utf8a.bib |only inst/bib/latin1accents_utf8b.bib |only man/bibConvert.Rd | 59 ++++++++++++--- man/rbibutils-package.Rd | 130 +++++++++++++++++++++++++++++++---- man/readBib.Rd | 100 +++++++++++++++++++++++++- src/bib2be.c |only src/bibcore.c | 42 +++++++++-- src/bibentrydirectout.c |only src/bibentryout.c | 49 +++++++++++++ src/bibprog.c | 7 + src/bibtexdirectin.c |only src/bibutils.h | 1 src/init.c | 2 src/str_conv.c | 2 tests/testthat/bibacc_1.rds |only tests/testthat/bibacc_2.rds |only tests/testthat/bibacc_3.rds |only tests/testthat/eaf_Grunert01.rds |only tests/testthat/test-bib.R |only tests/testthat/test-convert.R | 11 ++ 34 files changed, 546 insertions(+), 117 deletions(-)
Title: Textual Statistics for the Quantitative Analysis of Textual Data
Description: Textual statistics functions formerly in the 'quanteda' package.
Textual statistics for characterizing and comparing textual data. Includes
functions for measuring term and document frequency, the co-occurrence of
words, similarity and distance between features and documents, feature entropy,
keyword occurrence, readability, and lexical diversity. These functions
extend the 'quanteda' package and are specially designed for sparse textual data.
Author: Kenneth Benoit [cre, aut, cph]
(<https://orcid.org/0000-0002-0797-564X>),
Kohei Watanabe [aut] (<https://orcid.org/0000-0001-6519-5265>),
Haiyan Wang [aut] (<https://orcid.org/0000-0003-4992-4311>),
Jiong Wei Lua [aut],
Jouni Kuha [aut] (<https://orcid.org/0000-0002-1156-8465>),
European Research Council [fnd] (ERC-2011-StG 283794-QUANTESS)
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda.textstats versions 0.93 dated 2021-03-15 and 0.94 dated 2021-04-06
DESCRIPTION | 6 - MD5 | 32 ++++---- NAMESPACE | 4 - NEWS.md | 5 + R/textstat_frequency.R | 26 +++++- R/textstat_readability.R | 2 R/textstat_simil.R | 67 ++++++++++++++++- R/utils.R | 2 build/partial.rdb |binary inst/WORDLIST | 1 man/textstat_frequency.Rd | 26 ++++-- man/textstat_proxy-class.Rd | 36 +++++++++ tests/testthat/test-textstat_collocations.R | 4 - tests/testthat/test-textstat_frequency.R | 10 +- tests/testthat/test-textstat_lexdiv.R | 110 ++++++++++++++-------------- tests/testthat/test-textstat_proxy.R | 31 +++---- tests/testthat/test-textstat_readability.R | 3 17 files changed, 253 insertions(+), 112 deletions(-)
More information about quanteda.textstats at CRAN
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Title: Plots for the Quantitative Analysis of Textual Data
Description: Plotting functions for visualising textual data. Extends 'quanteda' and
related packages with plot methods designed specifically for text data, textual statistics,
and models fit to textual data. Plot types include word clouds, lexical dispersion plots,
scaling plots, network visualisations, and word 'keyness' plots.
Author: Kenneth Benoit [cre, aut, cph]
(<https://orcid.org/0000-0002-0797-564X>),
Kohei Watanabe [aut] (<https://orcid.org/0000-0001-6519-5265>),
Haiyan Wang [aut] (<https://orcid.org/0000-0003-4992-4311>),
Adam Obeng [aut] (<https://orcid.org/0000-0002-2906-4775>),
Stefan Müller [aut] (<https://orcid.org/0000-0002-6315-4125>),
Akitaka Matsuo [aut] (<https://orcid.org/0000-0002-3323-6330>),
Ian Fellows [cph] (authored wordcloud C source code (modified)),
European Research Council [fnd] (ERC-2011-StG 283794-QUANTESS)
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda.textplots versions 0.92 dated 2021-02-18 and 0.94 dated 2021-04-06
DESCRIPTION | 12 +++---- MD5 | 34 +++++++++++----------- NAMESPACE | 5 +-- NEWS.md | 11 +++++-- R/textplot_keyness.R | 24 ++++++++++----- R/textplot_network.R | 19 +++++++++--- R/textplot_wordcloud.R | 33 ++++++++++++++------- R/textplot_xray.R | 47 +++++++++++++++---------------- README.md | 2 - inst/WORDLIST | 2 + man/textplot_keyness.Rd | 24 ++++++++++----- man/textplot_wordcloud.Rd | 33 ++++++++++++++------- man/textplot_xray.Rd | 2 + tests/testthat/test-textplot_keyness.R | 11 +++++-- tests/testthat/test-textplot_network.R | 40 +++++++++++++------------- tests/testthat/test-textplot_scale1d.R | 7 ++-- tests/testthat/test-textplot_wordcloud.R | 23 +++++++++------ tests/testthat/test-textplot_xray.R | 30 ++++++++----------- 18 files changed, 215 insertions(+), 144 deletions(-)
More information about quanteda.textplots at CRAN
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Title: Scaling Models and Classifiers for Textual Data
Description: Scaling models and classifiers for sparse matrix objects representing
textual data in the form of a document-feature matrix. Includes original
implementations of 'Laver', 'Benoit', and Garry's (2003) <doi:10.1017/S0003055403000698>,
'Wordscores' model, Perry and 'Benoit's' (2017) <arXiv:1710.08963> class affinity scaling model,
and 'Slapin' and 'Proksch's' (2008) <doi:10.1111/j.1540-5907.2008.00338.x> 'wordfish'
model, as well as methods for correspondence analysis, latent semantic analysis,
and fast Naive Bayes and linear 'SVMs' specially designed for sparse textual data.
Author: Kenneth Benoit [cre, aut, cph]
(<https://orcid.org/0000-0002-0797-564X>),
Kohei Watanabe [aut] (<https://orcid.org/0000-0001-6519-5265>),
Haiyan Wang [aut] (<https://orcid.org/0000-0003-4992-4311>),
Patrick O. Perry [aut] (<https://orcid.org/0000-0001-7460-127X>),
Benjamin Lauderdale [aut] (<https://orcid.org/0000-0003-3090-0969>),
Johannes Gruber [aut] (<https://orcid.org/0000-0001-9177-1772>),
William Lowe [aut] (<https://orcid.org/0000-0002-1549-6163>),
Vikas Sindhwani [cph] (authored svmlin C++ source code),
European Research Council [fnd] (ERC-2011-StG 283794-QUANTESS)
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda.textmodels versions 0.9.3 dated 2021-03-07 and 0.9.4 dated 2021-04-06
quanteda.textmodels-0.9.3/quanteda.textmodels/data/data_dfm_lbgexample.rda |only quanteda.textmodels-0.9.3/quanteda.textmodels/man/data_dfm_lbgexample.Rd |only quanteda.textmodels-0.9.4/quanteda.textmodels/DESCRIPTION | 9 - quanteda.textmodels-0.9.4/quanteda.textmodels/MD5 | 51 ++++---- quanteda.textmodels-0.9.4/quanteda.textmodels/NEWS.md | 4 quanteda.textmodels-0.9.4/quanteda.textmodels/R/data-documentation.R | 17 -- quanteda.textmodels-0.9.4/quanteda.textmodels/R/textmodel_affinity.R | 6 quanteda.textmodels-0.9.4/quanteda.textmodels/R/textmodel_ca.R | 4 quanteda.textmodels-0.9.4/quanteda.textmodels/R/textmodel_nb.R | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/R/textmodel_wordfish.R | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/R/textmodel_wordscores.R | 4 quanteda.textmodels-0.9.4/quanteda.textmodels/R/textplot_influence.R | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/R/utils.R | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/README.md | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/build/partial.rdb |binary quanteda.textmodels-0.9.4/quanteda.textmodels/inst/doc/textmodel_performance.R | 11 - quanteda.textmodels-0.9.4/quanteda.textmodels/inst/doc/textmodel_performance.Rmd | 15 -- quanteda.textmodels-0.9.4/quanteda.textmodels/inst/doc/textmodel_performance.html | 62 +++++----- quanteda.textmodels-0.9.4/quanteda.textmodels/man/force_conformance.Rd | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/man/influence.predict.textmodel_affinity.Rd | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/man/predict.textmodel_nb.Rd | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/man/predict.textmodel_wordscores.Rd | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/man/textmodel_affinity.Rd | 4 quanteda.textmodels-0.9.4/quanteda.textmodels/man/textmodel_wordfish.Rd | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/man/textmodel_wordscores.Rd | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/man/textplot_influence.Rd | 2 quanteda.textmodels-0.9.4/quanteda.textmodels/tests/spelling.Rout.save |only quanteda.textmodels-0.9.4/quanteda.textmodels/vignettes/textmodel_performance.Rmd | 15 -- 28 files changed, 105 insertions(+), 121 deletions(-)
More information about quanteda.textmodels at CRAN
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Title: Quantitative Analysis of Textual Data
Description: A fast, flexible, and comprehensive framework for
quantitative text analysis in R. Provides functionality for corpus management,
creating and manipulating tokens and ngrams, exploring keywords in context,
forming and manipulating sparse matrices
of documents by features and feature co-occurrences, analyzing keywords, computing feature similarities and
distances, applying content dictionaries, applying supervised and unsupervised machine learning,
visually representing text and text analyses, and more.
Author: Kenneth Benoit [cre, aut, cph]
(<https://orcid.org/0000-0002-0797-564X>),
Kohei Watanabe [aut] (<https://orcid.org/0000-0001-6519-5265>),
Haiyan Wang [aut] (<https://orcid.org/0000-0003-4992-4311>),
Paul Nulty [aut] (<https://orcid.org/0000-0002-7214-4666>),
Adam Obeng [aut] (<https://orcid.org/0000-0002-2906-4775>),
Stefan Müller [aut] (<https://orcid.org/0000-0002-6315-4125>),
Akitaka Matsuo [aut] (<https://orcid.org/0000-0002-3323-6330>),
William Lowe [aut] (<https://orcid.org/0000-0002-1549-6163>),
Christian Müller [ctb],
European Research Council [fnd] (ERC-2011-StG 283794-QUANTESS)
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda versions 2.1.2 dated 2020-09-23 and 3.0.0 dated 2021-04-06
quanteda-2.1.2/quanteda/R/View.R |only quanteda-2.1.2/quanteda/R/corpus-methods-base.R |only quanteda-2.1.2/quanteda/R/corpus-methods-quanteda.R |only quanteda-2.1.2/quanteda/R/dictionary_edit.R |only quanteda-2.1.2/quanteda/R/directionchange-functions.R |only quanteda-2.1.2/quanteda/R/metadoc.R |only quanteda-2.1.2/quanteda/R/nscrabble.R |only quanteda-2.1.2/quanteda/R/nsyllable.R |only quanteda-2.1.2/quanteda/R/textplot_keyness.R |only quanteda-2.1.2/quanteda/R/textplot_network.R |only quanteda-2.1.2/quanteda/R/textplot_wordcloud.R |only quanteda-2.1.2/quanteda/R/textplot_xray.R |only quanteda-2.1.2/quanteda/R/textstat-methods.R |only quanteda-2.1.2/quanteda/R/textstat_collocations.R |only quanteda-2.1.2/quanteda/R/textstat_entropy.R |only quanteda-2.1.2/quanteda/R/textstat_frequency.R |only quanteda-2.1.2/quanteda/R/textstat_keyness.R |only quanteda-2.1.2/quanteda/R/textstat_lexdiv.R |only quanteda-2.1.2/quanteda/R/textstat_readability.R |only quanteda-2.1.2/quanteda/R/textstat_simil.R |only quanteda-2.1.2/quanteda/R/textstat_summary.R |only quanteda-2.1.2/quanteda/R/tokens-methods-base.R |only quanteda-2.1.2/quanteda/data/data_char_wordlists.rda |only quanteda-2.1.2/quanteda/data/data_int_syllables.rda |only quanteda-2.1.2/quanteda/man/View.Rd |only quanteda-2.1.2/quanteda/man/as.corpus.Rd |only quanteda-2.1.2/quanteda/man/as.igraph.Rd |only quanteda-2.1.2/quanteda/man/as.matrix.textstat_simil_sparse.Rd |only quanteda-2.1.2/quanteda/man/as.network.Rd |only quanteda-2.1.2/quanteda/man/check_font.Rd |only quanteda-2.1.2/quanteda/man/compute_lexdiv_stats.Rd |only quanteda-2.1.2/quanteda/man/compute_mattr.Rd |only quanteda-2.1.2/quanteda/man/compute_msttr.Rd |only quanteda-2.1.2/quanteda/man/corpus_trimsentences.Rd |only quanteda-2.1.2/quanteda/man/create.Rd |only quanteda-2.1.2/quanteda/man/dfm_split_hyphenated_features.Rd |only quanteda-2.1.2/quanteda/man/diag2na.Rd |only quanteda-2.1.2/quanteda/man/dictionary_edit.Rd |only 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quanteda-3.0.0/quanteda/tests/testthat/test-quanteda_options.R | 50 quanteda-3.0.0/quanteda/tests/testthat/test-spacyr-methods.R | 2 quanteda-3.0.0/quanteda/tests/testthat/test-stopwords.R | 4 quanteda-3.0.0/quanteda/tests/testthat/test-summary.R |only quanteda-3.0.0/quanteda/tests/testthat/test-texts.R | 99 - quanteda-3.0.0/quanteda/tests/testthat/test-tokens.R | 105 - quanteda-3.0.0/quanteda/tests/testthat/test-tokens_chunk.R | 12 quanteda-3.0.0/quanteda/tests/testthat/test-tokens_compound.R | 69 - quanteda-3.0.0/quanteda/tests/testthat/test-tokens_group.R | 136 +- quanteda-3.0.0/quanteda/tests/testthat/test-tokens_lookup.R | 3 quanteda-3.0.0/quanteda/tests/testthat/test-tokens_ngrams.R | 22 quanteda-3.0.0/quanteda/tests/testthat/test-tokens_recompile.R | 5 quanteda-3.0.0/quanteda/tests/testthat/test-tokens_replace.R | 6 quanteda-3.0.0/quanteda/tests/testthat/test-tokens_sample.R |only quanteda-3.0.0/quanteda/tests/testthat/test-tokens_segment.R | 2 quanteda-3.0.0/quanteda/tests/testthat/test-tokens_select.R | 178 +- quanteda-3.0.0/quanteda/tests/testthat/test-tokens_split.R | 4 quanteda-3.0.0/quanteda/tests/testthat/test-tokens_subset.R | 19 quanteda-3.0.0/quanteda/tests/testthat/test-utils.R | 121 - quanteda-3.0.0/quanteda/tests/testthat/test-validator.R |only quanteda-3.0.0/quanteda/tests/testthat/test-wordstem.R | 10 quanteda-3.0.0/quanteda/vignettes/images |only quanteda-3.0.0/quanteda/vignettes/quickstart.Rmd | 110 + 343 files changed, 5420 insertions(+), 5915 deletions(-)
Title: Factorization of Sparse Counts Matrices Through Poisson
Likelihood
Description: Creates a low-rank factorization of a sparse counts matrix by maximizing Poisson likelihood with l1/l2 regularization
with all non-negative latent factors (e.g. for recommender systems or topic modeling) (Cortes, (2018) <arXiv:1811.01908>).
Similar to hierarchical Poisson factorization, but follows an optimization-based approach with regularization instead of a
hierarchical structure, and is fit through gradient-based methods instead of variational inference.
Author: David Cortes [aut, cre, cph], Jean-Sebastien Roy [cph], Stephen Nash [cph]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between poismf versions 0.2.7 dated 2021-01-08 and 0.3.0 dated 2021-04-06
DESCRIPTION | 8 +- MD5 | 24 +++---- R/poismf.R | 76 +++++++++++++++++-------- configure | 18 ++--- configure.ac | 2 man/poismf.Rd | 31 +++++++--- src/nonnegcg.c | 6 + src/poismf.c | 173 ++++++++++++++++++++++++++++++++++++++++----------------- src/poismf.h | 15 ++-- src/pred.c | 50 +++++++++------- src/rwrapper.c | 32 ++++++---- src/tnc.c | 63 +++++++++++++++----- src/topN.c | 2 13 files changed, 334 insertions(+), 166 deletions(-)
Title: Computation and Visualization of Package Download Counts and
Percentiles
Description: Compute and visualize the cross-sectional and longitudinal number
and rank percentile of package downloads from RStudio's CRAN mirror.
Author: Peter Li [aut, cre]
Maintainer: Peter Li <lindbrook@gmail.com>
Diff between packageRank versions 0.4.0 dated 2021-03-01 and 0.4.1 dated 2021-04-06
packageRank-0.4.0/packageRank/man/figures/README-counts_ranks-1.png |only packageRank-0.4.0/packageRank/man/figures/README-skew_sat-1.png |only packageRank-0.4.0/packageRank/man/figures/README-skew_wed-1.png |only packageRank-0.4.1/packageRank/DESCRIPTION | 11 packageRank-0.4.1/packageRank/MD5 | 73 +- packageRank-0.4.1/packageRank/NAMESPACE | 4 packageRank-0.4.1/packageRank/NEWS | 23 packageRank-0.4.1/packageRank/R/annualDownloads.R |only packageRank-0.4.1/packageRank/R/bioconductorDownloads.R | 49 - packageRank-0.4.1/packageRank/R/cranDownloads.R | 272 +++++----- packageRank-0.4.1/packageRank/R/cranPackageSize.R | 8 packageRank-0.4.1/packageRank/R/logDate.R | 11 packageRank-0.4.1/packageRank/R/packageDistribution.R | 2 packageRank-0.4.1/packageRank/R/packageRank.R | 2 packageRank-0.4.1/packageRank/R/packageVersionPercent.R | 2 packageRank-0.4.1/packageRank/R/populationPlot.R | 17 packageRank-0.4.1/packageRank/R/sizeFilter.R | 15 packageRank-0.4.1/packageRank/R/utc.R | 2 packageRank-0.4.1/packageRank/R/weeklyDownloads.R |only packageRank-0.4.1/packageRank/README.md | 52 + packageRank-0.4.1/packageRank/man/annualDownloads.Rd |only packageRank-0.4.1/packageRank/man/figures/README-ci-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-cranDownloads_growth_curves-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-cranDownloads_viz1-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-cranDownloads_viz2-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-cranDownloads_viz3-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-lowess-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-motivation_code-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-null_packages-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-packageDistribution_sat_code-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-packageDistribution_wed_code-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-packageRank_plot_code_sat-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-packageRank_plot_code_wed-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-pkg_release_date-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-pop_plot_code-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-r_downloads-1.png |binary packageRank-0.4.1/packageRank/man/figures/README-r_release_date-1.png |binary packageRank-0.4.1/packageRank/man/plot.annualDownloads.Rd |only packageRank-0.4.1/packageRank/man/plot.bioconductorDownloads.Rd | 8 packageRank-0.4.1/packageRank/man/plot.cranDownloads.Rd | 6 packageRank-0.4.1/packageRank/man/plot.weeklyDownloads.Rd |only packageRank-0.4.1/packageRank/man/weeklyDownloads.Rd |only 42 files changed, 318 insertions(+), 239 deletions(-)
More information about MultiHorizonSPA at CRAN
Permanent link
Title: Summary Statistics for Histogram/Count Data
Description: In some cases you will have data in a histogram format, where
you have a vector of all possible observations, and a vector of how many
times each observation appeared. You could expand this into a single 1D
vector, but this may not be advisable if the counts are extremely large.
'HistDat' allows for the calculation of summary statistics without the need
for expanding your data.
Author: Michael Milton
Maintainer: Michael Milton <michael.r.milton@gmail.com>
Diff between HistDat versions 0.1.0 dated 2021-04-02 and 0.2.0 dated 2021-04-06
HistDat-0.1.0/HistDat/man/sum-HistDat-method.Rd |only HistDat-0.2.0/HistDat/DESCRIPTION | 8 HistDat-0.2.0/HistDat/MD5 | 33 +- HistDat-0.2.0/HistDat/NAMESPACE | 10 HistDat-0.2.0/HistDat/NEWS.md |only HistDat-0.2.0/HistDat/R/histogram.R | 197 ++++++++++-- HistDat-0.2.0/HistDat/inst/doc/histdat.R | 2 HistDat-0.2.0/HistDat/inst/doc/histdat.Rmd | 10 HistDat-0.2.0/HistDat/inst/doc/histdat.html | 8 HistDat-0.2.0/HistDat/man/HistDat-class.Rd | 6 HistDat-0.2.0/HistDat/man/HistDat-package.Rd | 8 HistDat-0.2.0/HistDat/man/HistDat.Rd |only HistDat-0.2.0/HistDat/man/c-HistDat-method.Rd |only HistDat-0.2.0/HistDat/man/mean-HistDat-method.Rd | 5 HistDat-0.2.0/HistDat/man/median-HistDat-method.Rd | 5 HistDat-0.2.0/HistDat/man/quantile-HistDat-method.Rd | 14 HistDat-0.2.0/HistDat/man/sort-HistDat-method.Rd |only HistDat-0.2.0/HistDat/man/sub-HistDat-ANY-ANY-ANY-method.Rd |only HistDat-0.2.0/HistDat/man/sum.HistDat.Rd |only HistDat-0.2.0/HistDat/tests/testthat/test-histogram.R | 84 ++++- HistDat-0.2.0/HistDat/vignettes/histdat.Rmd | 10 21 files changed, 310 insertions(+), 90 deletions(-)
Title: Fast Implementation of the Diffusion Decision Model
Description: Provides the probability density function (PDF) of the diffusion decision
model (DDM; e.g., Ratcliff & McKoon, 2008, <doi:10.1162/neco.2008.12-06-420>)
with across-trial variability in the drift rate.
Because the PDF of the DDM contains an infinite sum, it needs to be
approximated. 'fddm' implements all published approximations (Navarro & Fuss, 2009,
<doi:10.1016/j.jmp.2009.02.003>; Gondan, Blurton, & Kesselmeier, 2014,
<doi:10.1016/j.jmp.2014.05.002>) plus new approximations. All approximations
are implemented purely in 'C++' providing faster speed than existing packages.
Author: Kendal B. Foster [aut],
Henrik Singmann [ctb, cre] (<https://orcid.org/0000-0002-4842-3657>)
Maintainer: Henrik Singmann <singmann@gmail.com>
Diff between fddm versions 0.3-1 dated 2021-03-22 and 0.3-3 dated 2021-04-06
DESCRIPTION | 6 MD5 | 34 +- NEWS.md | 9 inst/doc/benchmark.R | 36 +- inst/doc/benchmark.Rmd | 48 +-- inst/doc/benchmark.html | 128 ++++---- inst/doc/example.html | 120 ++++---- inst/doc/math.html | 6 inst/doc/validity.R | 86 ++++- inst/doc/validity.Rmd | 86 ++++- inst/doc/validity.html | 398 ++++++++++++++------------- src/dfddm.cpp | 60 +--- src/funcs.h | 47 +-- src/helper_functions.cpp | 603 ++++++++++++++++++++++++------------------ src/sum_funcs.cpp | 3 tests/testthat/test-density.R | 275 +++++++++++++++---- vignettes/benchmark.Rmd | 48 +-- vignettes/validity.Rmd | 86 ++++- 18 files changed, 1262 insertions(+), 817 deletions(-)
Title: Retrieve and Analyze Clinical Trials in Public Registers
Description: Provides functions for querying, retrieving and analyzing
protocol- and results-related information on clinical trials from
two public registers, the 'European Union Clinical Trials Register'
('EUCTR', <https://www.clinicaltrialsregister.eu/>) and
'ClinicalTrials.gov' ('CTGOV', <https://clinicaltrials.gov/>). The
trial information is transformed and stored in a database ('SQLite'
or 'MongoDB', via 'nodbi'). Functions are provided to identify de-
duplicated records, to easily find and extract variables (fields)
of interest even from complex nesting as used by the registers,
and to update previous queries that users retrieved in a database.
The package can be used for meta analysis and trend-analysis of
the design and conduct as well as results of clinical trials.
Author: Ralf Herold [aut, cre] (<https://orcid.org/0000-0002-8148-6748>)
Maintainer: Ralf Herold <ralf.herold@mailbox.org>
Diff between ctrdata versions 1.5.1 dated 2021-03-21 and 1.5.2 dated 2021-04-06
DESCRIPTION | 7 - MD5 | 32 +++---- NEWS.md | 4 R/main.R | 86 +++++++------------- R/utils.R | 86 ++++++++++---------- README.md | 16 +-- inst/doc/ctrdata_analyse.pdf |binary inst/doc/ctrdata_install.pdf |binary inst/doc/ctrdata_retrieve.pdf |binary inst/image/README-ctrdata_results_neuroblastoma.png |binary inst/tinytest/ctrdata_euctr.R | 32 +++---- inst/tinytest/test_ctrdata_param_checks.R | 25 +---- man/ctrLoadQueryIntoDb.Rd | 2 vignettes/boxpep.png |binary vignettes/ctrdata_analyse.Rmd | 27 +++--- vignettes/ctrdata_retrieve.Rmd | 17 +++ vignettes/nb2.png |binary 17 files changed, 158 insertions(+), 176 deletions(-)
Title: MCMC for Spike and Slab Regression
Description: Spike and slab regression with a variety of residual error
distributions corresponding to Gaussian, Student T, probit, logit, SVM, and a
few others. Spike and slab regression is Bayesian regression with prior
distributions containing a point mass at zero. The posterior updates the
amount of mass on this point, leading to a posterior distribution that is
actually sparse, in the sense that if you sample from it many coefficients are
actually zeros. Sampling from this posterior distribution is an elegant way
to handle Bayesian variable selection and model averaging. See
<DOI:10.1504/IJMMNO.2014.059942> for an explanation of the Gaussian case.
Author: Steven L. Scott <steve.the.bayesian@gmail.com>
Maintainer: Steven L. Scott <steve.the.bayesian@gmail.com>
Diff between BoomSpikeSlab versions 1.2.3 dated 2020-05-01 and 1.2.4 dated 2021-04-06
DESCRIPTION | 12 ++++---- MD5 | 15 +++++----- NAMESPACE | 1 R/lm.spike.R | 47 +++++++++++++++++++++++++++----- inst/tests/tests/testthat/test-nnet.R | 22 ++++---------- inst/tests/testthat/test-nnet.R | 22 ++++---------- man/plot.lm.spike.Rd | 2 - man/plot.lm.spike.fit.Rd |only tests/testthat/test-nested-regression.R | 17 ++++++----- 9 files changed, 79 insertions(+), 59 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-10-01 1.0.8
2020-05-19 1.0.7
2020-05-15 1.0.6
2019-02-28 1.0.5
2018-06-18 1.0.4
2018-05-22 1.0.3
2018-04-03 1.0.2
2017-11-02 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-23 0.1.4
Title: Download and Tidy Data from the Reserve Bank of Australia
Description: Download up-to-date data from the Reserve Bank of Australia
in a tidy data frame. Package includes functions to download current and
historical statistical tables
(<https://www.rba.gov.au/statistics/tables/>) and forecasts
(<https://www.rba.gov.au/publications/smp/forecasts-archive.html>). Data
includes a broad range of Australian macroeconomic and financial time
series.
Author: Matt Cowgill [aut, cre] (<https://orcid.org/0000-0003-0422-3300>)
Maintainer: Matt Cowgill <mattcowgill@gmail.com>
Diff between readrba versions 0.1.0 dated 2020-12-16 and 0.1.1 dated 2021-04-06
DESCRIPTION | 9 - MD5 | 26 ++-- NEWS.md | 4 R/check_rba_connection.R |only R/download_rba.R | 11 - R/rba_forecasts.R | 3 R/scrape_table_list.R | 4 R/sysdata.rda |binary README.md | 181 +++++++++++++++---------------- build/vignette.rds |binary inst/doc/readrba.html | 69 ++++++----- man/figures/README-unnamed-chunk-4-1.png |binary man/figures/README-unnamed-chunk-5-1.png |only tests/testthat/test-read_rba.R | 10 - tests/testthat/test-scrape_table_list.R | 6 - 15 files changed, 163 insertions(+), 160 deletions(-)
Title: Crunch.io Data Tools
Description: The Crunch.io service <https://crunch.io/> provides a cloud-based
data store and analytic engine, as well as an intuitive web interface.
Using this package, analysts can interact with and manipulate Crunch
datasets from within R. Importantly, this allows technical researchers to
collaborate naturally with team members, managers, and clients who prefer a
point-and-click interface.
Author: Greg Freedman Ellis [aut, cre],
Jonathan Keane [aut],
Mike Malecki [aut],
Neal Richardson [aut],
Gordon Shotwell [aut]
Maintainer: Greg Freedman Ellis <greg@crunch.io>
Diff between crunch versions 1.27.7 dated 2021-02-02 and 1.28.0 dated 2021-04-05
crunch-1.27.7/crunch/man/display-settings.Rd |only crunch-1.27.7/crunch/vignettes/fork-and-merge/0/api/datasets/95c00e |only crunch-1.27.7/crunch/vignettes/fork-and-merge/0/api/datasets/95c00e.json |only crunch-1.27.7/crunch/vignettes/fork-and-merge/0/api/datasets/e69cbd |only crunch-1.27.7/crunch/vignettes/fork-and-merge/0/api/datasets/e69cbd.json |only crunch-1.27.7/crunch/vignettes/fork-and-merge/0/api/public/login-POST.204 |only crunch-1.27.7/crunch/vignettes/fork-and-merge/1/api/datasets/95c00e |only crunch-1.27.7/crunch/vignettes/fork-and-merge/1/api/datasets/95c00e.json |only crunch-1.27.7/crunch/vignettes/fork-and-merge/2/api/datasets/95c00e |only crunch-1.27.7/crunch/vignettes/fork-and-merge/2/api/datasets/95c00e.json |only crunch-1.27.7/crunch/vignettes/fork-and-merge/3/api/datasets/2c6beb |only crunch-1.27.7/crunch/vignettes/fork-and-merge/3/api/datasets/2c6beb.json |only crunch-1.27.7/crunch/vignettes/fork-and-merge/4/api/datasets/273151 |only 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crunch-1.28.0/crunch/DESCRIPTION | 21 crunch-1.28.0/crunch/MD5 | 456 +++++----- crunch-1.28.0/crunch/NAMESPACE | 10 crunch-1.28.0/crunch/R/AllClasses.R | 4 crunch-1.28.0/crunch/R/AllGenerics.R | 21 crunch-1.28.0/crunch/R/api.R | 13 crunch-1.28.0/crunch/R/as-vector.R | 10 crunch-1.28.0/crunch/R/cube-query.R | 63 + crunch-1.28.0/crunch/R/dataset-update.R | 10 crunch-1.28.0/crunch/R/dataset.R | 137 ++- crunch-1.28.0/crunch/R/decks.R | 2 crunch-1.28.0/crunch/R/dimension-transforms.R |only crunch-1.28.0/crunch/R/folders.R | 17 crunch-1.28.0/crunch/R/formula.R | 66 + crunch-1.28.0/crunch/R/get-datasets.R | 2 crunch-1.28.0/crunch/R/hide-variables.R | 7 crunch-1.28.0/crunch/R/json.R | 21 crunch-1.28.0/crunch/R/make-array.R | 57 + crunch-1.28.0/crunch/R/ordering.R | 3 crunch-1.28.0/crunch/R/palettes.R |only crunch-1.28.0/crunch/R/private-variables.R | 7 crunch-1.28.0/crunch/R/search.R | 14 crunch-1.28.0/crunch/R/shoji.R | 40 crunch-1.28.0/crunch/R/show.R | 30 crunch-1.28.0/crunch/R/slides.R | 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Title: Calculate Cluster-Robust p-Values and Confidence Intervals
Description: Calculate p-values and confidence intervals using cluster-adjusted
t-statistics (based on Ibragimov and Muller (2010) <DOI:10.1198/jbes.2009.08046>, pairs cluster bootstrapped t-statistics, and wild cluster bootstrapped t-statistics (the latter two techniques based on Cameron, Gelbach, and Miller (2008) <DOI:10.1162/rest.90.3.414>. Procedures are included for use with GLM, ivreg, plm (pooling or fixed effects), and mlogit models.
Author: Justin Esarey [aut, cre]
Maintainer: Justin Esarey <justin@justinesarey.com>
Diff between clusterSEs versions 2.6.4 dated 2021-03-05 and 2.6.5 dated 2021-04-05
DESCRIPTION | 9 ++++----- MD5 | 6 +++--- R/clusterBS.mlogit.R | 2 +- R/clusterIM.mlogit.R | 2 +- 4 files changed, 9 insertions(+), 10 deletions(-)
Title: Convert Statistical Objects into Tidy Tibbles
Description: Summarizes key information about statistical
objects in tidy tibbles. This makes it easy to report results, create
plots and consistently work with large numbers of models at once.
Broom provides three verbs that each provide different types of
information about a model. tidy() summarizes information about model
components such as coefficients of a regression. glance() reports
information about an entire model, such as goodness of fit measures
like AIC and BIC. augment() adds information about individual
observations to a dataset, such as fitted values or influence
measures.
Author: David Robinson [aut],
Alex Hayes [aut, cre] (<https://orcid.org/0000-0002-4985-5160>),
Simon Couch [aut],
Indrajeet Patil [ctb] (<https://orcid.org/0000-0003-1995-6531>),
Derek Chiu [ctb],
Matthieu Gomez [ctb],
Boris Demeshev [ctb],
Dieter Menne [ctb],
Benjamin Nutter [ctb],
Luke Johnston [ctb],
Ben Bolker [ctb],
Francois Briatte [ctb],
Jeffrey Arnold [ctb],
Jonah Gabry [ctb],
Luciano Selzer [ctb],
Gavin Simpson [ctb],
Jens Preussner [ctb],
Jay Hesselberth [ctb],
Hadley Wickham [ctb],
Matthew Lincoln [ctb],
Alessandro Gasparini [ctb],
Lukasz Komsta [ctb],
Frederick Novometsky [ctb],
Wilson Freitas [ctb],
Michelle Evans [ctb],
Jason Cory Brunson [ctb],
Simon Jackson [ctb],
Ben Whalley [ctb],
Karissa Whiting [ctb],
Yves Rosseel [ctb],
Michael Kuehn [ctb],
Jorge Cimentada [ctb],
Erle Holgersen [ctb],
Karl Dunkle Werner [ctb] (<https://orcid.org/0000-0003-0523-7309>),
Ethan Christensen [ctb],
Steven Pav [ctb],
Paul PJ [ctb],
Ben Schneider [ctb],
Patrick Kennedy [ctb],
Lily Medina [ctb],
Brian Fannin [ctb],
Jason Muhlenkamp [ctb],
Matt Lehman [ctb],
Bill Denney [ctb] (<https://orcid.org/0000-0002-5759-428X>),
Nic Crane [ctb],
Andrew Bates [ctb],
Vincent Arel-Bundock [ctb] (<https://orcid.org/0000-0003-2042-7063>),
Hideaki Hayashi [ctb],
Luis Tobalina [ctb],
Annie Wang [ctb],
Wei Yang Tham [ctb],
Clara Wang [ctb],
Abby Smith [ctb] (<https://orcid.org/0000-0002-3207-0375>),
Jasper Cooper [ctb] (<https://orcid.org/0000-0002-8639-3188>),
E Auden Krauska [ctb] (<https://orcid.org/0000-0002-1466-5850>),
Alex Wang [ctb],
Malcolm Barrett [ctb] (<https://orcid.org/0000-0003-0299-5825>),
Charles Gray [ctb] (<https://orcid.org/0000-0002-9978-011X>),
Jared Wilber [ctb],
Vilmantas Gegzna [ctb] (<https://orcid.org/0000-0002-9500-5167>),
Eduard Szoecs [ctb],
Frederik Aust [ctb] (<https://orcid.org/0000-0003-4900-788X>),
Angus Moore [ctb],
Nick Williams [ctb],
Marius Barth [ctb] (<https://orcid.org/0000-0002-3421-6665>),
Bruna Wundervald [ctb] (<https://orcid.org/0000-0001-8163-220X>),
Joyce Cahoon [ctb] (<https://orcid.org/0000-0001-7217-4702>),
Grant McDermott [ctb] (<https://orcid.org/0000-0001-7883-8573>),
Kevin Zarca [ctb],
Shiro Kuriwaki [ctb] (<https://orcid.org/0000-0002-5687-2647>),
Lukas Wallrich [ctb] (<https://orcid.org/0000-0003-2121-5177>),
James Martherus [ctb] (<https://orcid.org/0000-0002-8285-3300>),
Chuliang Xiao [ctb] (<https://orcid.org/0000-0002-8466-9398>),
Joseph Larmarange [ctb],
Max Kuhn [ctb],
Michal Bojanowski [ctb],
Hakon Malmedal [ctb],
Clara Wang [ctb],
Sergio Oller [ctb],
Luke Sonnet [ctb],
Jim Hester [ctb],
Cory Brunson [ctb],
Ben Schneider [ctb],
Bernie Gray [ctb] (<https://orcid.org/0000-0001-9190-6032>),
Mara Averick [ctb],
Aaron Jacobs [ctb],
Andreas Bender [ctb],
Sven Templer [ctb],
Paul-Christian Buerkner [ctb],
Matthew Kay [ctb],
Erwan Le Pennec [ctb],
Johan Junkka [ctb],
Hao Zhu [ctb],
Benjamin Soltoff [ctb],
Zoe Wilkinson Saldana [ctb],
Tyler Littlefield [ctb],
Charles T. Gray [ctb],
Shabbh E. Banks [ctb],
Serina Robinson [ctb],
Roger Bivand [ctb],
Riinu Ots [ctb],
Nicholas Williams [ctb],
Nina Jakobsen [ctb],
Michael Weylandt [ctb],
Lisa Lendway [ctb],
Karl Hailperin [ctb],
Josue Rodriguez [ctb],
Jenny Bryan [ctb],
Chris Jarvis [ctb],
Greg Macfarlane [ctb],
Brian Mannakee [ctb],
Drew Tyre [ctb],
Shreyas Singh [ctb],
Laurens Geffert [ctb],
Hong Ooi [ctb],
Henrik Bengtsson [ctb],
Eduard Szocs [ctb],
David Hugh-Jones [ctb],
Matthieu Stigler [ctb],
Hugo Tavares [ctb] (<https://orcid.org/0000-0001-9373-2726>),
R. Willem Vervoort [ctb],
Brenton M. Wiernik [ctb],
Josh Yamamoto [ctb]
Maintainer: Alex Hayes <alexpghayes@gmail.com>
Diff between broom versions 0.7.5 dated 2021-02-19 and 0.7.6 dated 2021-04-05
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broom-0.7.6/broom/man/augment.coxph.Rd | 2 broom-0.7.6/broom/man/augment.decomposed.ts.Rd | 2 broom-0.7.6/broom/man/augment.drc.Rd | 2 broom-0.7.6/broom/man/augment.factanal.Rd | 2 broom-0.7.6/broom/man/augment.felm.Rd | 2 broom-0.7.6/broom/man/augment.gam.Rd | 2 broom-0.7.6/broom/man/augment.glm.Rd | 2 broom-0.7.6/broom/man/augment.htest.Rd | 2 broom-0.7.6/broom/man/augment.ivreg.Rd | 2 broom-0.7.6/broom/man/augment.kmeans.Rd | 2 broom-0.7.6/broom/man/augment.lm.Rd | 2 broom-0.7.6/broom/man/augment.lmRob.Rd | 2 broom-0.7.6/broom/man/augment.loess.Rd | 2 broom-0.7.6/broom/man/augment.mfx.Rd | 2 broom-0.7.6/broom/man/augment.mjoint.Rd | 2 broom-0.7.6/broom/man/augment.mlogit.Rd | 2 broom-0.7.6/broom/man/augment.nlrq.Rd | 2 broom-0.7.6/broom/man/augment.nls.Rd | 2 broom-0.7.6/broom/man/augment.pam.Rd | 2 broom-0.7.6/broom/man/augment.plm.Rd | 2 broom-0.7.6/broom/man/augment.poLCA.Rd | 2 broom-0.7.6/broom/man/augment.polr.Rd | 2 broom-0.7.6/broom/man/augment.prcomp.Rd | 2 broom-0.7.6/broom/man/augment.rlm.Rd | 2 broom-0.7.6/broom/man/augment.rma.Rd | 2 broom-0.7.6/broom/man/augment.robustbase.glmrob.Rd | 2 broom-0.7.6/broom/man/augment.robustbase.lmrob.Rd | 2 broom-0.7.6/broom/man/augment.sarlm.Rd | 19 broom-0.7.6/broom/man/augment.smooth.spline.Rd | 2 broom-0.7.6/broom/man/augment.speedlm.Rd | 2 broom-0.7.6/broom/man/augment.stl.Rd | 2 broom-0.7.6/broom/man/augment.survreg.Rd | 2 broom-0.7.6/broom/man/bootstrap.Rd | 1 broom-0.7.6/broom/man/broom.Rd | 1 broom-0.7.6/broom/man/confint_tidy.Rd | 1 broom-0.7.6/broom/man/data.frame_tidiers.Rd | 3 broom-0.7.6/broom/man/durbinWatsonTest_tidiers.Rd | 2 broom-0.7.6/broom/man/finish_glance.Rd | 1 broom-0.7.6/broom/man/fix_data_frame.Rd | 1 broom-0.7.6/broom/man/glance.Arima.Rd | 2 broom-0.7.6/broom/man/glance.Mclust.Rd | 2 broom-0.7.6/broom/man/glance.Rchoice.Rd | 2 broom-0.7.6/broom/man/glance.aareg.Rd | 2 broom-0.7.6/broom/man/glance.aov.Rd | 2 broom-0.7.6/broom/man/glance.betamfx.Rd | 2 broom-0.7.6/broom/man/glance.betareg.Rd | 2 broom-0.7.6/broom/man/glance.biglm.Rd | 2 broom-0.7.6/broom/man/glance.binDesign.Rd | 2 broom-0.7.6/broom/man/glance.cch.Rd | 2 broom-0.7.6/broom/man/glance.clm.Rd | 2 broom-0.7.6/broom/man/glance.clmm.Rd | 2 broom-0.7.6/broom/man/glance.coeftest.Rd | 2 broom-0.7.6/broom/man/glance.coxph.Rd | 2 broom-0.7.6/broom/man/glance.crr.Rd | 2 broom-0.7.6/broom/man/glance.cv.glmnet.Rd | 2 broom-0.7.6/broom/man/glance.drc.Rd | 2 broom-0.7.6/broom/man/glance.factanal.Rd | 2 broom-0.7.6/broom/man/glance.felm.Rd | 2 broom-0.7.6/broom/man/glance.fitdistr.Rd | 2 broom-0.7.6/broom/man/glance.gam.Rd | 2 broom-0.7.6/broom/man/glance.garch.Rd | 2 broom-0.7.6/broom/man/glance.geeglm.Rd | 2 broom-0.7.6/broom/man/glance.glm.Rd | 2 broom-0.7.6/broom/man/glance.glmRob.Rd | 2 broom-0.7.6/broom/man/glance.glmnet.Rd | 2 broom-0.7.6/broom/man/glance.gmm.Rd | 2 broom-0.7.6/broom/man/glance.ivreg.Rd | 2 broom-0.7.6/broom/man/glance.kmeans.Rd | 2 broom-0.7.6/broom/man/glance.lavaan.Rd | 2 broom-0.7.6/broom/man/glance.lm.Rd | 2 broom-0.7.6/broom/man/glance.lmRob.Rd | 2 broom-0.7.6/broom/man/glance.lmodel2.Rd | 2 broom-0.7.6/broom/man/glance.margins.Rd | 2 broom-0.7.6/broom/man/glance.mfx.Rd | 2 broom-0.7.6/broom/man/glance.mjoint.Rd | 2 broom-0.7.6/broom/man/glance.mlogit.Rd | 2 broom-0.7.6/broom/man/glance.muhaz.Rd | 2 broom-0.7.6/broom/man/glance.multinom.Rd | 2 broom-0.7.6/broom/man/glance.negbin.Rd |only broom-0.7.6/broom/man/glance.nlrq.Rd | 2 broom-0.7.6/broom/man/glance.nls.Rd | 2 broom-0.7.6/broom/man/glance.orcutt.Rd | 2 broom-0.7.6/broom/man/glance.pam.Rd | 2 broom-0.7.6/broom/man/glance.plm.Rd | 2 broom-0.7.6/broom/man/glance.poLCA.Rd | 2 broom-0.7.6/broom/man/glance.polr.Rd | 2 broom-0.7.6/broom/man/glance.pyears.Rd | 2 broom-0.7.6/broom/man/glance.ridgelm.Rd | 2 broom-0.7.6/broom/man/glance.rlm.Rd | 2 broom-0.7.6/broom/man/glance.rma.Rd | 2 broom-0.7.6/broom/man/glance.robustbase.lmrob.Rd | 2 broom-0.7.6/broom/man/glance.rq.Rd | 2 broom-0.7.6/broom/man/glance.sarlm.Rd | 19 broom-0.7.6/broom/man/glance.smooth.spline.Rd | 2 broom-0.7.6/broom/man/glance.speedglm.Rd | 2 broom-0.7.6/broom/man/glance.speedlm.Rd | 2 broom-0.7.6/broom/man/glance.summary.lm.Rd | 2 broom-0.7.6/broom/man/glance.survdiff.Rd | 2 broom-0.7.6/broom/man/glance.survexp.Rd | 2 broom-0.7.6/broom/man/glance.survreg.Rd | 2 broom-0.7.6/broom/man/glance.svyglm.Rd | 2 broom-0.7.6/broom/man/glance.svyolr.Rd | 2 broom-0.7.6/broom/man/glance.varest.Rd | 2 broom-0.7.6/broom/man/glance_optim.Rd | 2 broom-0.7.6/broom/man/leveneTest_tidiers.Rd | 2 broom-0.7.6/broom/man/metafor_tidiers.Rd | 2 broom-0.7.6/broom/man/sparse_tidiers.Rd | 2 broom-0.7.6/broom/man/summary_tidiers.Rd | 4 broom-0.7.6/broom/man/tidy.Arima.Rd | 2 broom-0.7.6/broom/man/tidy.Kendall.Rd | 2 broom-0.7.6/broom/man/tidy.Mclust.Rd | 2 broom-0.7.6/broom/man/tidy.Rchoice.Rd | 2 broom-0.7.6/broom/man/tidy.TukeyHSD.Rd | 2 broom-0.7.6/broom/man/tidy.aareg.Rd | 2 broom-0.7.6/broom/man/tidy.acf.Rd | 2 broom-0.7.6/broom/man/tidy.anova.Rd | 2 broom-0.7.6/broom/man/tidy.aov.Rd | 2 broom-0.7.6/broom/man/tidy.aovlist.Rd | 2 broom-0.7.6/broom/man/tidy.betamfx.Rd | 2 broom-0.7.6/broom/man/tidy.betareg.Rd | 2 broom-0.7.6/broom/man/tidy.biglm.Rd | 2 broom-0.7.6/broom/man/tidy.binDesign.Rd | 2 broom-0.7.6/broom/man/tidy.binWidth.Rd | 2 broom-0.7.6/broom/man/tidy.boot.Rd | 2 broom-0.7.6/broom/man/tidy.btergm.Rd | 2 broom-0.7.6/broom/man/tidy.cch.Rd | 2 broom-0.7.6/broom/man/tidy.cld.Rd | 2 broom-0.7.6/broom/man/tidy.clm.Rd | 2 broom-0.7.6/broom/man/tidy.clmm.Rd | 2 broom-0.7.6/broom/man/tidy.coeftest.Rd | 2 broom-0.7.6/broom/man/tidy.confint.glht.Rd | 2 broom-0.7.6/broom/man/tidy.confusionMatrix.Rd | 2 broom-0.7.6/broom/man/tidy.coxph.Rd | 2 broom-0.7.6/broom/man/tidy.crr.Rd | 2 broom-0.7.6/broom/man/tidy.cv.glmnet.Rd | 2 broom-0.7.6/broom/man/tidy.density.Rd | 3 broom-0.7.6/broom/man/tidy.dist.Rd | 3 broom-0.7.6/broom/man/tidy.drc.Rd | 2 broom-0.7.6/broom/man/tidy.epi.2by2.Rd | 2 broom-0.7.6/broom/man/tidy.factanal.Rd | 2 broom-0.7.6/broom/man/tidy.felm.Rd | 2 broom-0.7.6/broom/man/tidy.fitdistr.Rd | 2 broom-0.7.6/broom/man/tidy.ftable.Rd | 3 broom-0.7.6/broom/man/tidy.gam.Rd | 2 broom-0.7.6/broom/man/tidy.garch.Rd | 2 broom-0.7.6/broom/man/tidy.geeglm.Rd | 2 broom-0.7.6/broom/man/tidy.glht.Rd | 2 broom-0.7.6/broom/man/tidy.glm.Rd | 2 broom-0.7.6/broom/man/tidy.glmRob.Rd | 2 broom-0.7.6/broom/man/tidy.glmnet.Rd | 2 broom-0.7.6/broom/man/tidy.gmm.Rd | 2 broom-0.7.6/broom/man/tidy.htest.Rd | 2 broom-0.7.6/broom/man/tidy.ivreg.Rd | 2 broom-0.7.6/broom/man/tidy.kappa.Rd | 2 broom-0.7.6/broom/man/tidy.kde.Rd | 2 broom-0.7.6/broom/man/tidy.kmeans.Rd | 2 broom-0.7.6/broom/man/tidy.lm.Rd | 2 broom-0.7.6/broom/man/tidy.lm.beta.Rd | 2 broom-0.7.6/broom/man/tidy.lmRob.Rd | 2 broom-0.7.6/broom/man/tidy.lmodel2.Rd | 2 broom-0.7.6/broom/man/tidy.map.Rd | 2 broom-0.7.6/broom/man/tidy.margins.Rd | 2 broom-0.7.6/broom/man/tidy.mediate.Rd | 2 broom-0.7.6/broom/man/tidy.mfx.Rd | 2 broom-0.7.6/broom/man/tidy.mjoint.Rd | 2 broom-0.7.6/broom/man/tidy.mle2.Rd | 2 broom-0.7.6/broom/man/tidy.mlm.Rd | 2 broom-0.7.6/broom/man/tidy.mlogit.Rd | 2 broom-0.7.6/broom/man/tidy.muhaz.Rd | 2 broom-0.7.6/broom/man/tidy.multinom.Rd | 2 broom-0.7.6/broom/man/tidy.negbin.Rd |only broom-0.7.6/broom/man/tidy.nlrq.Rd | 2 broom-0.7.6/broom/man/tidy.nls.Rd | 2 broom-0.7.6/broom/man/tidy.orcutt.Rd | 2 broom-0.7.6/broom/man/tidy.pairwise.htest.Rd | 2 broom-0.7.6/broom/man/tidy.pam.Rd | 2 broom-0.7.6/broom/man/tidy.plm.Rd | 2 broom-0.7.6/broom/man/tidy.poLCA.Rd | 2 broom-0.7.6/broom/man/tidy.polr.Rd | 2 broom-0.7.6/broom/man/tidy.power.htest.Rd | 2 broom-0.7.6/broom/man/tidy.prcomp.Rd | 2 broom-0.7.6/broom/man/tidy.pyears.Rd | 2 broom-0.7.6/broom/man/tidy.rcorr.Rd | 2 broom-0.7.6/broom/man/tidy.regsubsets.Rd | 2 broom-0.7.6/broom/man/tidy.ridgelm.Rd | 2 broom-0.7.6/broom/man/tidy.rlm.Rd | 2 broom-0.7.6/broom/man/tidy.robustbase.glmrob.Rd | 2 broom-0.7.6/broom/man/tidy.robustbase.lmrob.Rd | 2 broom-0.7.6/broom/man/tidy.roc.Rd | 2 broom-0.7.6/broom/man/tidy.sarlm.Rd | 21 broom-0.7.6/broom/man/tidy.spec.Rd | 2 broom-0.7.6/broom/man/tidy.speedglm.Rd | 2 broom-0.7.6/broom/man/tidy.speedlm.Rd | 2 broom-0.7.6/broom/man/tidy.summary.glht.Rd | 2 broom-0.7.6/broom/man/tidy.summary.lm.Rd | 2 broom-0.7.6/broom/man/tidy.survdiff.Rd | 2 broom-0.7.6/broom/man/tidy.survexp.Rd | 2 broom-0.7.6/broom/man/tidy.survfit.Rd | 2 broom-0.7.6/broom/man/tidy.survreg.Rd | 2 broom-0.7.6/broom/man/tidy.svyglm.Rd | 2 broom-0.7.6/broom/man/tidy.svyolr.Rd | 2 broom-0.7.6/broom/man/tidy.systemfit.Rd | 2 broom-0.7.6/broom/man/tidy.table.Rd | 2 broom-0.7.6/broom/man/tidy.ts.Rd | 2 broom-0.7.6/broom/man/tidy.varest.Rd | 2 broom-0.7.6/broom/man/tidy.zoo.Rd | 2 broom-0.7.6/broom/man/tidy_irlba.Rd | 2 broom-0.7.6/broom/man/tidy_optim.Rd | 2 broom-0.7.6/broom/man/tidy_svd.Rd | 2 broom-0.7.6/broom/man/tidy_xyz.Rd | 2 broom-0.7.6/broom/man/vector_tidiers.Rd | 9 broom-0.7.6/broom/tests/testthat/test-fixest.R | 32 - broom-0.7.6/broom/tests/testthat/test-list-xyz.R | 4 broom-0.7.6/broom/tests/testthat/test-mass-negbin.R |only 236 files changed, 654 insertions(+), 685 deletions(-)
Title: Wrappers for 'GDAL' Utilities Executables
Description: R's 'sf' package ships with self-contained 'GDAL'
executables, including a bare bones interface to several
'GDAL'-related utility programs collectively known as the 'GDAL
utilities'. For each of those utilities, this package provides an
R wrapper whose formal arguments closely mirror those of the
'GDAL' command line interface. The utilities operate on data
stored in files and typically write their output to other
files. Therefore, to process data stored in any of R's more common
spatial formats (i.e. those supported by the 'sp', 'sf', and
'raster' packages), first write them to disk, then process them
with the package's wrapper functions before reading the outputted
results back into R. GDAL function arguments introduced in GDAL
version 3.2.1 or earlier are supported.
Author: Joshua O'Brien
Maintainer: Joshua O'Brien <joshmobrien@gmail.com>
Diff between gdalUtilities versions 1.1.1 dated 2020-07-25 and 1.1.2 dated 2021-04-05
DESCRIPTION | 19 ++--- MD5 | 44 ++++++------ R/gdal_grid.R | 4 - R/gdal_rasterize.R | 12 +-- R/gdal_translate.R | 40 +++++++---- R/gdalbuildvrt.R | 20 +++-- R/gdaldem.R | 6 - R/gdalinfo.R | 14 +-- R/gdalwarp.R | 29 ++++---- R/nearblack.R | 7 - R/ogr2ogr.R | 35 +++++---- R/zzz.R | 181 ++++++++++++++++++++------------------------------ README.md | 8 +- build/partial.rdb |binary man/gdal_grid.Rd | 3 man/gdal_rasterize.Rd | 11 +-- man/gdal_translate.Rd | 21 ++++- man/gdalbuildvrt.Rd | 17 +++- man/gdaldem.Rd | 5 - man/gdalinfo.Rd | 14 ++- man/gdalwarp.Rd | 21 +++-- man/nearblack.Rd | 4 - man/ogr2ogr.Rd | 23 ++++-- 23 files changed, 287 insertions(+), 251 deletions(-)
Title: Simulation of Fossil and Taxonomy Data
Description: Simulating taxonomy and fossil data on phylogenetic trees under mechanistic
models of speciation, preservation and sampling.
Author: Rachel Warnock [aut, cph],
Joelle Barido-Sottani [aut, cre, cph],
Walker Pett [aut, cph],
O'Reilly Joseph [aut, cph]
Maintainer: Joelle Barido-Sottani <joelle.barido-sottani@m4x.org>
Diff between FossilSim versions 2.1.1 dated 2019-02-21 and 2.2.0 dated 2021-04-05
DESCRIPTION | 9 MD5 | 85 +- NAMESPACE | 2 NEWS.md | 13 R/BEAST.output.R | 2 R/conversions.R | 134 ++++ R/plot.fossils.R | 39 - R/sim.fossils.R | 54 + R/utils.R | 15 README.md | 7 build/vignette.rds |binary inst/doc/SAtree.R | 8 inst/doc/SAtree.Rmd | 2 inst/doc/SAtree.html | 323 +++++++--- inst/doc/fossils.R | 38 - inst/doc/fossils.html | 969 ++++++++++++++++++------------ inst/doc/intro.R | 10 inst/doc/intro.Rmd | 6 inst/doc/intro.html | 389 +++++++++--- inst/doc/paleotree.R | 8 inst/doc/paleotree.html | 515 ++++++++++----- inst/doc/simfbd.R | 10 inst/doc/simfbd.html | 321 +++++++-- inst/doc/taxonomy.R | 16 inst/doc/taxonomy.html | 463 ++++++++++---- man/FossilSim.Rd | 1 man/beast.fbd.format.Rd | 2 man/fossils.to.BEAST.constraints.Rd | 12 man/fossils.to.pyrate.Rd | 16 man/plot.fossils.Rd | 47 + man/plot.taxonomy.Rd | 18 man/reconstructed.tree.fossils.objects.Rd |only man/sim.extant.samples.Rd | 3 man/sim.fbd.age.Rd | 13 man/sim.fbd.rateshift.taxa.Rd | 3 man/sim.fossils.environment.Rd | 18 man/sim.fossils.intervals.Rd | 25 man/sim.fossils.poisson.Rd | 24 man/sim.interval.ages.Rd | 14 man/sim.taxonomy.Rd | 3 man/sim.trait.values.Rd | 13 man/summary.taxonomy.Rd | 3 vignettes/SAtree.Rmd | 2 vignettes/intro.Rmd | 6 44 files changed, 2639 insertions(+), 1022 deletions(-)
Title: Propensity to Cycle Tool
Description: Functions and example data to teach and
increase the reproducibility of the methods and code underlying
the Propensity to Cycle Tool (PCT), a research project and web application
hosted at <https://www.pct.bike/>.
For an academic paper on the methods,
see Lovelace et al (2017) <doi:10.5198/jtlu.2016.862>.
Author: Robin Lovelace [aut, cre] (<https://orcid.org/0000-0001-5679-6536>),
Layik Hama [aut] (<https://orcid.org/0000-0003-1912-4890>),
Nathanael Sheehan [ctb] (<https://orcid.org/0000-0002-2779-0976>)
Maintainer: Robin Lovelace <rob00x@gmail.com>
Diff between pct versions 0.7.0 dated 2020-11-27 and 0.8.0 dated 2021-04-05
pct-0.7.0/pct/inst/rmd/pct-slides.html |only pct-0.7.0/pct/inst/rmd/pct-slides_files |only pct-0.8.0/pct/DESCRIPTION | 6 pct-0.8.0/pct/MD5 | 66 pct-0.8.0/pct/NEWS.md | 4 pct-0.8.0/pct/R/desire_lines.R | 23 pct-0.8.0/pct/R/uptake.R | 258 pct-0.8.0/pct/README.md | 131 pct-0.8.0/pct/build/vignette.rds |binary pct-0.8.0/pct/inst/doc/cycling-potential-uk.R | 201 pct-0.8.0/pct/inst/doc/cycling-potential-uk.Rmd | 6 pct-0.8.0/pct/inst/doc/cycling-potential-uk.html | 638 -- pct-0.8.0/pct/inst/doc/km-cycled.R |only pct-0.8.0/pct/inst/doc/km-cycled.Rmd |only pct-0.8.0/pct/inst/doc/km-cycled.html |only pct-0.8.0/pct/inst/doc/pct-international.html | 4251 --------------- pct-0.8.0/pct/inst/doc/pct.Rmd | 2 pct-0.8.0/pct/inst/doc/pct.html | 4197 --------------- pct-0.8.0/pct/inst/doc/pct_training.html | 5059 ------------------- pct-0.8.0/pct/inst/doc/uk-cities.R |only pct-0.8.0/pct/inst/doc/uk-cities.Rmd |only pct-0.8.0/pct/inst/doc/uk-cities.html |only pct-0.8.0/pct/man/figures/README-centroids-1.png |binary pct-0.8.0/pct/man/figures/README-decay-1.png |binary pct-0.8.0/pct/man/figures/README-decayhills-1.png |only pct-0.8.0/pct/man/figures/README-get_pct_lines-1.png |binary pct-0.8.0/pct/man/figures/README-rnetgove-1.png |binary pct-0.8.0/pct/man/figures/README-routes_fast-1.png |binary pct-0.8.0/pct/man/get_od.Rd | 7 pct-0.8.0/pct/vignettes/cycling-potential-uk.Rmd | 6 pct-0.8.0/pct/vignettes/km-cycled.Rmd |only pct-0.8.0/pct/vignettes/pct.Rmd | 2 pct-0.8.0/pct/vignettes/uk-cities.Rmd |only 33 files changed, 602 insertions(+), 14255 deletions(-)
Title: Enhanced 'R Markdown' Format for 'Word' and 'PowerPoint'
Description: Allows production of 'Microsoft' corporate documents from 'R Markdown' by
reusing formatting defined in 'Microsoft Word' documents. You can reuse table styles,
list styles but also add column sections, landscape oriented pages. Table and image
captions as well as cross-references are transformed into 'Microsoft Word' fields,
allowing documents edition and merging without issue with references; the syntax
conforms to the 'bookdown' cross-reference definition. Objects generated by
the 'officer' package are also supported in the 'knitr' chunks.
'Microsoft PowerPoint' presentations also benefit from this as well as the
ability to produce editable vector graphics in 'PowerPoint' and also to
define placeholder where content is to be added.
Author: David Gohel [aut, cre, cph],
Institut für Qualitätssicherung und Transparenz im Gesundheitswesen
[fnd],
Noam Ross [aut] (rmarkdown implementation for rvg),
ArData [cph],
Martin Camitz [ctb]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between officedown versions 0.2.1 dated 2021-02-01 and 0.2.2 dated 2021-04-05
officedown-0.2.1/officedown/man/figures/CR-caption-bookmark.png |only officedown-0.2.1/officedown/man/figures/CR-r-chunk.png |only officedown-0.2.1/officedown/man/figures/CR-reference_hover.png |only officedown-0.2.1/officedown/man/figures/LISTS-example.png |only officedown-0.2.1/officedown/man/figures/LISTS-new_style.png |only officedown-0.2.1/officedown/man/figures/LISTS-word-lists.png |only officedown-0.2.1/officedown/man/figures/OFFICER-example.png |only officedown-0.2.1/officedown/man/figures/OFFICER_caption-scratch-code.png |only officedown-0.2.1/officedown/man/figures/OFFICER_caption-scratch-res.png |only officedown-0.2.1/officedown/man/figures/TABLES-example.png |only officedown-0.2.1/officedown/man/figures/TABLES-new-style.png |only officedown-0.2.1/officedown/man/figures/TABLES-r-chunk.png |only officedown-0.2.2/officedown/DESCRIPTION | 15 + officedown-0.2.2/officedown/MD5 | 32 +--- officedown-0.2.2/officedown/NEWS.md | 16 ++ officedown-0.2.2/officedown/R/hooks.R | 11 + officedown-0.2.2/officedown/R/rdocx_document.R | 77 +++++++++- officedown-0.2.2/officedown/README.md | 16 +- officedown-0.2.2/officedown/inst/examples/bookdown/05-plots.Rmd | 10 - officedown-0.2.2/officedown/inst/examples/bookdown/index.Rmd | 2 officedown-0.2.2/officedown/inst/examples/minimal_word.Rmd | 2 officedown-0.2.2/officedown/man/figures/README-bookdown.png |binary officedown-0.2.2/officedown/man/rdocx_document.Rd | 28 +++ 23 files changed, 158 insertions(+), 51 deletions(-)
Title: Regularized Linear Models
Description: Algorithms compute concave convex (CC) estimators including robust (penalized) generalized linear models and robust support vector machines via the COCO - composite optimization by conjugation operator. The package also contains penalized Poisson, negative binomial, zero-inflated Poisson, zero-inflated negative binomial regression models and robust models with non-convex loss functions. Wang et al. (2014) <doi:10.1002/sim.6314>,
Wang et al. (2015) <doi:10.1002/bimj.201400143>,
Wang et al. (2016) <doi:10.1177/0962280214530608>,
Wang (2019) <arXiv:1912.11119>,
Wang (2020) <arXiv:2010.02848>.
Author: Zhu Wang, with contributions from Achim Zeileis, Simon Jackman, Brian Ripley, and Patrick Breheny
Maintainer: Zhu Wang <wangz1@uthscsa.edu>
Diff between mpath versions 0.4-2.18 dated 2021-02-15 and 0.4-2.19 dated 2021-04-05
DESCRIPTION | 8 +++---- MD5 | 26 +++++++++++------------ NEWS | 4 +++ R/glmreg.R | 43 +++++++++++++++------------------------ R/glmregNB.R | 13 ++++++++--- build/vignette.rds |binary inst/doc/brcancer.pdf |binary inst/doc/kkt.pdf |binary inst/doc/static_brcancer.pdf |binary inst/doc/static_ccglmExample.pdf |binary inst/doc/static_ccsvmExample.pdf |binary inst/doc/static_german.pdf |binary man/glmreg.Rd | 2 - man/glmregNB.Rd | 2 - 14 files changed, 49 insertions(+), 49 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington' and 'Ludwig' approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Th-Pb, K-Ca, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 3.7 dated 2021-03-15 and 3.8 dated 2021-04-05
DESCRIPTION | 8 ++--- MD5 | 44 +++++++++++++++--------------- R/PD.R | 7 ++++ R/PbPb.R | 43 +++++++++++------------------ R/age.R | 2 - R/cad.R | 2 - R/concordia.R | 21 +++++--------- R/isochron.R | 75 +++++++++++++++++++++++++++++++++++++--------------- R/kde.R | 2 - R/radialplot.R | 6 ++-- R/titterington.R | 2 - R/weightedmean.R | 2 - R/york.R | 4 +- data/examples.rda |binary man/age.Rd | 2 - man/cad.Rd | 2 - man/concordia.Rd | 19 ++++--------- man/data2york.Rd | 4 +- man/discfilter.Rd | 18 ++++++------ man/kde.Rd | 2 - man/radialplot.Rd | 2 - man/titterington.Rd | 2 - man/weightedmean.Rd | 2 - 23 files changed, 145 insertions(+), 126 deletions(-)
Title: Spider Biodiversity Tools
Description: Allows the user to connect with the World Spider Catalogue (WSC; <https://wsc.nmbe.ch/>) and the World Spider Trait (WST; <https://spidertraits.sci.muni.cz/>) databases. Also performs several basic functions such as checking names validity, retrieving coordinate data from the Global Biodiversity Information Facility (GBIF; <https://www.gbif.org/>), and mapping.
Author: Pedro Cardoso [aut, cre]
Maintainer: Pedro Cardoso <pedro.cardoso@helsinki.fi>
Diff between spidR versions 0.1.0 dated 2021-03-18 and 1.0.0 dated 2021-04-05
spidR-0.1.0/spidR/man/wsc.data.Rd |only spidR-0.1.0/spidR/man/wsc.names.Rd |only spidR-0.1.0/spidR/man/wst.data.Rd |only spidR-1.0.0/spidR/DESCRIPTION | 11 spidR-1.0.0/spidR/MD5 | 23 - spidR-1.0.0/spidR/NAMESPACE | 11 spidR-1.0.0/spidR/R/spidR.R | 511 +++++++++++++++++++++++++--------- spidR-1.0.0/spidR/man/authors.Rd |only spidR-1.0.0/spidR/man/checknames.Rd |only spidR-1.0.0/spidR/man/distribution.Rd |only spidR-1.0.0/spidR/man/lsid.Rd |only spidR-1.0.0/spidR/man/map.Rd | 22 + spidR-1.0.0/spidR/man/records.Rd | 16 - spidR-1.0.0/spidR/man/species.Rd |only spidR-1.0.0/spidR/man/taxonomy.Rd |only spidR-1.0.0/spidR/man/traits.Rd |only spidR-1.0.0/spidR/man/wsc.Rd |only spidR-1.0.0/spidR/man/wscmap.Rd | 2 18 files changed, 434 insertions(+), 162 deletions(-)
Title: Veras Miscellaneous
Description: Contains a collection of useful
functions for basic data computation and manipulation,
wrapper functions for generating 'ggplot2' graphics,
including statistical model diagnostic plots, methods
for computing statistical models quality measures (such
as AIC, BIC, r squared, root mean squared error) and
general utilities.
Author: Lucas Veras [aut, cre] (<https://orcid.org/0000-0003-0562-5803>)
Maintainer: Lucas Veras <lucasdsveras@gmail.com>
Diff between lvmisc versions 0.1.0 dated 2021-02-22 and 0.1.1 dated 2021-04-05
DESCRIPTION | 7 ++-- MD5 | 44 +++++++++++++++-------------- NAMESPACE | 2 + NEWS.md |only R/abort.R | 19 ++++++++++++ R/clean_observations.R | 3 ++ R/loo_cv.R | 7 ---- R/utils.R | 11 +++++++ README.md | 2 + build/partial.rdb |binary inst/doc/working_with_models.html | 34 ++++++++++++++-------- man/abort_argument.Rd | 3 ++ man/abort_column_not_found.Rd | 1 man/abort_no_method_for_class.Rd | 1 man/abort_package_not_installed.Rd | 1 man/cl.Rd |only tests/figs/bland-altman-plot-cv.svg | 46 +++++++++++++++---------------- tests/figs/deps.txt | 2 - tests/figs/plot-model-m1.svg | 4 +- tests/testthat/test-abort.R | 15 ++++++++++ tests/testthat/test-clean_observations.R | 3 ++ tests/testthat/test-compare_accuracy.R | 10 ++++-- tests/testthat/test-loo_cv.R | 13 ++++++++ tests/testthat/test-vif.R | 4 +- 24 files changed, 156 insertions(+), 76 deletions(-)
Title: Ensemble Algorithms for Time Series Forecasting with Modeltime
Description: A 'modeltime' extension that implements time series ensemble forecasting methods including model averaging,
weighted averaging, and stacking. These techniques are popular methods
to improve forecast accuracy and stability. Refer to papers such as
"Machine-Learning Models for Sales Time Series Forecasting" Pavlyshenko, B.M. (2019) <doi:10.3390>.
Author: Matt Dancho [aut, cre],
Business Science [cph]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between modeltime.ensemble versions 0.3.0 dated 2020-11-06 and 0.4.0 dated 2021-04-05
modeltime.ensemble-0.3.0/modeltime.ensemble/man/figures/README-pressure-1.png |only modeltime.ensemble-0.3.0/modeltime.ensemble/man/figures/logo.png |only modeltime.ensemble-0.3.0/modeltime.ensemble/man/type_sum.mdl_time_ensemble.Rd |only modeltime.ensemble-0.4.0/modeltime.ensemble/DESCRIPTION | 20 modeltime.ensemble-0.4.0/modeltime.ensemble/MD5 | 54 - modeltime.ensemble-0.4.0/modeltime.ensemble/NAMESPACE | 5 modeltime.ensemble-0.4.0/modeltime.ensemble/NEWS.md | 11 modeltime.ensemble-0.4.0/modeltime.ensemble/R/00_global_variables.R | 2 modeltime.ensemble-0.4.0/modeltime.ensemble/R/dev-model_descriptions.R | 39 modeltime.ensemble-0.4.0/modeltime.ensemble/R/ensemble_average.R | 2 modeltime.ensemble-0.4.0/modeltime.ensemble/R/ensemble_model_spec.R | 2 modeltime.ensemble-0.4.0/modeltime.ensemble/R/ensemble_weighted.R | 2 modeltime.ensemble-0.4.0/modeltime.ensemble/R/modeltime_forecast.R | 195 +++ modeltime.ensemble-0.4.0/modeltime.ensemble/R/modeltime_recursive.R |only modeltime.ensemble-0.4.0/modeltime.ensemble/R/modeltime_refit.R | 77 + modeltime.ensemble-0.4.0/modeltime.ensemble/R/tibble-type_sum.R | 9 modeltime.ensemble-0.4.0/modeltime.ensemble/README.md | 105 +- modeltime.ensemble-0.4.0/modeltime.ensemble/build/vignette.rds |binary modeltime.ensemble-0.4.0/modeltime.ensemble/inst/doc/getting-started-with-modeltime-ensemble.Rmd | 43 modeltime.ensemble-0.4.0/modeltime.ensemble/inst/doc/getting-started-with-modeltime-ensemble.html | 506 ++-------- modeltime.ensemble-0.4.0/modeltime.ensemble/inst/doc/recursive-ensembles.R |only modeltime.ensemble-0.4.0/modeltime.ensemble/inst/doc/recursive-ensembles.Rmd |only modeltime.ensemble-0.4.0/modeltime.ensemble/inst/doc/recursive-ensembles.html |only modeltime.ensemble-0.4.0/modeltime.ensemble/man/ensemble_average.Rd | 2 modeltime.ensemble-0.4.0/modeltime.ensemble/man/ensemble_model_spec.Rd | 2 modeltime.ensemble-0.4.0/modeltime.ensemble/man/ensemble_weighted.Rd | 2 modeltime.ensemble-0.4.0/modeltime.ensemble/man/figures/README-unnamed-chunk-6-1.png |binary modeltime.ensemble-0.4.0/modeltime.ensemble/man/figures/logo-modeltime-ensemble.png |only modeltime.ensemble-0.4.0/modeltime.ensemble/man/figures/modeltime_ecosystem.jpg |only modeltime.ensemble-0.4.0/modeltime.ensemble/tests/testthat.R | 3 modeltime.ensemble-0.4.0/modeltime.ensemble/tests/testthat/test-recursive.R |only modeltime.ensemble-0.4.0/modeltime.ensemble/vignettes/getting-started-with-modeltime-ensemble.Rmd | 43 modeltime.ensemble-0.4.0/modeltime.ensemble/vignettes/panel-ensemble.png |only modeltime.ensemble-0.4.0/modeltime.ensemble/vignettes/recursive-ensembles.Rmd |only 34 files changed, 609 insertions(+), 515 deletions(-)
More information about modeltime.ensemble at CRAN
Permanent link
Title: Support for the Multicriteria Decision Aiding Process
Description: Support for the analyst in a Multicriteria Decision Aiding (MCDA) process with algorithms,
preference elicitation and data visualisation functions. Sébastien Bigaret, Richard Hodgett, Patrick Meyer,
Tatyana Mironova, Alexandru Olteanu (2017) Supporting the multi-criteria decision aiding process :
R and the MCDA package, Euro Journal On Decision Processes, Volume 5, Issue 1 - 4,
pages 169 - 194 <doi:10.1007/s40070-017-0064-1>.
Author: Patrick Meyer, Sébastien Bigaret, Richard Hodgett, Alexandru-Liviu Olteanu
Maintainer: Patrick Meyer <patrick.meyer@imt-atlantique.fr>
Diff between MCDA versions 0.0.20 dated 2019-05-29 and 0.0.21 dated 2021-04-05
DESCRIPTION | 8 ++++---- MD5 | 24 +++++++++++++++++++++--- NAMESPACE | 8 +++++++- R/ELECTREIIIDistillation.R |only R/MRSortInterval.R |only R/PROMETHEEI.R |only R/PROMETHEEII.R |only R/PROMETHEEOutrankingFlows.R |only R/PROMETHEEPreferenceIndices.R |only inst/examples/exampleFLOSS.R | 2 +- man/ELECTREIIIDistillation.Rd |only man/MRSortInterval.Rd |only man/PROMETHEEI.Rd |only man/PROMETHEEII.Rd |only man/PROMETHEEOutrankingFlows.Rd |only man/PROMETHEEPreferenceIndices.Rd |only tests/ELECTREIIIDistillation.R |only tests/MRSortInterval.R |only tests/PROMETHEEI.R |only tests/PROMETHEEII.R |only tests/PROMETHEEOutrankingFlows.R |only tests/PROMETHEEPreferenceIndices.R |only 22 files changed, 33 insertions(+), 9 deletions(-)
Title: Indices of Effect Size and Standardized Parameters
Description: Provide utilities to work with indices of effect size and standardized parameters for a wide variety of models (see list of supported models in insight; Lüdecke, Waggoner & Makowski (2019) <doi:10.21105/joss.01412>), allowing computation of and conversion between indices such as Cohen's d, r, odds, etc.
Author: Mattan S. Ben-Shachar [aut, cre]
(<https://orcid.org/0000-0002-4287-4801>),
Dominique Makowski [aut] (<https://orcid.org/0000-0001-5375-9967>),
Daniel Lüdecke [aut] (<https://orcid.org/0000-0002-8895-3206>),
Indrajeet Patil [ctb] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Ken Kelley [ctb],
David Stanley [ctb]
Maintainer: Mattan S. Ben-Shachar <matanshm@post.bgu.ac.il>
Diff between effectsize versions 0.4.4 dated 2021-03-14 and 0.4.4-1 dated 2021-04-05
DESCRIPTION | 18 ++-- MD5 | 78 ++++++++++---------- NAMESPACE | 4 - NEWS.md | 13 +++ R/cohens_d.R | 18 ++-- R/convert_OR_to_RR.R | 1 R/convert_d_to_r.R | 1 R/equivalence_test.R | 1 R/eta_squared.R | 24 +++++- R/interpret_bf.R | 1 R/print.effectsize_table.R | 11 ++ R/rank_effectsizes.R | 89 ++++++++++++---------- R/standardize.models.R | 12 ++- R/standardize_parameters.R | 97 +++++++++++++++++++++---- build/partial.rdb |binary inst/doc/bayesian_models.html | 24 +++--- inst/doc/convert.html | 4 - inst/doc/simple_htests.R | 10 +- inst/doc/simple_htests.Rmd | 16 +--- inst/doc/simple_htests.html | 72 +++++++++--------- inst/doc/standardize_parameters.html | 8 +- man/d_to_r.Rd | 1 man/equivalence_test.effectsize_table.Rd | 1 man/format_standardize.Rd | 5 + man/interpret_bf.Rd | 1 man/oddsratio_to_riskratio.Rd | 1 man/print.effectsize_table.Rd | 5 + man/rank_biserial.Rd | 46 +++++++---- man/standardize_parameters.Rd | 7 + tests/spelling.R | 9 +- tests/testthat/test-es_from_statistic.R | 6 - tests/testthat/test-eta_squared_etc.R | 44 ++++++++++- tests/testthat/test-format_standardize.R | 18 +++- tests/testthat/test-printing.R | 3 tests/testthat/test-rankES.R | 47 +++++++----- tests/testthat/test-standardize-data.R | 12 +-- tests/testthat/test-standardize-models.R | 13 +++ tests/testthat/test-standardize_parameters.R | 86 +++++++++++++++++++--- tests/testthat/test-standardized_differences.R | 1 vignettes/simple_htests.Rmd | 16 +--- 40 files changed, 561 insertions(+), 263 deletions(-)
Title: Helpers for Developing Command Line Interfaces
Description: A suite of tools to build attractive command line interfaces
('CLIs'), from semantic elements: headings, lists, alerts, paragraphs,
etc. Supports custom themes via a 'CSS'-like language. It also contains a
number of lower level 'CLI' elements: rules, boxes, trees, and
'Unicode' symbols with 'ASCII' alternatives. It support ANSI colors and
text styles as well.
Author: Gábor Csárdi [aut, cre],
Hadley Wickham [ctb],
Kirill Müller [ctb],
RStudio [cph]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between cli versions 2.3.1 dated 2021-02-23 and 2.4.0 dated 2021-04-05
cli-2.3.1/cli/tests/testthat/helper-app.R |only cli-2.3.1/cli/tests/testthat/test.R |only cli-2.4.0/cli/DESCRIPTION | 12 cli-2.4.0/cli/MD5 | 153 ++++--- cli-2.4.0/cli/NAMESPACE | 9 cli-2.4.0/cli/NEWS.md | 16 cli-2.4.0/cli/R/aaa-utils.R | 10 cli-2.4.0/cli/R/assertions.R | 24 - cli-2.4.0/cli/R/boxes.R | 8 cli-2.4.0/cli/R/cli.R | 116 ++++- cli-2.4.0/cli/R/cliapp-docs.R | 56 ++ cli-2.4.0/cli/R/cliapp.R | 56 ++ cli-2.4.0/cli/R/containers.R | 19 cli-2.4.0/cli/R/debug.R |only cli-2.4.0/cli/R/format.R | 6 cli-2.4.0/cli/R/internals.R | 23 - cli-2.4.0/cli/R/memo.R |only cli-2.4.0/cli/R/onload.R | 8 cli-2.4.0/cli/R/rules.R | 2 cli-2.4.0/cli/R/spark.R |only cli-2.4.0/cli/R/spinner.R | 6 cli-2.4.0/cli/R/themes.R | 85 +++ cli-2.4.0/cli/R/tree.R | 2 cli-2.4.0/cli/R/utils.R |only cli-2.4.0/cli/man/chunks/FAQ.Rmd | 6 cli-2.4.0/cli/man/cli.Rd |only cli-2.4.0/cli/man/cli_debug_doc.Rd |only cli-2.4.0/cli/man/cli_format.Rd | 4 cli-2.4.0/cli/man/cli_memo.Rd |only cli-2.4.0/cli/man/cli_vec.Rd | 2 cli-2.4.0/cli/man/faq.Rd | 9 cli-2.4.0/cli/man/inline-markup.Rd | 15 cli-2.4.0/cli/man/make_spinner.Rd | 2 cli-2.4.0/cli/man/spark_bar.Rd |only cli-2.4.0/cli/man/spark_line.Rd |only cli-2.4.0/cli/man/themes.Rd | 44 +- cli-2.4.0/cli/tests/testthat.R | 31 - cli-2.4.0/cli/tests/testthat/_snaps/alerts.md |only cli-2.4.0/cli/tests/testthat/_snaps/box-styles.md |only cli-2.4.0/cli/tests/testthat/_snaps/boxes.md |only cli-2.4.0/cli/tests/testthat/_snaps/cat-helpers.md |only cli-2.4.0/cli/tests/testthat/_snaps/code.md |only cli-2.4.0/cli/tests/testthat/_snaps/collapsing.md |only cli-2.4.0/cli/tests/testthat/_snaps/containers.md |only cli-2.4.0/cli/tests/testthat/_snaps/deep-lists.md |only cli-2.4.0/cli/tests/testthat/_snaps/headers.md |only cli-2.4.0/cli/tests/testthat/_snaps/inline-2.md |only cli-2.4.0/cli/tests/testthat/_snaps/inline.md |only cli-2.4.0/cli/tests/testthat/_snaps/lists.md |only cli-2.4.0/cli/tests/testthat/_snaps/memo.md |only cli-2.4.0/cli/tests/testthat/_snaps/meta.md |only cli-2.4.0/cli/tests/testthat/_snaps/non-breaking-space.md |only cli-2.4.0/cli/tests/testthat/_snaps/pluralization.md |only cli-2.4.0/cli/tests/testthat/_snaps/rules.md |only cli-2.4.0/cli/tests/testthat/_snaps/spark.md |only cli-2.4.0/cli/tests/testthat/_snaps/text.md |only cli-2.4.0/cli/tests/testthat/_snaps/themes.md |only cli-2.4.0/cli/tests/testthat/_snaps/tree.md |only cli-2.4.0/cli/tests/testthat/_snaps/utils.md |only cli-2.4.0/cli/tests/testthat/_snaps/verbatim.md |only cli-2.4.0/cli/tests/testthat/helper.R | 150 ++----- cli-2.4.0/cli/tests/testthat/test-alerts.R | 52 +- cli-2.4.0/cli/tests/testthat/test-ansi-combine.R | 56 +- cli-2.4.0/cli/tests/testthat/test-ansi-make.R | 2 cli-2.4.0/cli/tests/testthat/test-ansi.R | 2 cli-2.4.0/cli/tests/testthat/test-assertions.R | 45 +- cli-2.4.0/cli/tests/testthat/test-box-styles.R | 11 cli-2.4.0/cli/tests/testthat/test-boxes.R | 299 ++------------ cli-2.4.0/cli/tests/testthat/test-cat-helpers.R | 88 +--- cli-2.4.0/cli/tests/testthat/test-cat.R | 1 cli-2.4.0/cli/tests/testthat/test-cliapp-output.R | 24 - cli-2.4.0/cli/tests/testthat/test-code.R | 11 cli-2.4.0/cli/tests/testthat/test-collapsing.R | 83 +-- cli-2.4.0/cli/tests/testthat/test-containers.R | 174 ++++---- cli-2.4.0/cli/tests/testthat/test-css.R | 2 cli-2.4.0/cli/tests/testthat/test-custom-handler.R | 2 cli-2.4.0/cli/tests/testthat/test-deep-lists.R |only cli-2.4.0/cli/tests/testthat/test-headers.R | 42 - cli-2.4.0/cli/tests/testthat/test-inline-2.R |only cli-2.4.0/cli/tests/testthat/test-inline.R | 119 +---- cli-2.4.0/cli/tests/testthat/test-lists.R | 263 ++++++------ cli-2.4.0/cli/tests/testthat/test-memo.R |only cli-2.4.0/cli/tests/testthat/test-meta.R |only cli-2.4.0/cli/tests/testthat/test-non-breaking-space.R | 15 cli-2.4.0/cli/tests/testthat/test-pluralization.R | 158 ++----- cli-2.4.0/cli/tests/testthat/test-rules.R | 15 cli-2.4.0/cli/tests/testthat/test-sitrep.R | 2 cli-2.4.0/cli/tests/testthat/test-spark.R |only cli-2.4.0/cli/tests/testthat/test-spinners.R | 2 cli-2.4.0/cli/tests/testthat/test-status-bar.R | 6 cli-2.4.0/cli/tests/testthat/test-subprocess.R | 5 cli-2.4.0/cli/tests/testthat/test-substitution.R | 6 cli-2.4.0/cli/tests/testthat/test-text.R | 35 - cli-2.4.0/cli/tests/testthat/test-themes.R | 54 +- cli-2.4.0/cli/tests/testthat/test-tree.R | 69 --- cli-2.4.0/cli/tests/testthat/test-utils.R | 9 cli-2.4.0/cli/tests/testthat/test-verbatim.R | 27 - 97 files changed, 1235 insertions(+), 1318 deletions(-)
Title: Textile Images
Description: Contains real images of the same textile material
with/without local defects, which were used in
Bui and Apley (2018) <doi:10.1080/00401706.2017.1302362>.
Author: Anh Bui [aut, cre] and Daniel Apley [ths]
Maintainer: Anh Bui <atbui@u.northwestern.edu>
Diff between textile versions 0.1.2 dated 2017-07-08 and 0.1.4 dated 2021-04-05
textile-0.1.2/textile/data/datalist |only textile-0.1.4/textile/DESCRIPTION | 13 +++++++------ textile-0.1.4/textile/MD5 | 6 +++--- textile-0.1.4/textile/inst |only textile-0.1.4/textile/man/textile-package.Rd | 6 +++--- 5 files changed, 13 insertions(+), 12 deletions(-)
Title: Solving Mixed Model Equations in R
Description: Structural multivariate-univariate linear mixed model solver for estimation of multiple random effects and unknown variance-covariance structures (i.e. heterogeneous and unstructured variance models) (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>). REML estimates can be obtained using the Direct-Inversion Newton-Raphson and Direct-Inversion Average Information algorithms. Designed for genomic prediction and genome wide association studies (GWAS), particularly focused in the p > n problem (more coefficients than observations) and dense known covariance structures for levels of random effects. Spatial models can also be fitted using i.e. the two-dimensional spline functionality available in sommer.
Author: Giovanny Covarrubias-Pazaran
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 4.1.2 dated 2021-01-06 and 4.1.3 dated 2021-04-05
CHANGELOG | 8 DESCRIPTION | 8 MD5 | 86 ++-- NAMESPACE | 39 - R/FUN_special.R | 376 +++--------------- R/FUN_stats.R | 47 -- R/FUN_utils.R | 26 - R/FUN_vsgvs.R |only R/mmer.R | 2 R/predict.R | 197 ++++++++- R/vpredict.R |only README.md | 20 build/vignette.rds |binary data/DT_ige.RData |only data/datalist | 1 inst/doc/v2.sommer.changes.and.faqs.R | 4 inst/doc/v2.sommer.changes.and.faqs.Rmd | 4 inst/doc/v3.sommer.qg.R | 47 ++ inst/doc/v3.sommer.qg.Rmd | 77 +++ inst/doc/v3.sommer.qg.pdf |binary inst/doc/v5.sommer.vs.lme4.R | 54 ++ inst/doc/v5.sommer.vs.lme4.Rmd | 72 ++- inst/doc/v5.sommer.vs.lme4.pdf |binary man/A.mat.Rd | 2 man/DT_ige.Rd |only man/DT_mohring.Rd | 140 +++--- man/LD.decay.Rd | 6 man/add.diallel.vars.Rd |only man/fitted.Rd | 2 man/gvs.Rd |only man/mmer.Rd | 27 + man/overlay.Rd | 2 man/predict.Rd | 43 +- man/residuals.Rd | 2 man/sommer-package.Rd | 2 man/summary.Rd | 2 man/vpredict.Rd | 76 ++- man/vs.Rd | 10 src/MNR.cpp | 10 vignettes/v1.sommer.quick.start.html | 20 vignettes/v2.sommer.changes.and.faqs.Rmd | 4 vignettes/v2.sommer.changes.and.faqs.html | 19 vignettes/v3.sommer.qg.Rmd | 77 +++ vignettes/v3.sommer.qg.html | 623 +++++++++++++++++------------- vignettes/v4.sommer.gxe.html | 4 vignettes/v5.sommer.vs.lme4.Rmd | 72 ++- vignettes/v5.sommer.vs.lme4.html | 170 ++++---- 47 files changed, 1399 insertions(+), 982 deletions(-)
Title: Spatial Analysis and Data Mining for Field Ecologists
Description: Set of tools for reading, writing and transforming spatial and seasonal data, model selection and specific statistical tests for ecologists. It includes functions to interpolate regular positions of points between landmarks, to discretize polylines into regular point positions, link distant observations to points, read subsets of big rasters, compute zonal statistics or table of categories from raster within polygons or circular buffers. The package also provides miscellaneous functions for model selection, spatial statistics and inference on diversity indexes, geometries, writing data.frame with Chinese characters, and some other functions for field ecologists.
Author: Patrick Giraudoux [aut, cre],
Jean-Philippe Antonietti [ctb],
Colin Beale [ctb],
Renaud Lancelot [ctb],
David Pleydell [ctb],
Mike Treglia [ctb]
Maintainer: Patrick Giraudoux <patrick.giraudoux@univ-fcomte.fr>
Diff between pgirmess versions 1.6.9 dated 2018-03-12 and 1.7.0 dated 2021-04-05
pgirmess-1.6.9/pgirmess/R/gps2gpx.r |only pgirmess-1.6.9/pgirmess/man/gps2gpx.rd |only pgirmess-1.7.0/pgirmess/DESCRIPTION | 17 +++++++++-------- pgirmess-1.7.0/pgirmess/MD5 | 24 +++++++++++------------- pgirmess-1.7.0/pgirmess/NAMESPACE | 2 +- pgirmess-1.7.0/pgirmess/R/CI.r | 1 + pgirmess-1.7.0/pgirmess/R/distNNeigh.r | 2 +- pgirmess-1.7.0/pgirmess/data/preybiom.rda |binary pgirmess-1.7.0/pgirmess/data/siegelp179.rda |binary pgirmess-1.7.0/pgirmess/man/kruskalmc.Rd | 2 +- pgirmess-1.7.0/pgirmess/man/mergeTrackObs.rd | 2 +- pgirmess-1.7.0/pgirmess/man/trans2pix.rd | 2 +- pgirmess-1.7.0/pgirmess/man/transLines2pix.rd | 2 +- pgirmess-1.7.0/pgirmess/man/write.delim.rd | 4 +++- 14 files changed, 30 insertions(+), 28 deletions(-)
Title: Latin Hypercube Designs (LHDs)
Description: Contains different algorithms and construction methods for efficient Latin hypercube designs (LHDs) with flexible sizes. Our package is comprehensive since it is capable of generating maximin distance LHDs, maximum projection LHDs, and orthogonal and nearly orthogonal LHDs. Detailed comparisons and summary of all the algorithms and construction methods in this package can be found at Hongzhi Wang, Qian Xiao and Abhyuday Mandal (2021) <arXiv:2010.09154>. This package is particularly useful in the area of Design and Analysis of Experiments (DAE). More specifically, design of computer experiments.
Author: Hongzhi Wang, Qian Xiao, Abhyuday Mandal
Maintainer: Hongzhi Wang <hw34508@uga.edu>
Diff between LHD versions 1.3.1 dated 2020-11-18 and 1.3.2 dated 2021-04-05
DESCRIPTION | 9 MD5 | 12 NEWS.md | 6 R/exchange.R | 60 + build/vignette.rds |binary inst/doc/Vignette_for_LHD.html | 1492 +++++++++++++++++------------------------ man/exchange.Rd | 20 7 files changed, 702 insertions(+), 897 deletions(-)
Title: Testing Zero Correlation
Description: Computes the test statistics for examining the significance of autocorrelation in univariate time series, cross-correlation in bivariate time series, Pearson correlations in multivariate series and test statistics for i.i.d. property of univariate series given in Dalla, Giraitis and Phillips (2020), <https://cowles.yale.edu/sites/default/files/files/pub/d21/d2194-r.pdf>.
Author: Violetta Dalla, Liudas Giraitis and Peter C. B. Phillips
Maintainer: Violetta Dalla <vidalla@econ.uoa.gr>
Diff between testcorr versions 0.1.2 dated 2020-02-29 and 0.2.0 dated 2021-04-05
DESCRIPTION | 16 +-- MD5 | 26 ++--- NAMESPACE | 3 NEWS.md |only R/testcorr.R | 34 +++---- build/vignette.rds |binary inst/doc/testcorr.Rnw | 39 ++++---- inst/doc/testcorr.pdf |binary man/ac.test.Rd | 4 man/cc.test.Rd | 4 man/iid.test.Rd | 4 man/rcorr.test.Rd | 4 vignettes/testcorr.Rnw | 39 ++++---- vignettes/testcorr.bib | 202 +++++++++++++++++++++--------------------- vignettes/testcorr_output.pdf |only 15 files changed, 188 insertions(+), 187 deletions(-)
Title: Coefficients of Interrater Reliability – Generalized for
Randomly Incomplete Datasets
Description: Provides coefficients of interrater reliability that are generalized to cope with randomly incomplete (i.e. unbalanced) datasets without any imputation of missing values or any (row-wise or column-wise) omissions of actually available data. Applied to complete (balanced) datasets, these generalizations yield the same results as the common procedures, namely the Intraclass Correlation according to McGraw & Wong (1996) <doi:10.1037/1082-989X.1.1.30> and the Coefficient of Concordance according to Kendall & Babington Smith (1939) <doi:10.1214/aoms/1177732186>.
Author: Markus Brueckl [aut, cre], Florian Heuer [aut, trl]
Maintainer: Markus Brueckl <markus.brueckl@tu-berlin.de>
Diff between irrNA versions 0.2.0 dated 2021-04-03 and 0.2.2 dated 2021-04-05
DESCRIPTION | 12 +++++++----- MD5 | 8 +++++--- NEWS.md |only R/iccNA.R | 8 ++++---- README.md |only man/iccNA.Rd | 12 ++++++------ 6 files changed, 22 insertions(+), 18 deletions(-)
Title: Bayesian Projection of Life Expectancy
Description: Making probabilistic projections of life expectancy for all countries of the world, using a Bayesian hierarchical model <doi:10.1007/s13524-012-0193-x>. Subnational projections are also supported.
Author: Hana Sevcikova, Adrian Raftery, Jennifer Chunn
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between bayesLife versions 4.1-0 dated 2019-10-20 and 5.0-1 dated 2021-04-05
ChangeLog | 8 + DESCRIPTION | 12 +- MD5 | 32 +++--- NAMESPACE | 13 ++ R/get_outputs.R | 150 +++++++++++++++++++++++------ R/project_subnat.R |only R/projection_fcns.R | 61 +++++------ R/run_mcmc.R | 41 +++++-- R/wpp_data.R | 90 +++++++++++++++-- inst/extdata/subnational_e0_template.txt |only man/bayesLife-package.Rd | 19 +-- man/e0.predict.Rd | 4 man/e0.predict.subnat.Rd |only man/get.rege0.prediction.Rd |only man/include.Rd | 2 man/run.e0.mcmc.Rd | 7 - man/summary-mcmc.Rd | 8 - tests/run_tests.R | 2 tests/test_functions.R | 160 +++++++++++++++++++++++++++++-- 19 files changed, 474 insertions(+), 135 deletions(-)
Title: Archive and Unarchive Databases Using Flat Files
Description: Flat text files provide a robust, compressible, and portable
way to store tables from databases. This package provides convenient
functions for exporting tables from relational database connections
into compressed text files and streaming those text files back into
a database without requiring the whole table to fit in working memory.
Author: Carl Boettiger [aut, cre, cph]
(<https://orcid.org/0000-0002-1642-628X>),
Richard FitzJohn [ctb]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between arkdb versions 0.0.11 dated 2021-03-13 and 0.0.12 dated 2021-04-05
DESCRIPTION | 7 +-- MD5 | 10 ++--- NEWS.md | 4 ++ R/local_db.R | 4 +- inst/doc/arkdb.html | 78 ++++++++++++++++++++--------------------- tests/testthat/test-local_db.R | 11 +++++ 6 files changed, 64 insertions(+), 50 deletions(-)
Title: Fake Web Apps for HTTP Testing
Description: Create a web app that makes it easier to test web clients
without using the internet. It includes a web app framework with path
matching, parameters and templates. Can parse various 'HTTP' request
bodies. Can send 'JSON' data or files from the disk. Includes a web app
that implements the <https://httpbin.org> web service.
Author: Gábor Csárdi [aut, cre],
RStudio, Pbc. [cph],
Civetweb contributors [ctb] (see inst/credits/ciwetweb.md),
Redoc contributors [ctb] (see inst/credits/redoc.md),
L. Peter Deutsch [ctb] (src/md5.h),
Martin Purschke [ctb] (src/md5.h),
Aladdin Enterprises [cph] (src/md5.h),
Maëlle Salmon [ctb] (<https://orcid.org/0000-0002-2815-0399>)
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between webfakes versions 1.1.1 dated 2020-12-16 and 1.1.2 dated 2021-04-05
DESCRIPTION | 11 +++++------ MD5 | 12 ++++++------ NEWS.md | 3 +++ R/httpbin.R | 2 +- README.md | 2 +- man/httpbin_app.Rd | 2 +- src/rweb.c | 52 +++++++++++++++++++++++++++++++++++++++++++++++++++- 7 files changed, 68 insertions(+), 16 deletions(-)
Title: Statistical Tools for Filebacked Big Matrices
Description: Easy-to-use, efficient, flexible and scalable statistical tools.
Package bigstatsr provides and uses Filebacked Big Matrices via memory-mapping.
It provides for instance matrix operations, Principal Component Analysis,
sparse linear supervised models, utility functions and more
<doi:10.1093/bioinformatics/bty185>.
Author: Florian Privé [aut, cre],
Michael Blum [ths],
Hugues Aschard [ths]
Maintainer: Florian Privé <florian.prive.21@gmail.com>
Diff between bigstatsr versions 1.5.0 dated 2021-03-29 and 1.5.1 dated 2021-04-05
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/utils-assert.R | 3 ++- build/partial.rdb |binary 4 files changed, 9 insertions(+), 8 deletions(-)
Title: Time Series Forecasting Using Nearest Neighbors
Description: Allows to forecast time series using nearest neighbors regression
Francisco Martinez, Maria P. Frias, Maria D. Perez-Godoy and Antonio J.
Rivera (2017) <doi:10.1007/s10462-017-9593-z>. When the forecasting horizon
is higher than 1, two multi-step ahead forecasting strategies can be used.
The model built is autoregressive, that is, it is only based on the
observations of the time series. The nearest neighbors used in a prediction
can be consulted and plotted.
Author: Francisco Martinez [aut, cre]
Maintainer: Francisco Martinez <fmartin@ujaen.es>
Diff between tsfknn versions 0.4.0 dated 2020-06-04 and 0.5.0 dated 2021-04-05
DESCRIPTION | 9 - MD5 | 38 ++-- NEWS.md | 11 + R/RcppExports.R | 8 R/forecasting.R | 34 +++ R/knn.R | 57 ++++-- R/rolling_origin.R | 3 build/vignette.rds |binary inst/doc/tsfknn.R | 10 + inst/doc/tsfknn.Rmd | 16 + inst/doc/tsfknn.html | 299 +++++++--------------------------- man/knn_forecasting.Rd | 10 - src/RcppExports.cpp | 28 +++ src/code.cpp | 62 ++++++- tests/testthat/test_build_examples.R | 4 tests/testthat/test_knn_forecasting.R | 5 tests/testthat/test_predict.R | 2 tests/testthat/test_regression.R | 37 ++-- tests/testthat/test_rolling_origin.R | 2 vignettes/tsfknn.Rmd | 16 + 20 files changed, 335 insertions(+), 316 deletions(-)
Title: Monotonic Optimal Binning
Description: Generate the monotonic binning and
perform the woe (weight of evidence) transformation for the logistic regression
used in the consumer credit scorecard development. The woe transformation is a piecewise
transformation that is linear to the log odds. For a numeric variable, all of its monotonic
functional transformations will converge to the same woe transformation.
Author: WenSui Liu
Maintainer: WenSui Liu <liuwensui@gmail.com>
Diff between mob versions 0.4 dated 2021-02-17 and 0.4.1 dated 2021-04-05
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- R/cal_woe.R | 14 +++++++------- R/gen_woe2.R |only R/pool_bin.R | 2 +- 5 files changed, 15 insertions(+), 14 deletions(-)
Title: Stepwise Regression Analysis
Description: Stepwise regression analysis for variable selection can be used to get the best candidate final regression model with the forward selection, backward elimination and bidirectional elimination approaches. Best subset selection fit a separate least squares regression for each possible combination of all predictors. Both the above two procedures in this package can use weighted data to get best regression model in univariate regression and multivariate regression analysis(Alsubaihi, A. A., (2002) <doi:10.18637/jss.v007.i12>). And continuous variables nested within class effect is also considered in both two procedures. Also stepwise logistic regression in this package can performed with binary dependent variable(Agresti, A. (1984) <doi:10.1002/9780470594001> and Agresti, A. (2014) <doi:10.1007/978-3-642-04898-2_161>). A widely used selection criteria are available which includes Akaike information criterion(Darlington, R. B. (1968) <doi:10.1037/h0025471>, Judge, G. G. (1985) <doi:10.2307/1391738>), corrected Akaike information criterion(Hurvich, C. M., and Tsai, C. (1989) <doi:10.1093/biomet/76.2.297>), Bayesian information criterion(Sawa, T. (1978) <doi:10.2307/1913828>, Judge, G. G. (1985) <doi:10.2307/1391738>), Mallows Cp statistic(Mallows, C. L. (1973) <doi:10.1080/00401706.1995.10484370>, Hocking, R. R. (1976) <doi:10.2307/2529336>), Hannan and Quinn information criterion(Hannan, E. J. and Quinn, B. G. (1979) <doi:10.1111/j.2517-6161.1979.tb01072.x>, Mcquarrie, A. D. R. and Tsai, C. L. (1998) <doi:10.1142/3573>), corrected Hannan and Quinn information criterion(Mcquarrie, A. D. R. and Tsai, C. L. (1998) <doi:10.1142/3573>), Schwarz criterion(Schwarz, G. (1978) <doi:10.1214/aos/1176344136>, Judge, G. G. (1985) <doi:10.2307/1391738>), adjusted R-square statistic(Darlington, R. B. (1968) <doi:10.1037/h0025471>, Judge, G. G. (1985) <doi:10.2307/1391738>) and significance levels(Mckeon, J. J. (1974) <doi:10.1093/biomet/61.2.381>, Harold Hotelling. (1992) <doi:10.1007/978-1-4612-0919-5_4>, Pillai, K. C. S. (2006) <doi:10.1002/0471667196.ess1965.pub2>), where multicollinearity can be detected with checking tolerance value.
Author: Junhui Li,Xiaohuan Lu,Kun Cheng,Wenxin Liu
Maintainer: Junhui Li <junhuili@cau.edu.cn>
Diff between StepReg versions 1.4.1 dated 2020-03-23 and 1.4.2 dated 2021-04-04
DESCRIPTION | 8 +++--- MD5 | 16 ++++++------- NAMESPACE | 3 +- R/bestsubset.R | 4 +++ R/stepwiselogit.R | 58 ++++++++++++++++++++++++++++--------------------- man/StepReg-package.Rd | 4 +-- man/bestsubset.Rd | 14 +++++------ man/stepwise.Rd | 4 +-- man/stepwiselogit.Rd | 4 +-- 9 files changed, 65 insertions(+), 50 deletions(-)
Title: Data on Base Packages for Current and Previous Versions of R
Description: Provides a dataset of functions in all base packages of R versions 1.0.1 onwards.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between rcheology versions 4.0.4.0 dated 2021-02-16 and 4.0.5.0 dated 2021-04-04
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 4 ++++ README.md | 26 +++++++++++++------------- data/Rversions.rda |binary data/rcheology.rda |binary man/figures/README-unnamed-chunk-5-1.png |binary man/figures/README-unnamed-chunk-6-1.png |binary 8 files changed, 27 insertions(+), 23 deletions(-)
Title: Communicating with AWS EC2 and ECS using AWS REST APIs
Description: Providing the functions for communicating with Amazon Web Services(AWS)
Elastic Compute Cloud(EC2) and Elastic Container Service(ECS).
The functions will have the prefix 'ecs_' or 'ec2_' depending on the class
of the API. The request will be sent via the REST API and the parameters are
given by the function argument. The credentials can be set via 'aws_set_credentials'.
The EC2 documentation can be found at <https://docs.aws.amazon.com/AWSEC2/latest/APIReference/Welcome.html>
and ECS can be found at <https://docs.aws.amazon.com/AmazonECS/latest/APIReference/Welcome.html>.
Author: Jiefei Wang [aut, cre]
Maintainer: Jiefei Wang <szwjf08@gmail.com>
Diff between aws.ecx versions 0.99.0 dated 2021-03-19 and 1.0.4 dated 2021-04-04
DESCRIPTION | 7 MD5 | 1021 - NAMESPACE | 4 NEWS |only R/actions-documentation.R | 12 R/api-generator-utils.R | 19 R/aws-credentials.R | 56 R/aws-rest-APIs.R | 91 R/ec2-actions.R | 6627 +++++----- R/ecs-actions.R | 909 - R/package-settings.R | 124 R/utils.R | 140 README.md | 165 inst/doc/quick-start-guide.Rmd | 165 inst/doc/quick-start-guide.html | 167 inst/quick-start-guide.raw.Rmd | 81 inst/quick-start-guide.raw.knit.md |only inst/quick-start-guide.raw.utf8.md |only man/CommonDoc.Rd | 16 man/credentials.Rd | 20 man/ec2_accept_reserved_instances_exchange_quote.Rd | 18 man/ec2_accept_transit_gateway_multicast_domain_associations.Rd | 22 man/ec2_accept_transit_gateway_peering_attachment.Rd | 20 man/ec2_accept_transit_gateway_vpc_attachment.Rd | 20 man/ec2_accept_vpc_endpoint_connections.Rd | 20 man/ec2_accept_vpc_peering_connection.Rd | 20 man/ec2_advertise_byoip_cidr.Rd | 25 man/ec2_allocate_address.Rd | 28 man/ec2_allocate_hosts.Rd | 30 man/ec2_apply_security_groups_to_client_vpn_target_network.Rd | 22 man/ec2_assign_ipv6_addresses.Rd | 20 man/ec2_assign_private_ip_addresses.Rd | 20 man/ec2_associate_address.Rd | 28 man/ec2_associate_client_vpn_target_network.Rd | 24 man/ec2_associate_dhcp_options.Rd | 22 man/ec2_associate_enclave_certificate_iam_role.Rd | 22 man/ec2_associate_iam_instance_profile.Rd | 20 man/ec2_associate_route_table.Rd | 24 man/ec2_associate_subnet_cidr_block.Rd | 22 man/ec2_associate_transit_gateway_multicast_domain.Rd | 22 man/ec2_associate_transit_gateway_route_table.Rd | 22 man/ec2_associate_vpc_cidr_block.Rd | 28 man/ec2_attach_classic_link_vpc.Rd | 22 man/ec2_attach_internet_gateway.Rd | 22 man/ec2_attach_network_interface.Rd | 22 man/ec2_attach_volume.Rd | 24 man/ec2_attach_vpn_gateway.Rd | 22 man/ec2_authorize_client_vpn_ingress.Rd | 28 man/ec2_authorize_security_group_egress.Rd | 28 man/ec2_authorize_security_group_ingress.Rd | 30 man/ec2_bundle_instance.Rd | 20 man/ec2_cancel_bundle_task.Rd | 20 man/ec2_cancel_capacity_reservation.Rd | 20 man/ec2_cancel_conversion_task.Rd | 22 man/ec2_cancel_export_task.Rd | 24 man/ec2_cancel_import_task.Rd | 22 man/ec2_cancel_reserved_instances_listing.Rd | 20 man/ec2_cancel_spot_fleet_requests.Rd | 18 man/ec2_cancel_spot_instance_requests.Rd | 18 man/ec2_confirm_product_instance.Rd | 22 man/ec2_copy_fpga_image.Rd | 28 man/ec2_copy_image.Rd | 32 man/ec2_copy_snapshot.Rd | 32 man/ec2_create_capacity_reservation.Rd | 36 man/ec2_create_carrier_gateway.Rd | 22 man/ec2_create_client_vpn_endpoint.Rd | 32 man/ec2_create_client_vpn_route.Rd | 28 man/ec2_create_customer_gateway.Rd | 26 man/ec2_create_default_subnet.Rd | 20 man/ec2_create_default_vpc.Rd | 22 man/ec2_create_dhcp_options.Rd | 18 man/ec2_create_egress_only_internet_gateway.Rd | 22 man/ec2_create_fleet.Rd | 28 man/ec2_create_flow_logs.Rd | 34 man/ec2_create_fpga_image.Rd | 24 man/ec2_create_image.Rd | 24 man/ec2_create_instance_export_task.Rd | 24 man/ec2_create_internet_gateway.Rd | 18 man/ec2_create_key_pair.Rd | 20 man/ec2_create_launch_template.Rd | 24 man/ec2_create_launch_template_version.Rd | 28 man/ec2_create_local_gateway_route.Rd | 24 man/ec2_create_local_gateway_route_table_vpc_association.Rd | 22 man/ec2_create_managed_prefix_list.Rd | 24 man/ec2_create_nat_gateway.Rd | 24 man/ec2_create_network_acl.Rd | 20 man/ec2_create_network_acl_entry.Rd | 28 man/ec2_create_network_insights_path.Rd | 30 man/ec2_create_network_interface.Rd | 26 man/ec2_create_network_interface_permission.Rd | 26 man/ec2_create_placement_group.Rd | 22 man/ec2_create_reserved_instances_listing.Rd | 22 man/ec2_create_route.Rd | 46 man/ec2_create_route_table.Rd | 20 man/ec2_create_security_group.Rd | 24 man/ec2_create_snapshot.Rd | 24 man/ec2_create_snapshots.Rd | 24 man/ec2_create_spot_datafeed_subscription.Rd | 22 man/ec2_create_subnet.Rd | 30 man/ec2_create_tags.Rd | 18 man/ec2_create_traffic_mirror_filter.Rd | 22 man/ec2_create_traffic_mirror_filter_rule.Rd | 32 man/ec2_create_traffic_mirror_session.Rd | 28 man/ec2_create_traffic_mirror_target.Rd | 26 man/ec2_create_transit_gateway.Rd | 20 man/ec2_create_transit_gateway_connect.Rd | 20 man/ec2_create_transit_gateway_connect_peer.Rd | 24 man/ec2_create_transit_gateway_multicast_domain.Rd | 20 man/ec2_create_transit_gateway_peering_attachment.Rd | 26 man/ec2_create_transit_gateway_prefix_list_reference.Rd | 24 man/ec2_create_transit_gateway_route.Rd | 24 man/ec2_create_transit_gateway_route_table.Rd | 20 man/ec2_create_transit_gateway_vpc_attachment.Rd | 22 man/ec2_create_volume.Rd | 28 man/ec2_create_vpc.Rd | 28 man/ec2_create_vpc_endpoint.Rd | 28 man/ec2_create_vpc_endpoint_connection_notification.Rd | 26 man/ec2_create_vpc_endpoint_service_configuration.Rd | 22 man/ec2_create_vpc_peering_connection.Rd | 26 man/ec2_create_vpn_connection.Rd | 26 man/ec2_create_vpn_connection_route.Rd | 22 man/ec2_create_vpn_gateway.Rd | 22 man/ec2_delete_carrier_gateway.Rd | 20 man/ec2_delete_client_vpn_endpoint.Rd | 20 man/ec2_delete_client_vpn_route.Rd | 24 man/ec2_delete_customer_gateway.Rd | 20 man/ec2_delete_dhcp_options.Rd | 20 man/ec2_delete_egress_only_internet_gateway.Rd | 20 man/ec2_delete_fleets.Rd | 18 man/ec2_delete_flow_logs.Rd | 18 man/ec2_delete_fpga_image.Rd | 20 man/ec2_delete_internet_gateway.Rd | 20 man/ec2_delete_key_pair.Rd | 22 man/ec2_delete_launch_template.Rd | 22 man/ec2_delete_launch_template_versions.Rd | 22 man/ec2_delete_local_gateway_route.Rd | 22 man/ec2_delete_local_gateway_route_table_vpc_association.Rd | 20 man/ec2_delete_managed_prefix_list.Rd | 20 man/ec2_delete_nat_gateway.Rd | 20 man/ec2_delete_network_acl.Rd | 20 man/ec2_delete_network_acl_entry.Rd | 20 man/ec2_delete_network_insights_analysis.Rd | 20 man/ec2_delete_network_insights_path.Rd | 20 man/ec2_delete_network_interface.Rd | 20 man/ec2_delete_network_interface_permission.Rd | 20 man/ec2_delete_placement_group.Rd | 20 man/ec2_delete_queued_reserved_instances.Rd | 18 man/ec2_delete_route.Rd | 26 man/ec2_delete_route_table.Rd | 20 man/ec2_delete_security_group.Rd | 22 man/ec2_delete_snapshot.Rd | 20 man/ec2_delete_spot_datafeed_subscription.Rd | 18 man/ec2_delete_subnet.Rd | 25 man/ec2_delete_tags.Rd | 18 man/ec2_delete_traffic_mirror_filter.Rd | 20 man/ec2_delete_traffic_mirror_filter_rule.Rd | 20 man/ec2_delete_traffic_mirror_session.Rd | 20 man/ec2_delete_traffic_mirror_target.Rd | 20 man/ec2_delete_transit_gateway.Rd | 20 man/ec2_delete_transit_gateway_connect.Rd | 20 man/ec2_delete_transit_gateway_connect_peer.Rd | 20 man/ec2_delete_transit_gateway_multicast_domain.Rd | 20 man/ec2_delete_transit_gateway_peering_attachment.Rd | 20 man/ec2_delete_transit_gateway_prefix_list_reference.Rd | 22 man/ec2_delete_transit_gateway_route.Rd | 22 man/ec2_delete_transit_gateway_route_table.Rd | 20 man/ec2_delete_transit_gateway_vpc_attachment.Rd | 20 man/ec2_delete_volume.Rd | 25 man/ec2_delete_vpc.Rd | 25 man/ec2_delete_vpc_endpoint_connection_notifications.Rd | 18 man/ec2_delete_vpc_endpoint_service_configurations.Rd | 18 man/ec2_delete_vpc_endpoints.Rd | 18 man/ec2_delete_vpc_peering_connection.Rd | 20 man/ec2_delete_vpn_connection.Rd | 20 man/ec2_delete_vpn_connection_route.Rd | 22 man/ec2_delete_vpn_gateway.Rd | 20 man/ec2_deprovision_byoip_cidr.Rd | 20 man/ec2_deregister_image.Rd | 25 man/ec2_deregister_instance_event_notification_attributes.Rd | 18 man/ec2_deregister_transit_gateway_multicast_group_members.Rd | 22 man/ec2_deregister_transit_gateway_multicast_group_sources.Rd | 22 man/ec2_describe_account_attributes.Rd | 18 man/ec2_describe_addresses.Rd | 18 man/ec2_describe_addresses_attribute.Rd | 22 man/ec2_describe_aggregate_id_format.Rd | 18 man/ec2_describe_availability_zones.Rd | 18 man/ec2_describe_bundle_tasks.Rd | 18 man/ec2_describe_byoip_cidrs.Rd | 20 man/ec2_describe_capacity_reservations.Rd | 20 man/ec2_describe_carrier_gateways.Rd | 20 man/ec2_describe_classic_link_instances.Rd | 20 man/ec2_describe_client_vpn_authorization_rules.Rd | 22 man/ec2_describe_client_vpn_connections.Rd | 22 man/ec2_describe_client_vpn_endpoints.Rd | 20 man/ec2_describe_client_vpn_routes.Rd | 22 man/ec2_describe_client_vpn_target_networks.Rd | 22 man/ec2_describe_coip_pools.Rd | 20 man/ec2_describe_conversion_tasks.Rd | 18 man/ec2_describe_customer_gateways.Rd | 18 man/ec2_describe_dhcp_options.Rd | 20 man/ec2_describe_egress_only_internet_gateways.Rd | 20 man/ec2_describe_elastic_gpus.Rd | 20 man/ec2_describe_export_image_tasks.Rd | 20 man/ec2_describe_export_tasks.Rd | 18 man/ec2_describe_fast_snapshot_restores.Rd | 20 man/ec2_describe_fleet_history.Rd | 26 man/ec2_describe_fleet_instances.Rd | 22 man/ec2_describe_fleets.Rd | 20 man/ec2_describe_flow_logs.Rd | 20 man/ec2_describe_fpga_image_attribute.Rd | 22 man/ec2_describe_fpga_images.Rd | 20 man/ec2_describe_host_reservation_offerings.Rd | 22 man/ec2_describe_host_reservations.Rd | 20 man/ec2_describe_hosts.Rd | 20 man/ec2_describe_iam_instance_profile_associations.Rd | 20 man/ec2_describe_id_format.Rd | 24 man/ec2_describe_identity_id_format.Rd | 22 man/ec2_describe_image_attribute.Rd | 22 man/ec2_describe_images.Rd | 18 man/ec2_describe_import_image_tasks.Rd | 20 man/ec2_describe_import_snapshot_tasks.Rd | 20 man/ec2_describe_instance_attribute.Rd | 22 man/ec2_describe_instance_credit_specifications.Rd | 20 man/ec2_describe_instance_event_notification_attributes.Rd | 18 man/ec2_describe_instance_status.Rd | 20 man/ec2_describe_instance_type_offerings.Rd | 22 man/ec2_describe_instance_types.Rd | 20 man/ec2_describe_instances.Rd | 20 man/ec2_describe_internet_gateways.Rd | 20 man/ec2_describe_ipv6_pools.Rd | 20 man/ec2_describe_key_pairs.Rd | 18 man/ec2_describe_launch_template_versions.Rd | 28 man/ec2_describe_launch_templates.Rd | 20 man/ec2_describe_local_gateway_route_table_virtual_interface_group_associations.Rd | 20 man/ec2_describe_local_gateway_route_table_vpc_associations.Rd | 20 man/ec2_describe_local_gateway_route_tables.Rd | 20 man/ec2_describe_local_gateway_virtual_interface_groups.Rd | 20 man/ec2_describe_local_gateway_virtual_interfaces.Rd | 20 man/ec2_describe_local_gateways.Rd | 20 man/ec2_describe_managed_prefix_lists.Rd | 20 man/ec2_describe_moving_addresses.Rd | 20 man/ec2_describe_nat_gateways.Rd | 20 man/ec2_describe_network_acls.Rd | 20 man/ec2_describe_network_insights_analyses.Rd | 26 man/ec2_describe_network_insights_paths.Rd | 20 man/ec2_describe_network_interface_attribute.Rd | 22 man/ec2_describe_network_interface_permissions.Rd | 20 man/ec2_describe_network_interfaces.Rd | 20 man/ec2_describe_placement_groups.Rd | 18 man/ec2_describe_prefix_lists.Rd | 20 man/ec2_describe_principal_id_format.Rd | 20 man/ec2_describe_public_ipv4_pools.Rd | 20 man/ec2_describe_regions.Rd | 18 man/ec2_describe_reserved_instances.Rd | 22 man/ec2_describe_reserved_instances_listings.Rd | 22 man/ec2_describe_reserved_instances_modifications.Rd | 20 man/ec2_describe_reserved_instances_offerings.Rd | 32 man/ec2_describe_route_tables.Rd | 20 man/ec2_describe_scheduled_instance_availability.Rd | 20 man/ec2_describe_scheduled_instances.Rd | 20 man/ec2_describe_security_group_references.Rd | 18 man/ec2_describe_security_groups.Rd | 20 man/ec2_describe_snapshot_attribute.Rd | 22 man/ec2_describe_snapshots.Rd | 20 man/ec2_describe_spot_datafeed_subscription.Rd | 18 man/ec2_describe_spot_fleet_instances.Rd | 22 man/ec2_describe_spot_fleet_request_history.Rd | 26 man/ec2_describe_spot_fleet_requests.Rd | 20 man/ec2_describe_spot_instance_requests.Rd | 20 man/ec2_describe_spot_price_history.Rd | 26 man/ec2_describe_stale_security_groups.Rd | 22 man/ec2_describe_subnets.Rd | 20 man/ec2_describe_tags.Rd | 20 man/ec2_describe_traffic_mirror_filters.Rd | 20 man/ec2_describe_traffic_mirror_sessions.Rd | 20 man/ec2_describe_traffic_mirror_targets.Rd | 20 man/ec2_describe_transit_gateway_attachments.Rd | 20 man/ec2_describe_transit_gateway_connect_peers.Rd | 20 man/ec2_describe_transit_gateway_connects.Rd | 20 man/ec2_describe_transit_gateway_multicast_domains.Rd | 20 man/ec2_describe_transit_gateway_peering_attachments.Rd | 20 man/ec2_describe_transit_gateway_route_tables.Rd | 20 man/ec2_describe_transit_gateway_vpc_attachments.Rd | 20 man/ec2_describe_transit_gateways.Rd | 20 man/ec2_describe_volume_attribute.Rd | 22 man/ec2_describe_volume_status.Rd | 20 man/ec2_describe_volumes.Rd | 20 man/ec2_describe_volumes_modifications.Rd | 20 man/ec2_describe_vpc_attribute.Rd | 22 man/ec2_describe_vpc_classic_link.Rd | 18 man/ec2_describe_vpc_classic_link_dns_support.Rd | 20 man/ec2_describe_vpc_endpoint_connection_notifications.Rd | 22 man/ec2_describe_vpc_endpoint_connections.Rd | 20 man/ec2_describe_vpc_endpoint_service_configurations.Rd | 20 man/ec2_describe_vpc_endpoint_service_permissions.Rd | 22 man/ec2_describe_vpc_endpoint_services.Rd | 20 man/ec2_describe_vpc_endpoints.Rd | 20 man/ec2_describe_vpc_peering_connections.Rd | 20 man/ec2_describe_vpcs.Rd | 20 man/ec2_describe_vpn_connections.Rd | 18 man/ec2_describe_vpn_gateways.Rd | 18 man/ec2_detach_classic_link_vpc.Rd | 22 man/ec2_detach_internet_gateway.Rd | 22 man/ec2_detach_network_interface.Rd | 20 man/ec2_detach_volume.Rd | 24 man/ec2_detach_vpn_gateway.Rd | 22 man/ec2_disable_ebs_encryption_by_default.Rd | 18 man/ec2_disable_fast_snapshot_restores.Rd | 18 man/ec2_disable_transit_gateway_route_table_propagation.Rd | 22 man/ec2_disable_vgw_route_propagation.Rd | 22 man/ec2_disable_vpc_classic_link.Rd | 20 man/ec2_disable_vpc_classic_link_dns_support.Rd | 20 man/ec2_disassociate_address.Rd | 22 man/ec2_disassociate_client_vpn_target_network.Rd | 22 man/ec2_disassociate_enclave_certificate_iam_role.Rd | 22 man/ec2_disassociate_iam_instance_profile.Rd | 20 man/ec2_disassociate_route_table.Rd | 20 man/ec2_disassociate_subnet_cidr_block.Rd | 20 man/ec2_disassociate_transit_gateway_multicast_domain.Rd | 22 man/ec2_disassociate_transit_gateway_route_table.Rd | 22 man/ec2_disassociate_vpc_cidr_block.Rd | 20 man/ec2_enable_ebs_encryption_by_default.Rd | 18 man/ec2_enable_fast_snapshot_restores.Rd | 18 man/ec2_enable_transit_gateway_route_table_propagation.Rd | 22 man/ec2_enable_vgw_route_propagation.Rd | 22 man/ec2_enable_volume_io.Rd | 25 man/ec2_enable_vpc_classic_link.Rd | 20 man/ec2_enable_vpc_classic_link_dns_support.Rd | 20 man/ec2_export_client_vpn_client_certificate_revocation_list.Rd | 20 man/ec2_export_client_vpn_client_configuration.Rd | 20 man/ec2_export_image.Rd | 28 man/ec2_export_transit_gateway_routes.Rd | 22 man/ec2_get_associated_enclave_certificate_iam_roles.Rd | 20 man/ec2_get_associated_ipv6_pool_cidrs.Rd | 22 man/ec2_get_capacity_reservation_usage.Rd | 22 man/ec2_get_coip_pool_usage.Rd | 22 man/ec2_get_console_output.Rd | 20 man/ec2_get_console_screenshot.Rd | 20 man/ec2_get_default_credit_specification.Rd | 20 man/ec2_get_ebs_default_kms_key_id.Rd | 22 man/ec2_get_ebs_encryption_by_default.Rd | 18 man/ec2_get_groups_for_capacity_reservation.Rd | 22 man/ec2_get_host_reservation_purchase_preview.Rd | 20 man/ec2_get_launch_template_data.Rd | 20 man/ec2_get_managed_prefix_list_associations.Rd | 22 man/ec2_get_managed_prefix_list_entries.Rd | 22 man/ec2_get_password_data.Rd | 20 man/ec2_get_reserved_instances_exchange_quote.Rd | 18 man/ec2_get_transit_gateway_attachment_propagations.Rd | 22 man/ec2_get_transit_gateway_multicast_domain_associations.Rd | 22 man/ec2_get_transit_gateway_prefix_list_references.Rd | 22 man/ec2_get_transit_gateway_route_table_associations.Rd | 22 man/ec2_get_transit_gateway_route_table_propagations.Rd | 22 man/ec2_import_client_vpn_client_certificate_revocation_list.Rd | 22 man/ec2_import_image.Rd | 34 man/ec2_import_instance.Rd | 22 man/ec2_import_key_pair.Rd | 22 man/ec2_import_snapshot.Rd | 26 man/ec2_import_volume.Rd | 22 man/ec2_modify_address_attribute.Rd | 22 man/ec2_modify_availability_zone_group.Rd | 22 man/ec2_modify_capacity_reservation.Rd | 24 man/ec2_modify_client_vpn_endpoint.Rd | 28 man/ec2_modify_default_credit_specification.Rd | 22 man/ec2_modify_ebs_default_kms_key_id.Rd | 20 man/ec2_modify_fleet.Rd | 22 man/ec2_modify_fpga_image_attribute.Rd | 28 man/ec2_modify_hosts.Rd | 26 man/ec2_modify_id_format.Rd | 25 man/ec2_modify_identity_id_format.Rd | 22 man/ec2_modify_image_attribute.Rd | 26 man/ec2_modify_instance_attribute.Rd | 24 man/ec2_modify_instance_capacity_reservation_attributes.Rd | 20 man/ec2_modify_instance_credit_specification.Rd | 20 man/ec2_modify_instance_event_start_time.Rd | 24 man/ec2_modify_instance_metadata_options.Rd | 24 man/ec2_modify_instance_placement.Rd | 30 man/ec2_modify_launch_template.Rd | 26 man/ec2_modify_managed_prefix_list.Rd | 22 man/ec2_modify_network_interface_attribute.Rd | 20 man/ec2_modify_reserved_instances.Rd | 20 man/ec2_modify_snapshot_attribute.Rd | 24 man/ec2_modify_spot_fleet_request.Rd | 22 man/ec2_modify_subnet_attribute.Rd | 22 man/ec2_modify_traffic_mirror_filter_network_services.Rd | 20 man/ec2_modify_traffic_mirror_filter_rule.Rd | 30 man/ec2_modify_traffic_mirror_session.Rd | 26 man/ec2_modify_transit_gateway.Rd | 22 man/ec2_modify_transit_gateway_prefix_list_reference.Rd | 24 man/ec2_modify_transit_gateway_vpc_attachment.Rd | 20 man/ec2_modify_volume.Rd | 22 man/ec2_modify_volume_attribute.Rd | 20 man/ec2_modify_vpc_attribute.Rd | 20 man/ec2_modify_vpc_endpoint.Rd | 22 man/ec2_modify_vpc_endpoint_connection_notification.Rd | 22 man/ec2_modify_vpc_endpoint_service_configuration.Rd | 22 man/ec2_modify_vpc_endpoint_service_permissions.Rd | 20 man/ec2_modify_vpc_peering_connection_options.Rd | 20 man/ec2_modify_vpc_tenancy.Rd | 22 man/ec2_modify_vpn_connection.Rd | 26 man/ec2_modify_vpn_connection_options.Rd | 28 man/ec2_modify_vpn_tunnel_certificate.Rd | 22 man/ec2_modify_vpn_tunnel_options.Rd | 22 man/ec2_monitor_instances.Rd | 18 man/ec2_move_address_to_vpc.Rd | 20 man/ec2_provision_byoip_cidr.Rd | 22 man/ec2_purchase_host_reservation.Rd | 26 man/ec2_purchase_reserved_instances_offering.Rd | 22 man/ec2_purchase_scheduled_instances.Rd | 20 man/ec2_reboot_instances.Rd | 18 man/ec2_register_image.Rd | 36 man/ec2_register_instance_event_notification_attributes.Rd | 18 man/ec2_register_transit_gateway_multicast_group_members.Rd | 22 man/ec2_register_transit_gateway_multicast_group_sources.Rd | 22 man/ec2_reject_transit_gateway_multicast_domain_associations.Rd | 22 man/ec2_reject_transit_gateway_peering_attachment.Rd | 20 man/ec2_reject_transit_gateway_vpc_attachment.Rd | 20 man/ec2_reject_vpc_endpoint_connections.Rd | 20 man/ec2_reject_vpc_peering_connection.Rd | 20 man/ec2_release_address.Rd | 24 man/ec2_release_hosts.Rd | 22 man/ec2_replace_iam_instance_profile_association.Rd | 20 man/ec2_replace_network_acl_association.Rd | 22 man/ec2_replace_network_acl_entry.Rd | 28 man/ec2_replace_route.Rd | 46 man/ec2_replace_route_table_association.Rd | 22 man/ec2_replace_transit_gateway_route.Rd | 24 man/ec2_report_instance_status.Rd | 26 man/ec2_request_spot_fleet.Rd | 18 man/ec2_request_spot_instances.Rd | 34 man/ec2_reset_address_attribute.Rd | 22 man/ec2_reset_ebs_default_kms_key_id.Rd | 18 man/ec2_reset_fpga_image_attribute.Rd | 22 man/ec2_reset_image_attribute.Rd | 22 man/ec2_reset_instance_attribute.Rd | 22 man/ec2_reset_network_interface_attribute.Rd | 22 man/ec2_reset_snapshot_attribute.Rd | 22 man/ec2_restore_address_to_classic.Rd | 20 man/ec2_restore_managed_prefix_list_version.Rd | 20 man/ec2_revoke_client_vpn_ingress.Rd | 24 man/ec2_revoke_security_group_egress.Rd | 28 man/ec2_revoke_security_group_ingress.Rd | 30 man/ec2_run_instances.Rd | 40 man/ec2_run_scheduled_instances.Rd | 22 man/ec2_search_local_gateway_routes.Rd | 22 man/ec2_search_transit_gateway_multicast_groups.Rd | 22 man/ec2_search_transit_gateway_routes.Rd | 20 man/ec2_send_diagnostic_interrupt.Rd | 20 man/ec2_start_instances.Rd | 20 man/ec2_start_network_insights_analysis.Rd | 22 man/ec2_start_vpc_endpoint_service_private_dns_verification.Rd | 20 man/ec2_stop_instances.Rd | 18 man/ec2_terminate_client_vpn_connections.Rd | 24 man/ec2_terminate_instances.Rd | 18 man/ec2_unassign_ipv6_addresses.Rd | 20 man/ec2_unassign_private_ip_addresses.Rd | 20 man/ec2_unmonitor_instances.Rd | 18 man/ec2_update_security_group_rule_descriptions_egress.Rd | 22 man/ec2_update_security_group_rule_descriptions_ingress.Rd | 22 man/ec2_withdraw_byoip_cidr.Rd | 25 man/ecs_create_capacity_provider.Rd | 20 man/ecs_create_cluster.Rd | 20 man/ecs_create_service.Rd | 36 man/ecs_create_task_set.Rd | 32 man/ecs_delete_account_setting.Rd | 22 man/ecs_delete_attributes.Rd | 20 man/ecs_delete_capacity_provider.Rd | 20 man/ecs_delete_cluster.Rd | 24 man/ecs_delete_service.Rd | 22 man/ecs_delete_task_set.Rd | 24 man/ecs_deregister_container_instance.Rd | 22 man/ecs_deregister_task_definition.Rd | 20 man/ecs_describe_capacity_providers.Rd | 20 man/ecs_describe_clusters.Rd | 18 man/ecs_describe_container_instances.Rd | 20 man/ecs_describe_services.Rd | 20 man/ecs_describe_task_definition.Rd | 20 man/ecs_describe_task_sets.Rd | 22 man/ecs_describe_tasks.Rd | 20 man/ecs_discover_poll_endpoint.Rd | 22 man/ecs_list_account_settings.Rd | 28 man/ecs_list_attributes.Rd | 30 man/ecs_list_clusters.Rd | 22 man/ecs_list_container_instances.Rd | 28 man/ecs_list_services.Rd | 28 man/ecs_list_tags_for_resource.Rd | 20 man/ecs_list_task_definition_families.Rd | 26 man/ecs_list_task_definitions.Rd | 28 man/ecs_list_tasks.Rd | 36 man/ecs_put_account_setting.Rd | 24 man/ecs_put_account_setting_default.Rd | 22 man/ecs_put_attributes.Rd | 20 man/ecs_put_cluster_capacity_providers.Rd | 20 man/ecs_register_container_instance.Rd | 26 man/ecs_register_task_definition.Rd | 34 man/ecs_run_task.Rd | 34 man/ecs_start_task.Rd | 30 man/ecs_stop_task.Rd | 24 man/ecs_submit_attachment_state_changes.Rd | 20 man/ecs_submit_container_state_change.Rd | 30 man/ecs_submit_task_state_change.Rd | 32 man/ecs_tag_resource.Rd | 20 man/ecs_untag_resource.Rd | 20 man/ecs_update_capacity_provider.Rd | 20 man/ecs_update_cluster_settings.Rd | 20 man/ecs_update_container_agent.Rd | 22 man/ecs_update_container_instances_state.Rd | 22 man/ecs_update_service.Rd | 26 man/ecs_update_service_primary_task_set.Rd | 24 man/ecs_update_task_set.Rd | 24 tests/testthat/test_ec2.R | 1 tests/testthat/test_ecs.R | 151 vignettes/quick-start-guide.Rmd | 165 513 files changed, 15408 insertions(+), 5419 deletions(-)
Title: The Asymmetric Laplace Distribution
Description: It provides the density, distribution function, quantile function,
random number generator, likelihood function, moments and Maximum Likelihood estimators for a given sample, all this for
the three parameter Asymmetric Laplace Distribution defined
in Koenker and Machado (1999). This is a special case of the skewed family of distributions
available in Galarza et.al. (2017) <doi:10.1002/sta4.140> useful for quantile regression.
Author: Christian E. Galarza <cgalarza88@gmail.com> and Victor H. Lachos <hlachos@ime.unicamp.br>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between ald versions 1.2 dated 2018-02-01 and 1.3.1 dated 2021-04-04
DESCRIPTION | 9 ++++----- MD5 | 4 ++-- man/ALD.Rd | 11 ++++------- 3 files changed, 10 insertions(+), 14 deletions(-)
Title: Create Complex UpSet Plots Using 'ggplot2' Components
Description: UpSet plots are an improvement over Venn Diagram for set overlap visualizations.
Striving to bring the best of the 'UpSetR' and 'ggplot2', this package offers a way to create
complex overlap visualisations, using simple and familiar tools, i.e. geoms of 'ggplot2'.
For introduction to UpSet concept, see Lex et al. (2014) <doi:10.1109/TVCG.2014.2346248>.
Author: Michał Krassowski [aut, cre] (<https://orcid.org/0000-0002-9638-7785>)
Maintainer: Michał Krassowski <krassowski.michal+r@gmail.com>
Diff between ComplexUpset versions 1.1.0 dated 2021-02-26 and 1.2.0 dated 2021-04-04
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Title: Execute and Control System Processes
Description: Tools to run system processes in the background.
It can check if a background process is running; wait on a background
process to finish; get the exit status of finished processes; kill
background processes. It can read the standard output and error of
the processes, using non-blocking connections. 'processx' can poll
a process for standard output or error, with a timeout. It can also
poll several processes at once.
Author: Gábor Csárdi [aut, cre, cph] (<https://orcid.org/0000-0001-7098-9676>),
Winston Chang [aut],
RStudio [cph, fnd],
Mango Solutions [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between processx versions 3.5.0 dated 2021-03-23 and 3.5.1 dated 2021-04-04
DESCRIPTION | 7 +++---- MD5 | 12 ++++++------ NEWS.md | 5 +++-- R/errors.R | 8 +++++++- src/win/thread.c | 4 ---- tests/testthat/test-connections.R | 4 ++++ tests/testthat/test-err.R | 2 +- 7 files changed, 24 insertions(+), 18 deletions(-)
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use
in photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse ratios and
other derived quantities from spectral data. Local maxima and minima: peaks,
valleys and spikes. Conversion between energy-and photon-based units.
Wavelength interpolation. Astronomical calculations related solar angles and
day length. Colours and vision. This package is part of the 'r4photobiology'
suite, Aphalo, P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Titta K. Kotilainen [ctb] (<https://orcid.org/0000-0002-2822-9734>),
Glenn Davis [ctb],
Agnese Fazio [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.10.5 dated 2020-08-27 and 0.10.6 dated 2021-04-04
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Title: Efficient and Flexible Data Preprocessing Tools
Description: Efficiently and flexibly preprocess data using a set of data filtering, deletion, and interpolation tools.
These data preprocessing methods are developed based on the principles of completeness, accuracy, threshold method, and linear interpolation and through the setting of constraint conditions, time completion & recovery, and fast & efficient calculation and grouping.
Key preprocessing steps include deletions of variables and observations, outlier removal, and missing values (NA) interpolation, which are dependent on the incomplete and dispersed degrees of raw data.
They clean data more accurately, keep more samples, and add no outliers after interpolation, compared with ordinary methods.
Auto-identification of consecutive NA via run-length based grouping is used in observation deletion, outlier removal, and NA interpolation;
thus, new outliers are not generated in interpolation. Conditional extremum is proposed to realize point-by-point weighed outlier removal that saves non-outliers from being removed.
Plus, time series interpolation with values to refer to within short periods further ensures reliable interpolation.
These methods are based on and improved from the reference: Liang, C.-S., Wu, H., Li, H.-Y., Zhang, Q., Li, Z. & He, K.-B. (2020) <doi:10.1016/j.scitotenv.2020.140923>.
Author: Chun-Sheng Liang <liangchunsheng@lzu.edu.cn>, Hao Wu, Hai-Yan Li, Qiang Zhang, Zhanqing Li, Ke-Bin He, Lanzhou University, Tsinghua University
Maintainer: Chun-Sheng Liang <liangchunsheng@lzu.edu.cn>
Diff between dataprep versions 0.1.0 dated 2021-01-11 and 0.1.1 dated 2021-04-04
DESCRIPTION | 16 - MD5 | 40 ++-- NAMESPACE | 2 R/function.R | 134 ++++++++++----- build/vignette.rds |binary inst/doc/vignettes.html | 424 +++++++++++++----------------------------------- man/condextr.Rd | 16 + man/data.Rd | 2 man/data1.Rd | 4 man/dataprep.Rd | 16 + man/descdata.Rd | 4 man/descplot.Rd | 4 man/melt.Rd | 4 man/obsedele.Rd | 18 -- man/optisolu.Rd | 8 man/percdata.Rd | 4 man/percoutl.Rd | 12 + man/percplot.Rd | 4 man/shorvalu.Rd | 4 man/varidele.Rd | 4 man/zerona.Rd | 2 21 files changed, 301 insertions(+), 421 deletions(-)
Title: Create Simple Yet Powerful HTML Documents with Light Weight CSS
Frameworks
Description: Create minimal, responsive, and style-agnostic HTML documents with
the lightweight CSS frameworks such as 'sakura', 'Water.css', and 'spcss'.
Powerful features include table of contents floating as a sidebar,
folding codes and results, and more.
Author: Atsushi Yasumoto [aut, cph, cre]
(<https://orcid.org/0000-0002-8335-495X>),
Angelos Chalaris [aut] (mini.css),
Susam Pal [aut] (spcss),
Mitesh Shah [aut] (sakura),
Kognise [aut] (Water.css)
Maintainer: Atsushi Yasumoto <atusy.rpkg@gmail.com>
Diff between minidown versions 0.0.3 dated 2021-01-06 and 0.1.0 dated 2021-04-04
minidown-0.0.3/minidown/inst/rmarkdown/templates/mini_document/resources |only minidown-0.1.0/minidown/DESCRIPTION | 32 ++--- minidown-0.1.0/minidown/MD5 | 62 +++++----- minidown-0.1.0/minidown/NEWS.md | 33 +++++ minidown-0.1.0/minidown/R/frameworks.R | 54 ++++++-- minidown-0.1.0/minidown/R/hook-results-folding.R | 29 +++- minidown-0.1.0/minidown/R/mini-document.R | 24 +++ minidown-0.1.0/minidown/R/path.R | 2 minidown-0.1.0/minidown/R/spec-dependencies.R | 44 +++++-- minidown-0.1.0/minidown/R/spec-includes.R | 2 minidown-0.1.0/minidown/R/spec-post-processor.R |only minidown-0.1.0/minidown/R/spec-pre-processor.R | 3 minidown-0.1.0/minidown/R/spec-template.R | 2 minidown-0.1.0/minidown/build |only minidown-0.1.0/minidown/inst/WORDLIST | 10 + minidown-0.1.0/minidown/inst/doc |only minidown-0.1.0/minidown/inst/frameworks/spcss |only minidown-0.1.0/minidown/inst/rmarkdown/html |only minidown-0.1.0/minidown/inst/rmarkdown/lua |only minidown-0.1.0/minidown/inst/rmarkdown/templates/mini_document/default.html |only minidown-0.1.0/minidown/inst/rmarkdown/templates/mini_document/skeleton |only minidown-0.1.0/minidown/inst/rmarkdown/templates/mini_document/template.yaml |only minidown-0.1.0/minidown/man/mini_document.Rd | 16 ++ minidown-0.1.0/minidown/tests/testthat/test-frameworks.R | 8 + minidown-0.1.0/minidown/tests/testthat/test-mini-document.R |only minidown-0.1.0/minidown/vignettes |only 26 files changed, 238 insertions(+), 83 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-26 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-20 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-12 0.1.13
2020-09-11 0.1.12
2020-08-26 0.1.11
2020-06-28 0.1.10
2020-05-30 0.1.9
2020-04-08 0.1.8
2020-02-28 0.1.7
2019-11-08 0.1.6
2019-07-18 0.1.4
2019-07-18 0.1.5
2019-06-18 0.1.2
2019-04-06 0.1.1
Title: A Matrix-Free Multigrid Preconditioner for Spline Smoothing
Description: Data smoothing with penalized splines is a popular method and is well established for one- or two-dimensional covariates. The extension to multiple covariates is straightforward but suffers from exponentially increasing memory requirements and computational complexity. This toolbox provides a matrix-free implementation of a conjugate gradient (CG) method for the regularized least squares problem resulting from tensor product B-spline smoothing with multivariate and scattered data. It further provides matrix-free preconditioned versions of the CG-algorithm where the user can choose between a simpler diagonal preconditioner and an advanced geometric multigrid preconditioner. The main advantage is that all algorithms are performed matrix-free and therefore require only a small amount of memory. For further detail see Siebenborn & Wagner (2019) <arXiv:1901.00654>.
Author: Martin Siebenborn [aut, cre, cph],
Julian Wagner [aut, cph]
Maintainer: Martin Siebenborn <martin.siebenborn@uni-hamburg.de>
Diff between mgss versions 1.0 dated 2021-01-08 and 1.1 dated 2021-04-04
DESCRIPTION | 9 MD5 | 16 NAMESPACE | 4 R/mgss_main.R | 945 +++++++++++++++++++++++---------------------- R/multigrid_functions.R | 23 - R/test_data_functions.R | 76 +-- demo/mgss_demo.R | 114 ++--- man/MGCG_smooth.Rd | 7 tests/testthat/test_mgss.R | 4 9 files changed, 614 insertions(+), 584 deletions(-)
Title: Power Analyses for Common Designs (Power to the People)
Description: Statistical power analysis for designs including t-tests, correlations,
multiple regression, ANOVA, mediation, and logistic regression. Functions accompany
Aberson (2019) <doi:10.4324/9781315171500>.
Author: Chris Aberson
Maintainer: Chris Aberson <cla18@humboldt.edu>
Diff between pwr2ppl versions 0.1.2 dated 2020-08-13 and 0.2.0 dated 2021-04-04
DESCRIPTION | 7 +-- MD5 | 31 ++++++++++----- NAMESPACE | 6 ++ R/MRC_shortcuts.R | 2 R/anc.R | 100 +++++++++++++++++-------------------------------- R/med.R | 6 -- R/medjs.R | 28 ++++++------- R/medjs_paths.R |only R/medserial.R | 14 +++--- R/medserial_paths.R |only R/modmed14.R |only R/modmed15.R |only R/modmed7.R |only R/modmed8.R |only README.md |only man/medjs.Rd | 13 ++---- man/medjs_paths.Rd |only man/medserial.Rd | 10 ++-- man/medserial_paths.Rd |only man/modmed14.Rd |only man/modmed15.Rd |only man/modmed7.Rd |only man/modmed8.Rd |only 23 files changed, 99 insertions(+), 118 deletions(-)
Title: Miscellaneous Extensions to 'ggplot2'
Description: Extensions to 'ggplot2' respecting the grammar of graphics
paradigm. Specialization of method ggplot(): accept and convert on the fly
time series data. Geom: "table", "plot" and "grob" add insets to plots
using native data coordinates, while "table_npc", "plot_npc" and "grob_npc"
do the same using "npc" coordinates through new aesthetics "npcx" and "npcy".
Statistics: locate and tag peaks and valleys; count observations in different
quadrants of a plot; select observations based on 2D density; label with the
equation of a polynomial fitted with lm() or other types of models; labels
with P-value, R^2 or adjusted R^2 or information criteria for fitted models;
label with ANOVA table for fitted models; label with summary for fitted
models. Model fit classes for which suitable methods are provided by package
'broom' are supported. Scales and stats to build volcano and quadrant plots
based on outcomes, fold changes, p-values and false discovery rates.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Kamil Slowikowski [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between ggpmisc versions 0.3.8-1 dated 2021-01-27 and 0.3.9 dated 2021-04-04
DESCRIPTION | 8 MD5 | 69 +- NAMESPACE | 10 NEWS.md | 19 R/geom-grob.R | 28 - R/geom-label-npc.r | 16 R/geom-linked-text.r |only R/geom-margin-arrow.r | 29 - R/geom-plot.R | 55 + R/geom-text-npc.r | 9 R/position-nudge-center.R |only R/position-nudge-line.R |only R/position-nudge-to.R |only R/stat-peaks.R | 99 ++- R/stat-poly-eq.R | 75 +- R/stat-quadrant-counts.R | 11 R/utilities.R |only README.md | 23 build/vignette.rds |binary inst/doc/grammar-extensions.R | 460 +++++++++++----- inst/doc/grammar-extensions.Rmd | 489 +++++++++++++++-- inst/doc/grammar-extensions.html | 860 ++++++++++++++++++------------- inst/doc/model-based-annotations.R | 265 ++++----- inst/doc/model-based-annotations.Rmd | 42 - inst/doc/model-based-annotations.html | 39 - man/figures/README-readme-05-1.png |binary man/figures/README-unnamed-chunk-1-1.png |binary man/find_peaks.Rd | 7 man/geom_linked_text.Rd |only man/geom_plot.Rd | 21 man/geom_text_npc.Rd | 4 man/ggpmisc-ggproto.Rd | 18 man/position_nudge_center.Rd |only man/position_nudge_line.Rd |only man/position_nudge_to.Rd |only man/stat_peaks.Rd | 4 man/stat_poly_eq.Rd | 7 man/stat_quadrant_counts.Rd | 11 vignettes/grammar-extensions.Rmd | 489 +++++++++++++++-- vignettes/model-based-annotations.Rmd | 42 - 40 files changed, 2225 insertions(+), 984 deletions(-)
Title: A Comprehensive R Package for Best Subset Selection
Description: The bestridge package is designed to provide a one-stand service for users to successfully carry out best ridge regression in various complex situations via the primal dual active set algorithm proposed by Wen, C., Zhang, A., Quan, S. and Wang, X. (2020) <doi:10.18637/jss.v094.i04>. This package allows users to perform the regression, classification, count regression and censored regression for (ultra) high dimensional data, and it also supports advanced usages like group variable selection and nuisance variable selection.
Author: Liyuan Hu [aut, cre] (<https://orcid.org/0000-0003-2064-8990>),
Jin Zhu [aut] (<https://orcid.org/0000-0001-8550-5822>),
Junxian Zhu [aut],
Kangkang Jiang [aut],
Yanhang Zhang [aut],
Xueqin Wang [aut] (<https://orcid.org/0000-0001-5205-9950>),
Canhong Wen [aut]
Maintainer: Liyuan Hu <huly5@mail2.sysu.edu.cn>
Diff between bestridge versions 1.0.4 dated 2021-03-05 and 1.0.5 dated 2021-04-04
DESCRIPTION | 8 ++++-- MD5 | 16 ++++++------- NEWS.md | 5 ++++ R/bsrr.R | 35 ++++++++++++++++++++++------- R/package.R | 2 - R/plot.bsrr.R | 5 ++-- inst/doc/An-introduction-to-bestridge.html | 2 - man/bestridge-package.Rd | 6 ++-- man/bsrr.Rd | 2 - 9 files changed, 54 insertions(+), 27 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-20 0.2.1
2021-03-08 0.2.0
2021-01-05 0.1.1
2020-11-11 0.1.0
Title: Bayesian Set of Best Dynamic Treatment Regimes and Sample Size
in SMARTs
Description: Permits determination of a set of
optimal dynamic treatment regimes and sample size for a SMART design
in the Bayesian setting. Please see Artman (2020) <arXiv:2008.02341>.
Author: William Artman [aut, cre]
Maintainer: William Artman <William_Artman@URMC.Rochester.edu>
Diff between SMARTbayesR versions 1.0.1 dated 2020-11-09 and 1.0.2 dated 2021-04-03
DESCRIPTION | 6 - MD5 | 8 - R/internal.R | 8 - build/vignette.rds |binary inst/doc/SMARTBayesR.html | 266 ++++++++-------------------------------------- 5 files changed, 59 insertions(+), 229 deletions(-)
Title: Calculation of Accumulated Cost Surface and Least-Cost Paths
Related to Human Movement Across the Landscape
Description: Provides the facility to calculate non-isotropic accumulated cost surface and least-cost paths using a number of human-movement-related cost functions that can be selected by the user. It just requires a Digital Terrain Model, a start location and (optionally) destination locations. See Alberti (2019) <doi:10.1016/j.softx.2019.100331>.
Author: Gianmarco Alberti [aut, cre]
Maintainer: Gianmarco Alberti <gianmarcoalberti@gmail.com>
Diff between movecost versions 0.5 dated 2020-06-05 and 0.6 dated 2021-04-03
DESCRIPTION | 14 ++-- MD5 | 21 ++++-- NAMESPACE | 2 NEWS.md | 5 + R/Etna_boundary.r |only R/Etna_end_location.r |only R/Etna_start_location.r |only R/movecost.R | 81 ++++++++++++++++++----- README.md | 148 +------------------------------------------ data/Etna_boundary.rda |only data/Etna_end_location.rda |only data/Etna_start_location.rda |only man/Etna_boundary.Rd |only man/Etna_end_location.Rd |only man/Etna_start_location.Rd |only man/movecost.Rd | 63 +++++++++++++----- 16 files changed, 143 insertions(+), 191 deletions(-)
Title: FITS (Flexible Image Transport System) Utilities
Description: Utilities to read and write files in the FITS (Flexible
Image Transport System) format, a standard format in astronomy (see
e.g. <https://en.wikipedia.org/wiki/FITS> for more information).
Present low-level routines allow: reading, parsing, and modifying
FITS headers; reading FITS images (multi-dimensional arrays);
reading FITS binary and ASCII tables; and writing FITS images
(multi-dimensional arrays). Higher-level functions allow: reading
files composed of one or more headers and a single (perhaps
multidimensional) image or single table; reading tables into
data frames; generating vectors for image array axes; scaling and
writing images as 16-bit integers. Known incompletenesses are
reading random group extensions, as well as
complex and array descriptor data types in binary tables.
Author: Andrew Harris
Maintainer: Andrew Harris <harris@astro.umd.edu>
Diff between FITSio versions 2.1-5 dated 2021-03-23 and 2.1-6 dated 2021-04-03
ChangeLog | 8 ++++++++ DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- man/FITSio-package.Rd | 15 ++++++++++----- man/axVec.Rd | 3 +++ man/readFITS.Rd | 24 ++++++++++++++---------- man/readFITSheader.Rd | 4 ++++ man/readFrameFromFITS.Rd | 4 +++- man/writeFITSim.Rd | 3 +++ 9 files changed, 58 insertions(+), 29 deletions(-)
Title: Summarize and Explore the Data
Description: Exploratory analysis on any input data describing the structure and the relationships present in the data. The package automatically select the variable and does related descriptive statistics. Analyzing information value, weight of evidence, custom tables, summary statistics, graphical techniques will be performed for both numeric and categorical predictors.
Author: Dayanand Ubrangala [aut, cre],
Kiran R [aut, ctb],
Ravi Prasad Kondapalli [aut, ctb],
Sayan Putatunda [aut, ctb]
Maintainer: Dayanand Ubrangala <daya6489@gmail.com>
Diff between SmartEDA versions 0.3.6 dated 2020-07-10 and 0.3.7 dated 2021-04-03
DESCRIPTION | 14 MD5 | 47 NAMESPACE | 4 NEWS.md | 7 R/fn_Overview_data.R | 40 R/fn_custom_tab.R | 2 R/fn_exp_ExpCompViz.R |only R/fn_exp_categorical.R | 4 R/utilis.R | 212 +++ README.md | 23 build/vignette.rds |binary inst/doc/CustomTable.R | 2 inst/doc/CustomTable.html | 457 ++----- inst/doc/SmartEDA.R | 101 + inst/doc/SmartEDA.Rmd | 40 inst/doc/SmartEDA.html | 2327 +++++++++++++++---------------------- inst/doc/SmartTwoPlots.R |only inst/doc/SmartTwoPlots.Rmd |only inst/doc/SmartTwoPlots.html |only inst/rmd_template/report_tmp.Rmd | 2 inst/rmd_template/report_tmp_1.Rmd | 2 inst/rmd_template/report_tmp_2.Rmd | 3 man/ExpData.Rd | 10 man/ExpTwoPlots.Rd |only tests/testthat/Rplots.pdf |binary tests/testthat/test_exptwoplots.R |only vignettes/SmartEDA.Rmd | 40 vignettes/SmartTwoPlots.Rmd |only 28 files changed, 1546 insertions(+), 1791 deletions(-)
Title: Build and Raytrace 3D Scenes
Description: Render scenes using pathtracing. Build 3D scenes out of spheres, cubes, planes, disks, triangles, cones, curves, line segments, cylinders, ellipsoids, and 3D models in the 'Wavefront' OBJ file format or the PLY Polygon File Format. Supports several material types, textures, multicore rendering, and tone-mapping. Based on the "Ray Tracing in One Weekend" book series. Peter Shirley (2018) <https://raytracing.github.io>.
Author: Tyler Morgan-Wall [aut, cph, cre]
(<https://orcid.org/0000-0002-3131-3814>),
Syoyo Fujita [ctb, cph],
Melissa O'Neill [ctb, cph],
Vilya Harvey [ctb, cph]
Maintainer: Tyler Morgan-Wall <tylermw@gmail.com>
Diff between rayrender versions 0.14.0 dated 2020-08-02 and 0.21.1 dated 2021-04-03
rayrender-0.14.0/rayrender/src/xyrect.h |only rayrender-0.21.1/rayrender/DESCRIPTION | 26 rayrender-0.21.1/rayrender/MD5 | 197 + rayrender-0.21.1/rayrender/NAMESPACE | 29 rayrender-0.21.1/rayrender/R/RcppExports.R | 12 rayrender-0.21.1/rayrender/R/csg_construct.R |only rayrender-0.21.1/rayrender/R/generate_camera_motion.R |only rayrender-0.21.1/rayrender/R/generate_studio.R | 4 rayrender-0.21.1/rayrender/R/materials.R | 220 +- rayrender-0.21.1/rayrender/R/objects.R | 766 ++++++- rayrender-0.21.1/rayrender/R/pig.R | 82 rayrender-0.21.1/rayrender/R/post_process_frame.R |only rayrender-0.21.1/rayrender/R/render_animation.R |only rayrender-0.21.1/rayrender/R/render_preview.R |only rayrender-0.21.1/rayrender/R/render_scene.R | 217 +- rayrender-0.21.1/rayrender/R/util-functions.R |only rayrender-0.21.1/rayrender/inst/COPYRIGHTS | 6 rayrender-0.21.1/rayrender/man/arrow.Rd | 2 rayrender-0.21.1/rayrender/man/bezier_curve.Rd |only rayrender-0.21.1/rayrender/man/calculate_control_points.Rd |only rayrender-0.21.1/rayrender/man/calculate_control_points_straight.Rd |only rayrender-0.21.1/rayrender/man/calculate_distance_along_bezier_curve.Rd |only rayrender-0.21.1/rayrender/man/calculate_final_path.Rd |only rayrender-0.21.1/rayrender/man/clamp.Rd |only rayrender-0.21.1/rayrender/man/cross_prod.Rd |only rayrender-0.21.1/rayrender/man/csg_box.Rd |only rayrender-0.21.1/rayrender/man/csg_capsule.Rd |only rayrender-0.21.1/rayrender/man/csg_combine.Rd |only rayrender-0.21.1/rayrender/man/csg_cone.Rd |only rayrender-0.21.1/rayrender/man/csg_cylinder.Rd |only rayrender-0.21.1/rayrender/man/csg_ellipsoid.Rd |only rayrender-0.21.1/rayrender/man/csg_elongate.Rd |only rayrender-0.21.1/rayrender/man/csg_group.Rd |only rayrender-0.21.1/rayrender/man/csg_object.Rd |only rayrender-0.21.1/rayrender/man/csg_onion.Rd |only rayrender-0.21.1/rayrender/man/csg_plane.Rd |only rayrender-0.21.1/rayrender/man/csg_pyramid.Rd |only rayrender-0.21.1/rayrender/man/csg_rotate.Rd |only rayrender-0.21.1/rayrender/man/csg_round.Rd |only rayrender-0.21.1/rayrender/man/csg_rounded_cone.Rd |only rayrender-0.21.1/rayrender/man/csg_scale.Rd |only rayrender-0.21.1/rayrender/man/csg_sphere.Rd |only rayrender-0.21.1/rayrender/man/csg_torus.Rd |only rayrender-0.21.1/rayrender/man/csg_translate.Rd |only rayrender-0.21.1/rayrender/man/csg_triangle.Rd |only rayrender-0.21.1/rayrender/man/cube.Rd | 4 rayrender-0.21.1/rayrender/man/cubicInOut.Rd |only rayrender-0.21.1/rayrender/man/dielectric.Rd | 2 rayrender-0.21.1/rayrender/man/eval_bezier.Rd |only rayrender-0.21.1/rayrender/man/eval_bezier_2nd_deriv.Rd |only rayrender-0.21.1/rayrender/man/eval_bezier_deriv.Rd |only rayrender-0.21.1/rayrender/man/expInOut.Rd |only rayrender-0.21.1/rayrender/man/generate_camera_motion.Rd |only rayrender-0.21.1/rayrender/man/generate_studio.Rd | 4 rayrender-0.21.1/rayrender/man/hair.Rd |only rayrender-0.21.1/rayrender/man/lerp.Rd |only rayrender-0.21.1/rayrender/man/light.Rd | 58 rayrender-0.21.1/rayrender/man/mesh3d_model.Rd |only rayrender-0.21.1/rayrender/man/path.Rd |only rayrender-0.21.1/rayrender/man/pig.Rd | 19 rayrender-0.21.1/rayrender/man/ply_model.Rd |only rayrender-0.21.1/rayrender/man/post_process_frame.Rd |only rayrender-0.21.1/rayrender/man/process_point_series.Rd |only rayrender-0.21.1/rayrender/man/process_point_series_1d.Rd |only rayrender-0.21.1/rayrender/man/process_point_series_2d.Rd |only rayrender-0.21.1/rayrender/man/quadInOut.Rd |only rayrender-0.21.1/rayrender/man/render_animation.Rd |only rayrender-0.21.1/rayrender/man/render_preview.Rd |only rayrender-0.21.1/rayrender/man/render_scene.Rd | 52 rayrender-0.21.1/rayrender/man/sphere.Rd | 10 rayrender-0.21.1/rayrender/man/text3d.Rd |only rayrender-0.21.1/rayrender/man/tween.Rd |only rayrender-0.21.1/rayrender/src/RcppExports.cpp | 100 rayrender-0.21.1/rayrender/src/aabb.cpp |only rayrender-0.21.1/rayrender/src/aabb.h | 68 rayrender-0.21.1/rayrender/src/box.cpp |only rayrender-0.21.1/rayrender/src/box.h | 41 rayrender-0.21.1/rayrender/src/buildscene.cpp |only rayrender-0.21.1/rayrender/src/buildscene.h | 1069 ---------- rayrender-0.21.1/rayrender/src/bvh_node.cpp |only rayrender-0.21.1/rayrender/src/bvh_node.h | 150 - rayrender-0.21.1/rayrender/src/camera.cpp |only rayrender-0.21.1/rayrender/src/camera.h | 58 rayrender-0.21.1/rayrender/src/color.cpp |only rayrender-0.21.1/rayrender/src/color.h |only rayrender-0.21.1/rayrender/src/cone.cpp |only rayrender-0.21.1/rayrender/src/cone.h | 228 -- rayrender-0.21.1/rayrender/src/constant.cpp |only rayrender-0.21.1/rayrender/src/constant.h | 56 rayrender-0.21.1/rayrender/src/csg.cpp |only rayrender-0.21.1/rayrender/src/csg.h |only rayrender-0.21.1/rayrender/src/curve.cpp |only rayrender-0.21.1/rayrender/src/curve.h |only rayrender-0.21.1/rayrender/src/cylinder.cpp |only rayrender-0.21.1/rayrender/src/cylinder.h | 255 -- rayrender-0.21.1/rayrender/src/debug.cpp |only rayrender-0.21.1/rayrender/src/debug.h |only rayrender-0.21.1/rayrender/src/disk.cpp |only rayrender-0.21.1/rayrender/src/disk.h | 109 - rayrender-0.21.1/rayrender/src/distributions.cpp |only rayrender-0.21.1/rayrender/src/distributions.h | 95 rayrender-0.21.1/rayrender/src/ellipsoid.cpp |only rayrender-0.21.1/rayrender/src/ellipsoid.h | 164 - rayrender-0.21.1/rayrender/src/hitable.cpp |only rayrender-0.21.1/rayrender/src/hitable.h | 446 +--- rayrender-0.21.1/rayrender/src/hitablelist.cpp |only rayrender-0.21.1/rayrender/src/hitablelist.h | 71 rayrender-0.21.1/rayrender/src/infinite_area_light.cpp |only rayrender-0.21.1/rayrender/src/infinite_area_light.h | 132 - rayrender-0.21.1/rayrender/src/integrator.cpp |only rayrender-0.21.1/rayrender/src/integrator.h |only rayrender-0.21.1/rayrender/src/material.cpp |only rayrender-0.21.1/rayrender/src/material.h | 450 +--- rayrender-0.21.1/rayrender/src/mathinline.h | 258 ++ rayrender-0.21.1/rayrender/src/mesh3d.cpp |only rayrender-0.21.1/rayrender/src/mesh3d.h |only rayrender-0.21.1/rayrender/src/microfacetdist.cpp |only rayrender-0.21.1/rayrender/src/microfacetdist.h | 234 -- rayrender-0.21.1/rayrender/src/miniply.cpp |only rayrender-0.21.1/rayrender/src/miniply.h |only rayrender-0.21.1/rayrender/src/onbh.h | 27 rayrender-0.21.1/rayrender/src/pdf.cpp |only rayrender-0.21.1/rayrender/src/pdf.h | 130 - rayrender-0.21.1/rayrender/src/perlin.cpp |only rayrender-0.21.1/rayrender/src/perlin.h | 40 rayrender-0.21.1/rayrender/src/plymesh.cpp |only rayrender-0.21.1/rayrender/src/plymesh.h |only rayrender-0.21.1/rayrender/src/ray.cpp |only rayrender-0.21.1/rayrender/src/rectangle.cpp |only rayrender-0.21.1/rayrender/src/rectangle.h |only rayrender-0.21.1/rayrender/src/render_animation_rcpp.cpp |only rayrender-0.21.1/rayrender/src/render_scene_rcpp.cpp | 649 +----- rayrender-0.21.1/rayrender/src/rng.h | 3 rayrender-0.21.1/rayrender/src/sampler.cpp | 145 + rayrender-0.21.1/rayrender/src/sampler.h | 59 rayrender-0.21.1/rayrender/src/sphere.cpp |only rayrender-0.21.1/rayrender/src/sphere.h | 272 -- rayrender-0.21.1/rayrender/src/texture.cpp |only rayrender-0.21.1/rayrender/src/texture.h | 105 rayrender-0.21.1/rayrender/src/tinyobj/tiny_obj_loader.h | 955 ++++++-- rayrender-0.21.1/rayrender/src/tonemap.cpp |only rayrender-0.21.1/rayrender/src/tonemap.h | 47 rayrender-0.21.1/rayrender/src/triangle.cpp |only rayrender-0.21.1/rayrender/src/triangle.h | 161 - rayrender-0.21.1/rayrender/src/trimesh.cpp |only rayrender-0.21.1/rayrender/src/trimesh.h | 617 ----- rayrender-0.21.1/rayrender/src/vec2.h | 3 rayrender-0.21.1/rayrender/src/vec3.h | 6 148 files changed, 3504 insertions(+), 5409 deletions(-)
Title: Pipe-Friendly Vector Replacement with Case Statements
Description: Offers a pipe-friendly alternative to the 'dplyr' functions
case_when() and if_else(), as well as a number of user-friendly
simplifications for common use cases. These functions accept a vector
as an optional first argument, allowing conditional statements to be
built using the 'magrittr' dot operator. The functions also coerce
all outputs to the same type, meaning you no longer have to worry
about using specific typed variants of NA or explicitly declaring
integer outputs, and evaluate outputs somewhat lazily, so you don't
waste time on long operations that won't be used.
Author: Alexander Rossell Hayes [aut, cre, cph]
(<https://orcid.org/0000-0001-9412-0457>),
Patrice Kiener [ctb] (Contributed example for fn_case(),
<https://orcid.org/0000-0002-0505-9920>)
Maintainer: Alexander Rossell Hayes <alexander@rossellhayes.com>
Diff between incase versions 0.2.1 dated 2021-01-14 and 0.3.0 dated 2021-04-03
incase-0.2.1/incase/R/check_length_val.R |only incase-0.2.1/incase/R/compact_null.R |only incase-0.2.1/incase/R/formatting.R |only incase-0.2.1/incase/R/glubort.R |only incase-0.2.1/incase/R/replace_with.R |only incase-0.2.1/incase/R/validate_case_when_length.R |only incase-0.2.1/incase/R/validate_formula.R |only incase-0.2.1/incase/R/warn_if_default.R |only incase-0.2.1/incase/tests/testthat/test-formatting.R |only incase-0.3.0/incase/DESCRIPTION | 43 ++++-- incase-0.3.0/incase/MD5 | 54 ++++---- incase-0.3.0/incase/NAMESPACE | 10 + incase-0.3.0/incase/NEWS.md | 22 +++ incase-0.3.0/incase/R/compact_list.R |only incase-0.3.0/incase/R/errors.R |only incase-0.3.0/incase/R/fn_case.R | 70 ++--------- incase-0.3.0/incase/R/grep_case.R | 7 - incase-0.3.0/incase/R/if_case.R | 63 ++++++++-- incase-0.3.0/incase/R/in_case.R | 106 +++++++---------- incase-0.3.0/incase/R/in_case_fct.R |only incase-0.3.0/incase/R/in_case_list.R |only incase-0.3.0/incase/R/onLoad.R |only incase-0.3.0/incase/R/replace.R |only incase-0.3.0/incase/R/switch_case.R | 71 ++++++----- incase-0.3.0/incase/R/validate_case_length.R |only incase-0.3.0/incase/README.md | 79 ++++++++---- incase-0.3.0/incase/man/fn_case.Rd | 41 ++++++ incase-0.3.0/incase/man/grep_case.Rd | 5 incase-0.3.0/incase/man/in_case.Rd | 5 incase-0.3.0/incase/man/in_case_fct.Rd |only incase-0.3.0/incase/man/in_case_list.Rd |only incase-0.3.0/incase/man/incase-package.Rd | 5 incase-0.3.0/incase/man/switch_case.Rd | 7 - incase-0.3.0/incase/tests/testthat/test-fn_case.R | 51 +++++++- incase-0.3.0/incase/tests/testthat/test-if_case.R | 20 ++- incase-0.3.0/incase/tests/testthat/test-in_case.R | 8 - incase-0.3.0/incase/tests/testthat/test-in_case_fct.R |only incase-0.3.0/incase/tests/testthat/test-in_case_list.R |only 38 files changed, 421 insertions(+), 246 deletions(-)
Title: Compute Viewshed in 3D Point Clouds of Ecosystems
Description: A set of tools to compute viewshed in 3D from Terrestrial Laser Scanner data and prepare the data prior to visibility estimation.
Author: Bastien Lecigne [aut, cre] (<https://orcid.org/0000-0002-1496-202X>),
Jan Eitel [aut]
Maintainer: Bastien Lecigne <lecignebastien@gmail.com>
Diff between viewshed3d versions 3.2.0 dated 2020-07-03 and 4.0.0 dated 2021-04-03
DESCRIPTION | 13 +++---- MD5 | 41 +++++++++++++++-------- NAMESPACE | 6 +++ R/Denoise.R | 4 +- R/Downsample_scene.R | 2 - R/add_slope.R |only R/directional_visibility.R |only R/generate_sphere.R |only R/h_visibility.R |only R/reconstruct_ground.R | 28 +++++++-------- R/remove_slope.R |only R/sample_scene.R | 6 +-- R/set_position.R |only R/viewshed3d_package.R | 80 +++++++++++++++++++++++++-------------------- R/viewsheds.R | 4 +- R/visibility.R | 32 ++++++++++-------- README.md |only man/add_slope.Rd |only man/d_visibility.Rd |only man/denoise_scene.Rd | 2 - man/generate_sphere.Rd |only man/h_visibility.Rd |only man/remove_slope.Rd |only man/sample_scene.Rd | 4 +- man/set_position.Rd |only man/viewshed3d.Rd | 40 ++++++++++++++-------- man/viewsheds.Rd | 2 - man/visibility.Rd | 16 +++++---- 28 files changed, 166 insertions(+), 114 deletions(-)
Title: Sparse Tables
Description: Fast Multiplication and Marginalization of Sparse Tables.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>
Diff between sparta versions 0.7.1 dated 2021-03-01 and 0.7.2 dated 2021-04-03
DESCRIPTION | 9 +++---- MD5 | 24 ++++++++++---------- NEWS.md | 4 +++ R/RcppExports.R | 4 +++ R/api_converters.R | 2 - R/api_sparta.R | 2 - R/helpers_sparta.R | 20 ++++++----------- man/sparta_struct.Rd | 2 - src/RcppExports.cpp | 15 ++++++++++++ src/marginalize.cpp | 59 +++++++++++++++++++++++++++++++++++++++++++++++++++ src/misc_utils.cpp | 28 +++++++++++++++++++++++- src/misc_utils.h | 1 src/sparta_types.h | 1 13 files changed, 138 insertions(+), 33 deletions(-)
Title: Easy Downloading Capabilities for the Members' Name Information
Service
Description: An API package for the Members' Name Information Service operated
by the UK parliament. Documentation for the API itself can be found
here: <http://data.parliament.uk/membersdataplatform/default.aspx>.
Author: Evan Odell [aut, cre] (<https://orcid.org/0000-0003-1845-808X>)
Maintainer: Evan Odell <evanodell91@gmail.com>
Diff between mnis versions 0.2.7 dated 2017-07-03 and 0.3.1 dated 2021-04-03
mnis-0.2.7/mnis/R/mnis_extra.R |only mnis-0.2.7/mnis/man/mnis_extra.Rd |only mnis-0.2.7/mnis/tests/testthat/test_extra.R |only mnis-0.3.1/mnis/DESCRIPTION | 34 mnis-0.3.1/mnis/LICENSE | 4 mnis-0.3.1/mnis/MD5 | 157 - mnis-0.3.1/mnis/NAMESPACE | 188 - mnis-0.3.1/mnis/NEWS.md | 244 + mnis-0.3.1/mnis/R/RcppExports.R | 22 mnis-0.3.1/mnis/R/mnis-package.R | 87 mnis-0.3.1/mnis/R/mnis_additional.R | 1445 +--------- mnis-0.3.1/mnis/R/mnis_all_members.R | 163 - mnis-0.3.1/mnis/R/mnis_all_reference.R | 285 +- mnis-0.3.1/mnis/R/mnis_base.R | 67 mnis-0.3.1/mnis/R/mnis_constituency_results.R | 105 mnis-0.3.1/mnis/R/mnis_defunct.R |only mnis-0.3.1/mnis/R/mnis_department.R | 107 mnis-0.3.1/mnis/R/mnis_deprecated.R |only mnis-0.3.1/mnis/R/mnis_eligible.R | 150 - mnis-0.3.1/mnis/R/mnis_full_biog.R | 114 mnis-0.3.1/mnis/R/mnis_general_election_results.R | 121 mnis-0.3.1/mnis/R/mnis_joined_between.R | 178 - mnis-0.3.1/mnis/R/mnis_lords_type.R | 83 mnis-0.3.1/mnis/R/mnis_member_date.R | 108 mnis-0.3.1/mnis/R/mnis_mps_on_date.R | 141 mnis-0.3.1/mnis/R/mnis_party_state.R | 85 mnis-0.3.1/mnis/R/mnis_peers_on_date.R | 128 mnis-0.3.1/mnis/R/mnis_political_interests.R |only mnis-0.3.1/mnis/R/mnis_reference.R | 1849 ++----------- mnis-0.3.1/mnis/R/mnis_tidy.R | 370 +- mnis-0.3.1/mnis/R/util-mnis-id_type.R |only mnis-0.3.1/mnis/R/utils-additional-engine.R |only mnis-0.3.1/mnis/R/utils-additional.R |only mnis-0.3.1/mnis/R/utils-base_url.R |only mnis-0.3.1/mnis/R/utils-get_additional.R |only mnis-0.3.1/mnis/R/utils-mnis_reference.R |only mnis-0.3.1/mnis/R/utils-query.R |only mnis-0.3.1/mnis/R/utils-ref_tidy.R |only mnis-0.3.1/mnis/build/vignette.rds |binary mnis-0.3.1/mnis/inst/CITATION | 24 mnis-0.3.1/mnis/inst/doc/introduction.R | 42 mnis-0.3.1/mnis/inst/doc/introduction.Rmd | 502 +-- mnis-0.3.1/mnis/inst/doc/introduction.html | 649 ++-- mnis-0.3.1/mnis/man/constituency_results_tidy.Rd | 32 mnis-0.3.1/mnis/man/date_tidy.Rd | 30 mnis-0.3.1/mnis/man/mnis.Rd | 77 mnis-0.3.1/mnis/man/mnis_additional.Rd | 356 +- mnis-0.3.1/mnis/man/mnis_all_members.Rd | 87 mnis-0.3.1/mnis/man/mnis_all_reference.Rd | 61 mnis-0.3.1/mnis/man/mnis_base.Rd | 50 mnis-0.3.1/mnis/man/mnis_bom.Rd | 28 mnis-0.3.1/mnis/man/mnis_constituency_results.Rd | 78 mnis-0.3.1/mnis/man/mnis_department.Rd | 86 mnis-0.3.1/mnis/man/mnis_eligible.Rd | 87 mnis-0.3.1/mnis/man/mnis_full_biog.Rd | 76 mnis-0.3.1/mnis/man/mnis_general_election_results.Rd | 99 mnis-0.3.1/mnis/man/mnis_joined_between.Rd | 102 mnis-0.3.1/mnis/man/mnis_lords_type.Rd | 70 mnis-0.3.1/mnis/man/mnis_member_date.Rd | 85 mnis-0.3.1/mnis/man/mnis_mps_on_date.Rd | 89 mnis-0.3.1/mnis/man/mnis_party_state.Rd | 87 mnis-0.3.1/mnis/man/mnis_peers_on_date.Rd | 92 mnis-0.3.1/mnis/man/mnis_political_interests.Rd |only mnis-0.3.1/mnis/man/mnis_reference.Rd | 471 +-- mnis-0.3.1/mnis/man/mnis_tidy.Rd | 52 mnis-0.3.1/mnis/man/tidy_bom.Rd | 28 mnis-0.3.1/mnis/src/RcppExports.cpp | 2 mnis-0.3.1/mnis/src/mnis_init.c | 4 mnis-0.3.1/mnis/tests/testthat-a.R | 9 mnis-0.3.1/mnis/tests/testthat-c.R | 9 mnis-0.3.1/mnis/tests/testthat-e.R | 9 mnis-0.3.1/mnis/tests/testthat-f.R | 9 mnis-0.3.1/mnis/tests/testthat-j.R | 9 mnis-0.3.1/mnis/tests/testthat-l.R | 9 mnis-0.3.1/mnis/tests/testthat-m.R | 9 mnis-0.3.1/mnis/tests/testthat-r.R | 9 mnis-0.3.1/mnis/tests/testthat/test_additional.R | 201 - mnis-0.3.1/mnis/tests/testthat/test_all_members.R | 29 mnis-0.3.1/mnis/tests/testthat/test_constituency_results.R | 38 mnis-0.3.1/mnis/tests/testthat/test_eligible.R | 28 mnis-0.3.1/mnis/tests/testthat/test_fixed_scope.R | 77 mnis-0.3.1/mnis/tests/testthat/test_full_biog.R | 29 mnis-0.3.1/mnis/tests/testthat/test_joined_between.R | 31 mnis-0.3.1/mnis/tests/testthat/test_lords.R | 46 mnis-0.3.1/mnis/tests/testthat/test_members_on_dates.R | 58 mnis-0.3.1/mnis/tests/testthat/test_reference.R | 414 +- mnis-0.3.1/mnis/vignettes/introduction.Rmd | 502 +-- 87 files changed, 4680 insertions(+), 6526 deletions(-)
Title: Junction Tree Inference
Description: Minimal and memory efficient implementation of the junction tree
algorithm using the Lauritzen-Spiegelhalter scheme;
S. L. Lauritzen and D. J. Spiegelhalter (1988)
<https://www.jstor.org/stable/2345762?seq=1>.
Author: Mads Lindskou [aut, cre]
Maintainer: Mads Lindskou <mads@math.aau.dk>
Diff between jti versions 0.6.0 dated 2020-12-16 and 0.7.0 dated 2021-04-03
jti-0.6.0/jti/R/helper_triangulate.R |only jti-0.6.0/jti/man/dag.Rd |only jti-0.7.0/jti/DESCRIPTION | 8 - jti-0.7.0/jti/MD5 | 53 ++++-- jti-0.7.0/jti/NAMESPACE | 20 ++ jti-0.7.0/jti/NEWS.md | 8 + jti-0.7.0/jti/R/RcppExports.R | 8 - jti-0.7.0/jti/R/api_compile.R | 227 +++++++++++++++++------------ jti-0.7.0/jti/R/api_jt.R | 164 +++++++++++++++++--- jti-0.7.0/jti/R/asserters.R | 2 jti-0.7.0/jti/R/helper_compile.R | 24 +-- jti-0.7.0/jti/R/helper_elimination_game.R |only jti-0.7.0/jti/R/helper_jt.R | 177 ++++++++-------------- jti-0.7.0/jti/R/helper_misc.R | 36 ++++ jti-0.7.0/jti/R/helper_mpd.R |only jti-0.7.0/jti/R/helper_triang.R |only jti-0.7.0/jti/R/sandbox.R | 219 ++++++++++++++++++++------- jti-0.7.0/jti/R/tmp_helper_sparse_triang.R |only jti-0.7.0/jti/R/tmp_prime_pots.R |only jti-0.7.0/jti/R/tmp_sparse_triang_notes.R |only jti-0.7.0/jti/man/compile.Rd | 51 +++--- jti-0.7.0/jti/man/cpt_list.Rd | 7 jti-0.7.0/jti/man/get-graph.Rd |only jti-0.7.0/jti/man/get_cliques.Rd | 5 jti-0.7.0/jti/man/getters.Rd |only jti-0.7.0/jti/man/jt.Rd | 57 ++++++- jti-0.7.0/jti/man/new_mpd.Rd |only jti-0.7.0/jti/man/par_lvs.Rd |only jti-0.7.0/jti/man/send_messages.Rd |only jti-0.7.0/jti/man/triangulate.Rd |only jti-0.7.0/jti/src/RcppExports.cpp | 26 +-- jti-0.7.0/jti/src/jti_types.h | 2 jti-0.7.0/jti/src/path_exists.cpp |only jti-0.7.0/jti/src/rip.cpp | 22 -- jti-0.7.0/jti/src/rooted_junction_tree.cpp | 60 ++++++- 35 files changed, 761 insertions(+), 415 deletions(-)
Title: Port of 'Dparser' Package
Description: A Scannerless GLR parser/parser generator. Note that GLR standing for "generalized LR", where L stands for "left-to-right" and
R stands for "rightmost (derivation)". For more information see <https://en.wikipedia.org/wiki/GLR_parser>. This parser is based on the Tomita
(1987) algorithm. (Paper can be found at <https://www.aclweb.org/anthology/P84-1073.pdf>).
The original 'dparser' package documentation can be found at <http://dparser.sourceforge.net/>. This allows you to add mini-languages to R (like
RxODE's ODE mini-language Wang, Hallow, and James 2015 <DOI:10.1002/psp4.12052>) or to parse other languages like 'NONMEM' to automatically translate
them to R code. To use this in your code, add a LinkingTo dparser in your DESCRIPTION file and instead of using #include <dparse.h> use
#include <dparser.h>. This also provides a R-based port of the make_dparser <http://dparser.sourceforge.net/d/make_dparser.cat> command called
mkdparser(). Additionally you can parse an arbitrary grammar within R using the dparse() function, which works on most OSes and is mainly for grammar
testing. The fastest parsing, of course, occurs at the C level, and is suggested.
Author: Matthew Fidler [aut, cre],
John Plevyak [aut, cph]
Maintainer: Matthew Fidler <matthew.fidler@gmail.com>
Diff between dparser versions 0.1.8 dated 2017-11-13 and 1.3.1-2 dated 2021-04-03
dparser-0.1.8/dparser/src/symtab.c |only dparser-0.1.8/dparser/tests/testthat/g50.test.g |only dparser-0.1.8/dparser/tests/testthat/g50.test.g.1 |only dparser-0.1.8/dparser/tests/testthat/g50.test.g.1.check |only dparser-1.3.1-2/dparser/DESCRIPTION | 16 dparser-1.3.1-2/dparser/LICENSE | 4 dparser-1.3.1-2/dparser/MD5 | 273 +- dparser-1.3.1-2/dparser/NAMESPACE | 30 dparser-1.3.1-2/dparser/NEWS.md |only dparser-1.3.1-2/dparser/R/Rparse.R | 14 dparser-1.3.1-2/dparser/R/dparser.R | 1291 +++++----- dparser-1.3.1-2/dparser/R/version.R | 14 dparser-1.3.1-2/dparser/inst/ansic.test.g | 464 +-- dparser-1.3.1-2/dparser/inst/tran.g | 274 +- dparser-1.3.1-2/dparser/man/dpDefaultSkip.Rd | 62 dparser-1.3.1-2/dparser/man/dpGetFile.Rd | 94 dparser-1.3.1-2/dparser/man/dpIncludeDir.Rd | 50 dparser-1.3.1-2/dparser/man/dpReload.Rd | 30 dparser-1.3.1-2/dparser/man/dpRparse.Rd | 36 dparser-1.3.1-2/dparser/man/dpVersion.Rd | 36 dparser-1.3.1-2/dparser/man/dparse.Rd | 231 - dparser-1.3.1-2/dparser/man/dparser-package.Rd | 1363 +++++----- dparser-1.3.1-2/dparser/man/dparserFunction-class.Rd | 38 dparser-1.3.1-2/dparser/man/gc.dparser.Rd | 82 dparser-1.3.1-2/dparser/man/mkdparse.Rd | 1430 +++++------ dparser-1.3.1-2/dparser/man/show-dparserFunction-method.Rd | 31 dparser-1.3.1-2/dparser/src/Makevars | 4 dparser-1.3.1-2/dparser/src/d.h | 72 dparser-1.3.1-2/dparser/src/dparse.h | 64 dparser-1.3.1-2/dparser/src/dparse_tables.h | 192 - dparser-1.3.1-2/dparser/src/dparser.c | 50 dparser-1.3.1-2/dparser/src/dparser.h | 60 dparser-1.3.1-2/dparser/src/dsymtab.c |only dparser-1.3.1-2/dparser/src/dsymtab.h | 45 dparser-1.3.1-2/dparser/src/gram.c | 1491 +++++------ dparser-1.3.1-2/dparser/src/gram.h | 333 +- dparser-1.3.1-2/dparser/src/gramgram.h | 13 dparser-1.3.1-2/dparser/src/grammar.g.c | 412 +-- dparser-1.3.1-2/dparser/src/install.libs.R | 34 dparser-1.3.1-2/dparser/src/lex.c | 505 +-- dparser-1.3.1-2/dparser/src/lex.h | 17 dparser-1.3.1-2/dparser/src/lr.c | 276 -- dparser-1.3.1-2/dparser/src/lr.h | 1 dparser-1.3.1-2/dparser/src/mkdparse.c | 25 dparser-1.3.1-2/dparser/src/parse.c | 1517 +++++------- dparser-1.3.1-2/dparser/src/parse.h | 132 - dparser-1.3.1-2/dparser/src/rdparse.c | 63 dparser-1.3.1-2/dparser/src/read_binary.c | 69 dparser-1.3.1-2/dparser/src/read_binary.h | 10 dparser-1.3.1-2/dparser/src/scan.c | 173 - dparser-1.3.1-2/dparser/src/scan.h | 7 dparser-1.3.1-2/dparser/src/util.c | 290 +- dparser-1.3.1-2/dparser/src/util.h | 171 - dparser-1.3.1-2/dparser/src/version.c | 13 dparser-1.3.1-2/dparser/src/write_tables.c | 1171 ++++----- dparser-1.3.1-2/dparser/src/write_tables.h | 9 dparser-1.3.1-2/dparser/tests/testthat.R | 10 dparser-1.3.1-2/dparser/tests/testthat/ansic.test.g | 466 +-- dparser-1.3.1-2/dparser/tests/testthat/ansic.test.g.1.out |only dparser-1.3.1-2/dparser/tests/testthat/bnf.g.1 | 204 - dparser-1.3.1-2/dparser/tests/testthat/g1.test.g | 4 dparser-1.3.1-2/dparser/tests/testthat/g1.test.g.1.out |only 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Title: Linear Regressions with a Latent Outcome Variable
Description: Fit linear models, estimating score distributions for groups of people, following Cohen and Jiang (1999) <doi:10.2307/2669917>. In this model, the response is a latent trait (such as student ability) and raw item responses are combined with item difficulties in an item response theory (IRT) framework to form a density for each unit (student). This latent trait is then integrated out. This software is intended to fit the same models as the existing software 'AM' <http://am.air.org/>.
Author: Harold Doran [aut],
Paul Bailey [aut, cre],
Eric Buehler [aut],
Sun-joo Lee [aut],
Claire Kelley [ctb],
Emmanuel Sikali [pdr]
Maintainer: Paul Bailey <pbailey@air.org>
Diff between Dire versions 1.0.2 dated 2021-03-22 and 1.0.3 dated 2021-04-03
DESCRIPTION | 13 MD5 | 6 R/de.R | 1498 +++++++++++++++++++++++++++---------------------------- inst/doc/MML.pdf |binary 4 files changed, 759 insertions(+), 758 deletions(-)
Title: Connect to ODBC Compatible Databases (using the DBI Interface)
Description: A DBI-compatible interface to ODBC databases.
Author: Jim Hester [aut, cre],
Hadley Wickham [aut],
Oliver Gjoneski [ctb] (detule),
lexicalunit [cph] (nanodbc library),
Google Inc. [cph] (cctz library),
RStudio [cph, fnd]
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between odbc versions 1.3.1 dated 2021-03-16 and 1.3.2 dated 2021-04-03
DESCRIPTION | 7 +++---- MD5 | 22 +++++++++++----------- NAMESPACE | 1 + NEWS.md | 5 +++++ R/Connection.R | 4 ++-- R/DataTypes.R | 18 ++++++++++++++++++ R/Driver.R | 2 +- R/Viewer.R | 12 ++++++------ README.md | 3 +-- build/odbc.pdf |binary man/dbConnect-OdbcDriver-method.Rd | 5 ++--- man/odbcConnectionColumns.Rd | 4 ++-- 12 files changed, 52 insertions(+), 31 deletions(-)
Title: The Tidymodels Extension for Time Series Modeling
Description: The time series forecasting framework for use with the 'tidymodels' ecosystem.
Models include ARIMA, Exponential Smoothing, and additional time series models
from the 'forecast' and 'prophet' packages. Refer to "Forecasting Principles & Practice, Second edition"
(<https://otexts.com/fpp2/>).
Refer to "Prophet: forecasting at scale"
(<https://research.fb.com/blog/2017/02/prophet-forecasting-at-scale/>.).
Author: Matt Dancho [aut, cre],
Business Science [cph]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between modeltime versions 0.5.0 dated 2021-03-29 and 0.5.1 dated 2021-04-03
DESCRIPTION | 6 +- MD5 | 19 +++---- NAMESPACE | 2 NEWS.md | 8 ++- R/modeltime-forecast.R | 2 R/modeltime-recursive.R | 28 ++++++++-- R/modeltime-refit.R | 4 - R/utils-parsnip-helpers.R | 6 +- inst/doc/getting-started-with-modeltime.html | 72 +++++++++++++-------------- man/dot_prepare_transform.Rd |only vignettes/temp/recursive-forecasting.Rmd | 5 + 11 files changed, 95 insertions(+), 57 deletions(-)
Title: Calculate Ecological Information and Diatom Based Indices
Description: Calculates ecological information and biotic indices for diatoms in a sample.
It includes number/shape of chloroplasts diversity indices, size classes, ecological guilds, and multiple biotic indices.
It outputs both a dataframe with all the results and plots of all the obtained data in a defined output folder.
Sample data was taken from Nicolosi Gelis, Cochero & Gómez (2020, <doi:10.1016/j.ecolind.2019.105951>).
The package uses the 'Diat.Barcode' database to calculate morphological and ecological information by Rimet & Couchez (2012, <doi:10.1051/kmae/2012018>),
and calculates the DES index by Descy (1979, <http://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=PASCAL8060205402>),
the EPID index by Dell'Uomo (1996, ISBN: 3950009002),
the IDAP index by Prygiel & Coste (1993, <doi:10.1007/BF00028033>),
the ID-CH index by Hürlimann & Niederhauser (2007, <https://www.bafu.admin.ch/bafu/fr/home/themes/eaux/publications/publications-eaux/methodes-analyse-appreciation-cours-eau-diatomees.html>),
the IDP index by Gómez & Licursi (2001, <doi:10.1023/A:1011415209445>),
the ILM index by Leclercq & Maquet (1987, <http://www.vliz.be/imisdocs/publications/286641.pdf>),
the IPS index by Coste (1982, <https://www.oieau.org/eaudoc/notice/ETUDE-DES-METHODES-BIOLOGIQUES-DAPPRECIATION-QUANTITATIVE-DE-LA-QUALITE-DES-EAUX>),
the LOBO index by Lobo, Callegaro, & Bender (2002, ISBN:9788585869908),
the SLA by Sládeček (1986, <doi:10.1002/aheh.19860140519>),
the TDI index by Kelly, & Whitton (1995, <doi:10.1007/BF00003802>),
and the SPEAR(herbicide) index by Wood, Mitrovic, Lim, Warne, Dunlop, & Kefford (2019, <doi:10.1016/j.ecolind.2018.12.035>).
Author: María Mercedes Nicolosi Gelis [aut]
(<https://orcid.org/0000-0001-6324-7930>),
María Belén Sathicq [aut] (<https://orcid.org/0000-0002-3534-8950>),
Joaquín Cochero [cre] (<https://orcid.org/0000-0003-3957-6819>)
Maintainer: Joaquín Cochero <jcochero@ilpla.edu.ar>
Diff between diathor versions 0.0.4 dated 2021-02-24 and 0.0.5 dated 2021-04-03
diathor-0.0.4/diathor/R/diat_findAcronyms.R |only diathor-0.0.4/diathor/data/acronyms.rda |only diathor-0.0.4/diathor/man/acronyms.Rd |only diathor-0.0.4/diathor/man/diat_findAcronyms.Rd |only diathor-0.0.5/diathor/DESCRIPTION | 7 +- diathor-0.0.5/diathor/MD5 | 72 +++++++++++-------------- diathor-0.0.5/diathor/NAMESPACE | 2 diathor-0.0.5/diathor/R/data.R | 10 --- diathor-0.0.5/diathor/R/diaThor.R | 3 - diathor-0.0.5/diathor/R/diat_des.R | 26 ++++----- diathor-0.0.5/diathor/R/diat_diversity.R | 4 - diathor-0.0.5/diathor/R/diat_epid.R | 24 ++++---- diathor-0.0.5/diathor/R/diat_idap.R | 28 +++++---- diathor-0.0.5/diathor/R/diat_idch.R | 24 ++++---- diathor-0.0.5/diathor/R/diat_idp.R | 19 +++--- diathor-0.0.5/diathor/R/diat_ilm.R | 22 ++++--- diathor-0.0.5/diathor/R/diat_ips.R | 22 +++++-- diathor-0.0.5/diathor/R/diat_loadData.R | 42 ++++---------- diathor-0.0.5/diathor/R/diat_lobo.R | 24 ++++---- diathor-0.0.5/diathor/R/diat_sla.R | 24 ++++---- diathor-0.0.5/diathor/R/diat_spear.R | 9 +-- diathor-0.0.5/diathor/R/diat_tdi.R | 17 ++++- diathor-0.0.5/diathor/R/diathorAll.R | 2 diathor-0.0.5/diathor/README.md | 3 - diathor-0.0.5/diathor/data/des.rda |binary diathor-0.0.5/diathor/data/diat_sampleData.rda |binary diathor-0.0.5/diathor/data/epid.rda |binary diathor-0.0.5/diathor/data/idap.rda |binary diathor-0.0.5/diathor/data/idch.rda |binary diathor-0.0.5/diathor/data/idp.rda |binary diathor-0.0.5/diathor/data/ilm.rda |binary diathor-0.0.5/diathor/data/ips.rda |binary diathor-0.0.5/diathor/data/lobo.rda |binary diathor-0.0.5/diathor/data/sla.rda |binary diathor-0.0.5/diathor/data/spear.rda |binary diathor-0.0.5/diathor/data/tdi.rda |binary diathor-0.0.5/diathor/man/diaThor.Rd | 3 - diathor-0.0.5/diathor/man/diaThorAll.Rd | 2 diathor-0.0.5/diathor/man/diat_loadData.Rd | 2 39 files changed, 191 insertions(+), 200 deletions(-)
Title: Weighting for Covariate Balance in Observational Studies
Description: Generates weights to form equivalent groups in observational studies with point or longitudinal treatments by easing and extending the functionality of the R packages 'twang' for generalized boosted modeling (McCaffrey, Ridgeway & Morral, 2004) <doi:10.1037/1082-989X.9.4.403>, 'CBPS' for covariate balancing propensity score weighting (Imai & Ratkovic, 2014) <doi:10.1111/rssb.12027>, 'ebal' for entropy balancing (Hainmueller, 2012) <doi:10.1093/pan/mpr025>, 'optweight' for optimization-based weights (Zubizarreta, 2015) <doi:10.1080/01621459.2015.1023805>, 'ATE' for empirical balancing calibration weighting (Chan, Yam, & Zhang, 2016) <doi:10.1111/rssb.12129>, 'SuperLearner' for stacked machine learning-based propensity scores (Pirracchio, Petersen, & van der Laan, 2015) <doi:10.1093/aje/kwu253>, among others. Also allows for assessment of weights and checking of covariate balance by interfacing directly with 'cobalt'.
Author: Noah Greifer [aut, cre] (<https://orcid.org/0000-0003-3067-7154>)
Maintainer: Noah Greifer <noah.greifer@gmail.com>
Diff between WeightIt versions 0.11.0 dated 2021-02-02 and 0.12.0 dated 2021-04-03
WeightIt-0.11.0/WeightIt/man/method_twang.Rd |only WeightIt-0.12.0/WeightIt/DESCRIPTION | 18 - WeightIt-0.12.0/WeightIt/MD5 | 41 +- WeightIt-0.12.0/WeightIt/NAMESPACE | 1 WeightIt-0.12.0/WeightIt/NEWS.md | 22 + WeightIt-0.12.0/WeightIt/R/SHARED.R | 213 ++++++++++--- WeightIt-0.12.0/WeightIt/R/as.weightit.R | 24 - WeightIt-0.12.0/WeightIt/R/balance.criteria.R | 280 +++++++++++++++++- WeightIt-0.12.0/WeightIt/R/functions_for_processing.R | 163 ++-------- WeightIt-0.12.0/WeightIt/R/sbps.R | 8 WeightIt-0.12.0/WeightIt/R/weightit.R | 94 +++--- WeightIt-0.12.0/WeightIt/R/weightit.fit.R | 23 - WeightIt-0.12.0/WeightIt/R/weightit2method.R | 269 ++++------------- WeightIt-0.12.0/WeightIt/R/weightitMSM.R | 179 +++++------ WeightIt-0.12.0/WeightIt/build/partial.rdb |binary WeightIt-0.12.0/WeightIt/inst/doc/WeightIt.html | 184 +++++++---- WeightIt-0.12.0/WeightIt/man/method_bart.Rd | 5 WeightIt-0.12.0/WeightIt/man/method_energy.Rd | 6 WeightIt-0.12.0/WeightIt/man/method_gbm.Rd | 4 WeightIt-0.12.0/WeightIt/man/method_ps.Rd | 2 WeightIt-0.12.0/WeightIt/man/stop.method.Rd | 5 WeightIt-0.12.0/WeightIt/man/weightitMSM.Rd | 2 22 files changed, 884 insertions(+), 659 deletions(-)
Title: Spatial Dependence: Weighting Schemes, Statistics
Description: A collection of functions to create spatial weights matrix
objects from polygon 'contiguities', from point patterns by distance and
tessellations, for summarizing these objects, and for permitting their
use in spatial data analysis, including regional aggregation by minimum
spanning tree; a collection of tests for spatial 'autocorrelation',
including global 'Morans I' and 'Gearys C' proposed by 'Cliff' and 'Ord'
(1973, ISBN: 0850860369) and (1981, ISBN: 0850860814), 'Hubert/Mantel'
general cross product statistic, Empirical Bayes estimates and
'Assunção/Reis' (1999) <doi:10.1002/(SICI)1097-0258(19990830)18:16%3C2147::AID-SIM179%3E3.0.CO;2-I> Index, 'Getis/Ord' G ('Getis' and 'Ord' 1992)
<doi:10.1111/j.1538-4632.1992.tb00261.x> and multicoloured
join count statistics, 'APLE' ('Li 'et al.' )
<doi:10.1111/j.1538-4632.2007.00708.x>, local 'Moran's I'
('Anselin' 1995) <doi:10.1111/j.1538-4632.1995.tb00338.x> and
'Getis/Ord' G ('Ord' and 'Getis' 1995)
<doi:10.1111/j.1538-4632.1995.tb00912.x>,
'saddlepoint' approximations ('Tiefelsdorf' 2002)
<doi:10.1111/j.1538-4632.2002.tb01084.x> and exact tests
for global and local 'Moran's I' ('Bivand et al.' 2009)
<doi:10.1016/j.csda.2008.07.021> and 'LOSH' local indicators
of spatial heteroscedasticity ('Ord' and 'Getis')
<doi:10.1007/s00168-011-0492-y>. The implementation of most of
the measures is described in 'Bivand' and 'Wong' (2018)
<doi:10.1007/s11749-018-0599-x>.
'spdep' >= 1.1-1 corresponds to 'spatialreg' >= 1.1-1, in which the model
fitting functions are deprecated and pass through to 'spatialreg', but
will mask those in 'spatialreg'. From versions 1.2-1, the functions will
be made defunct in 'spdep'.
For now 'spatialreg' only has functions from 'spdep', where they are shown
as deprecated. 'spatialreg' only loads the namespace of 'spdep'; if you
attach 'spdep', the same functions in the other package will be masked.
Some feed through adequately, others do not.
Author: Roger Bivand [cre, aut] (<https://orcid.org/0000-0003-2392-6140>),
Micah Altman [ctb],
Luc Anselin [ctb],
Renato Assunção [ctb],
Olaf Berke [ctb],
Andrew Bernat [ctb],
Guillaume Blanchet [ctb],
Eric Blankmeyer [ctb],
Marilia Carvalho [ctb],
Bjarke Christensen [ctb],
Yongwan Chun [ctb],
Carsten Dormann [ctb],
Stéphane Dray [ctb],
Virgilio Gómez-Rubio [ctb],
Martin Gubri [ctb],
Rein Halbersma [ctb],
Elias Krainski [ctb],
Pierre Legendre [ctb],
Nicholas Lewin-Koh [ctb],
Angela Li [ctb],
Hongfei Li [ctb],
Jielai Ma [ctb],
Abhirup Mallik [ctb, trl],
Giovanni Millo [ctb],
Werner Mueller [ctb],
Hisaji Ono [ctb],
Pedro Peres-Neto [ctb],
Gianfranco Piras [ctb],
Markus Reder [ctb],
Michael Tiefelsdorf [ctb],
René Westerholt [ctb],
Danlin Yu [ctb]
Maintainer: Roger Bivand <Roger.Bivand@nhh.no>
Diff between spdep versions 1.1-5 dated 2020-06-29 and 1.1-7 dated 2021-04-03
spdep-1.1-5/spdep/inst/doc/nb.Rnw |only spdep-1.1-5/spdep/inst/doc/nb.pdf |only spdep-1.1-5/spdep/vignettes/nb.Rnw |only spdep-1.1-7/spdep/ChangeLog | 337 ++++++++++++++++++++++ spdep-1.1-7/spdep/DESCRIPTION | 10 spdep-1.1-7/spdep/MD5 | 141 ++++----- spdep-1.1-7/spdep/NAMESPACE | 5 spdep-1.1-7/spdep/NEWS.md |only spdep-1.1-7/spdep/R/LR.spsarlm.R | 16 - spdep-1.1-7/spdep/R/ME.R | 30 +- spdep-1.1-7/spdep/R/SpatialFiltering.R | 32 +- spdep-1.1-7/spdep/R/anova.sarlm.R | 8 spdep-1.1-7/spdep/R/bptest.sarlm.R | 8 spdep-1.1-7/spdep/R/dnearneigh.R | 99 ++++-- spdep-1.1-7/spdep/R/error.spsarlm.R | 42 +- spdep-1.1-7/spdep/R/impacts.R | 86 ++--- spdep-1.1-7/spdep/R/jacobian.R | 4 spdep-1.1-7/spdep/R/knearneigh.R | 37 -- spdep-1.1-7/spdep/R/kpgm_new.R | 102 +++--- spdep-1.1-7/spdep/R/lag.spsarlm.R | 12 spdep-1.1-7/spdep/R/lisa_perm.R |only spdep-1.1-7/spdep/R/mcmcsamp.R | 20 - spdep-1.1-7/spdep/R/mess.R | 96 +++--- spdep-1.1-7/spdep/R/nb2listw.R | 2 spdep-1.1-7/spdep/R/nb2listwdist.R |only spdep-1.1-7/spdep/R/poly2nb.R | 172 ++++------- spdep-1.1-7/spdep/R/s2sls.R | 64 ++-- spdep-1.1-7/spdep/R/sacsarlm.R | 12 spdep-1.1-7/spdep/R/sarlm.R | 74 ++-- spdep-1.1-7/spdep/R/soi.R | 6 spdep-1.1-7/spdep/R/spBreg.R | 58 +-- spdep-1.1-7/spdep/R/spautolm.R | 86 ++--- spdep-1.1-7/spdep/R/summary.spsarlm.R | 66 ++-- spdep-1.1-7/spdep/build/partial.rdb |only spdep-1.1-7/spdep/build/vignette.rds |binary spdep-1.1-7/spdep/inst/CITATION | 4 spdep-1.1-7/spdep/inst/ChangeLog | 337 ++++++++++++++++++++++ spdep-1.1-7/spdep/inst/doc/CO69.html | 99 +++--- spdep-1.1-7/spdep/inst/doc/nb.R | 283 ++---------------- spdep-1.1-7/spdep/inst/doc/nb.Rmd |only spdep-1.1-7/spdep/inst/doc/nb.html |only spdep-1.1-7/spdep/inst/doc/nb_igraph.R | 2 spdep-1.1-7/spdep/inst/doc/nb_igraph.Rmd | 3 spdep-1.1-7/spdep/inst/doc/nb_igraph.html | 96 +++--- spdep-1.1-7/spdep/inst/doc/nb_sf.R | 322 ++------------------- spdep-1.1-7/spdep/inst/doc/nb_sf.Rmd | 449 +++--------------------------- spdep-1.1-7/spdep/inst/doc/nb_sf.html | 240 +++++++++------- spdep-1.1-7/spdep/inst/doc/sids.R | 7 spdep-1.1-7/spdep/inst/doc/sids.Rmd | 9 spdep-1.1-7/spdep/inst/doc/sids.html | 154 ++++++---- spdep-1.1-7/spdep/inst/etc/misc/sids.zip |only spdep-1.1-7/spdep/inst/etc/misc/sids2.zip |only spdep-1.1-7/spdep/man/EBImoran.mc.Rd | 2 spdep-1.1-7/spdep/man/LOSH.Rd | 2 spdep-1.1-7/spdep/man/LOSH.cs.Rd | 2 spdep-1.1-7/spdep/man/LOSH.mc.Rd | 2 spdep-1.1-7/spdep/man/dnearneigh.Rd | 11 spdep-1.1-7/spdep/man/geary.test.Rd | 2 spdep-1.1-7/spdep/man/globalG.test.Rd | 2 spdep-1.1-7/spdep/man/graphneigh.Rd | 14 spdep-1.1-7/spdep/man/knearneigh.Rd | 22 - spdep-1.1-7/spdep/man/lm.morantest.sad.Rd | 2 spdep-1.1-7/spdep/man/localG.Rd | 11 spdep-1.1-7/spdep/man/localmoran.Rd | 15 - spdep-1.1-7/spdep/man/localmoran.exact.Rd | 2 spdep-1.1-7/spdep/man/localmoran.sad.Rd | 5 spdep-1.1-7/spdep/man/moran.test.Rd | 2 spdep-1.1-7/spdep/man/nb2listwdist.Rd |only spdep-1.1-7/spdep/man/nboperations.Rd | 16 - spdep-1.1-7/spdep/man/poly2nb.Rd | 14 spdep-1.1-7/spdep/src/dnn.c | 96 ++++-- spdep-1.1-7/spdep/src/init.c | 1 spdep-1.1-7/spdep/src/spdep.h | 2 spdep-1.1-7/spdep/vignettes/nb.Rmd |only spdep-1.1-7/spdep/vignettes/nb_igraph.Rmd | 3 spdep-1.1-7/spdep/vignettes/nb_sf.Rmd | 449 +++--------------------------- spdep-1.1-7/spdep/vignettes/refs.bib | 11 spdep-1.1-7/spdep/vignettes/sids.Rmd | 9 78 files changed, 2004 insertions(+), 2323 deletions(-)
Title: Filtering and Assessing the Sample Size of Tracking Data
Description: Functions to filter GPS/Argos locations, as well as assessing the sample size for the analysis of animal distributions. The filters remove temporal and spatial duplicates, fixes located at a given height from estimated high tide line, and locations with high error as described in Shimada et al. (2012) <doi:10.3354/meps09747> and Shimada et al. (2016) <doi:10.1007/s00227-015-2771-0>. Sample size for the analysis of animal distributions can be assessed by the conventional area-based approach or the alternative probability-based approach as described in Shimada et al. (2021) <doi:10.1111/2041-210X.13506>.
Author: Takahiro Shimada
Maintainer: Takahiro Shimada <taka.shimada@gmail.com>
Diff between SDLfilter versions 2.0.1 dated 2020-07-05 and 2.1.0 dated 2021-04-03
SDLfilter-2.0.1/SDLfilter/R/curtis.R |only SDLfilter-2.0.1/SDLfilter/data/curtis.rda |only SDLfilter-2.0.1/SDLfilter/man/curtis.Rd |only SDLfilter-2.0.1/SDLfilter/man/figures/README-example1.png |only SDLfilter-2.0.1/SDLfilter/man/figures/README-example2.png |only SDLfilter-2.1.0/SDLfilter/DESCRIPTION | 10 SDLfilter-2.1.0/SDLfilter/MD5 | 93 ++--- SDLfilter-2.1.0/SDLfilter/NEWS | 7 SDLfilter-2.1.0/SDLfilter/NEWS.md | 8 SDLfilter-2.1.0/SDLfilter/R/asymptote.R | 99 ++++- SDLfilter-2.1.0/SDLfilter/R/boot_area.R | 15 SDLfilter-2.1.0/SDLfilter/R/boot_overlap.R | 19 - SDLfilter-2.1.0/SDLfilter/R/ddfilter.R | 2 SDLfilter-2.1.0/SDLfilter/R/ddfilter_loop.R | 2 SDLfilter-2.1.0/SDLfilter/R/ddfilter_speed.R | 4 SDLfilter-2.1.0/SDLfilter/R/depthfilter.R | 2 SDLfilter-2.1.0/SDLfilter/R/dupfilter.R | 2 SDLfilter-2.1.0/SDLfilter/R/dupfilter_exact.R | 2 SDLfilter-2.1.0/SDLfilter/R/dupfilter_qi.R | 2 SDLfilter-2.1.0/SDLfilter/R/dupfilter_space.R | 2 SDLfilter-2.1.0/SDLfilter/R/dupfilter_time.R | 2 SDLfilter-2.1.0/SDLfilter/R/flatback.R |only SDLfilter-2.1.0/SDLfilter/R/track_param.R | 1 SDLfilter-2.1.0/SDLfilter/R/turtle.R | 2 SDLfilter-2.1.0/SDLfilter/R/turtle2.R | 2 SDLfilter-2.1.0/SDLfilter/R/ud_matrix.R |only SDLfilter-2.1.0/SDLfilter/R/ud_raster.R |only SDLfilter-2.1.0/SDLfilter/R/vmax.R | 2 SDLfilter-2.1.0/SDLfilter/R/vmaxlp.R | 10 SDLfilter-2.1.0/SDLfilter/README.md | 187 +++++++++-- SDLfilter-2.1.0/SDLfilter/build |only SDLfilter-2.1.0/SDLfilter/data/flatback.rda |only SDLfilter-2.1.0/SDLfilter/data/ud_matrix.rda |only SDLfilter-2.1.0/SDLfilter/data/ud_raster.rda |only SDLfilter-2.1.0/SDLfilter/inst/CITATION | 84 ++-- SDLfilter-2.1.0/SDLfilter/man/asymptote.Rd | 34 +- SDLfilter-2.1.0/SDLfilter/man/boot_area.Rd | 15 SDLfilter-2.1.0/SDLfilter/man/boot_overlap.Rd | 21 - SDLfilter-2.1.0/SDLfilter/man/ddfilter.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/ddfilter_loop.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/ddfilter_speed.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/depthfilter.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/dupfilter.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/dupfilter_exact.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/dupfilter_qi.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/dupfilter_space.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/dupfilter_time.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/figures/unnamed-chunk-13-1.png |only SDLfilter-2.1.0/SDLfilter/man/figures/unnamed-chunk-7-1.png |only SDLfilter-2.1.0/SDLfilter/man/flatback.Rd |only SDLfilter-2.1.0/SDLfilter/man/turtle.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/turtle2.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/ud_matrix.Rd |only SDLfilter-2.1.0/SDLfilter/man/ud_raster.Rd |only SDLfilter-2.1.0/SDLfilter/man/vmax.Rd | 2 SDLfilter-2.1.0/SDLfilter/man/vmaxlp.Rd | 10 56 files changed, 465 insertions(+), 198 deletions(-)
Title: Kitty Pictures and Meows from R Console
Description: Get pictures of cats and their meows from your R
console.
Author: Indrajeet Patil [aut, cre, cph]
(<https://orcid.org/0000-0003-1995-6531>, @patilindrajeets)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between kittyR versions 1.0.0 dated 2021-01-18 and 1.1.0 dated 2021-04-03
kittyR-1.0.0/kittyR/build |only kittyR-1.1.0/kittyR/DESCRIPTION | 13 kittyR-1.1.0/kittyR/LICENSE | 4 kittyR-1.1.0/kittyR/MD5 | 39 +- kittyR-1.1.0/kittyR/NAMESPACE | 70 ++-- kittyR-1.1.0/kittyR/NEWS.md | 13 kittyR-1.1.0/kittyR/R/global_vars.R | 20 - kittyR-1.1.0/kittyR/R/kittyR.R | 230 ++++++++-------- kittyR-1.1.0/kittyR/R/kittypics_df_maker.R | 128 ++++---- kittyR-1.1.0/kittyR/R/meowR.R | 120 ++++---- kittyR-1.1.0/kittyR/R/reexports.R | 50 +-- kittyR-1.1.0/kittyR/README.md | 229 ++++++++------- kittyR-1.1.0/kittyR/inst/WORDLIST | 36 +- kittyR-1.1.0/kittyR/man/figures/README-kittyR1-1.png |binary kittyR-1.1.0/kittyR/man/figures/README-kittyR2-1.png |binary kittyR-1.1.0/kittyR/man/kittyR.Rd | 132 ++++----- kittyR-1.1.0/kittyR/man/kitty_pics_df.Rd | 51 +-- kittyR-1.1.0/kittyR/man/meowR.Rd | 4 kittyR-1.1.0/kittyR/tests/spelling.R | 12 kittyR-1.1.0/kittyR/tests/testthat.R | 8 kittyR-1.1.0/kittyR/tests/testthat/test-kitty_pics_df.R | 37 +- 21 files changed, 596 insertions(+), 600 deletions(-)
Title: Coefficients of Interrater Reliability - Generalized for
Randomly Incomplete Datasets
Description: Provides coefficients of interrater reliability that are generalized to cope with randomly incomplete (i.e. unbalanced) datasets without any imputation of missing values or any (row-wise or column-wise) omissions of actually available data. Applied to complete (balanced) datasets, these generalizations yield the same results as the common procedures, namely the Intraclass Correlation according to McGraw & Wong (1996) <doi:10.1037/1082-989X.1.1.30> and the Coefficient of Concordance according to Kendall & Babington Smith (1939) <doi:10.1214/aoms/1177732186>.
Author: Markus Brueckl [aut, cre], Florian Heuer [aut, trl]
Maintainer: Markus Brueckl <markus.brueckl@tu-berlin.de>
Diff between irrNA versions 0.1.4 dated 2018-04-11 and 0.2.0 dated 2021-04-03
DESCRIPTION | 12 - MD5 | 14 - R/iccNA.R | 87 +++++--- R/icc_corr.R | 534 +++++++++++++++++++++++++++---------------------------- R/kendallNA.R | 6 man/iccNA.Rd | 35 ++- man/icc_corr.Rd | 26 +- man/kendallNA.Rd | 6 8 files changed, 386 insertions(+), 334 deletions(-)
Title: Inference in Graphical Gaussian Models with Edge and Vertex
Symmetries
Description: Estimation, model selection and other aspects of
statistical inference in Graphical Gaussian models with edge and
vertex symmetries (Graphical Gaussian models with colours).
Documentation about 'gRc' is provided in the paper by Hojsgaard and
Lauritzen (2007, <doi:10.18637/jss.v023.i06>) and the paper by
Hojsgaard and Lauritzen (2008, <doi:10.1111/j.1467-9868.2008.00666.x>).
Author: Søren Højsgaard <sorenh@math.aau.dk>, Steffen L. Lauritzen <lauritzen@math.ku.dk>
Maintainer: Søren Højsgaard <sorenh@math.aau.dk>
Diff between gRc versions 0.4-3.2 dated 2019-04-17 and 0.4.4 dated 2021-04-03
gRc-0.4-3.2/gRc/R/RCON-IPM5.R |only gRc-0.4-3.2/gRc/R/add1drop1.R |only gRc-0.4-3.2/gRc/R/calculateVCOV.R |only gRc-0.4-3.2/gRc/R/cleverTraceMat.R |only gRc-0.4-3.2/gRc/R/comparecc.R |only gRc-0.4-3.2/gRc/R/display4.R |only gRc-0.4-3.2/gRc/R/fitMain.R |only gRc-0.4-3.2/gRc/R/getScoreAndInformation4.R |only gRc-0.4-3.2/gRc/R/rcon-IPM4.R |only gRc-0.4-3.2/gRc/R/rcor-IPM4.R |only gRc-0.4-3.2/gRc/R/rcox-ScoreMatching4.R |only gRc-0.4-3.2/gRc/R/rcox-Scoring.R |only gRc-0.4-3.2/gRc/R/rcox4.R |only gRc-0.4-3.2/gRc/R/repairK.R |only gRc-0.4-3.2/gRc/R/sets-SetOp-Lists.R |only gRc-0.4-3.2/gRc/R/split1join1.R |only gRc-0.4-3.2/gRc/R/stepwise4.R |only gRc-0.4-3.2/gRc/R/summary-vcov.R |only gRc-0.4-3.2/gRc/R/switchThetaK4.R |only gRc-0.4-3.2/gRc/R/testingMisc.R |only gRc-0.4-3.2/gRc/R/update4.R |only gRc-0.4-3.2/gRc/R/zzz-generatingClasscImplementation.R |only gRc-0.4-3.2/gRc/man/add1drop1.Rd |only gRc-0.4-3.2/gRc/man/fit.Rd |only gRc-0.4-3.2/gRc/man/fitInternal.Rd |only gRc-0.4-3.2/gRc/man/gRcox.Rd |only gRc-0.4-3.2/gRc/man/getSlot.Rd |only gRc-0.4-3.2/gRc/man/join1split1.Rd |only gRc-0.4-3.2/gRc/man/stepwise.Rd |only gRc-0.4-3.2/gRc/man/tr.Rd |only gRc-0.4-3.2/gRc/man/update.Rd |only gRc-0.4-3.2/gRc/src/clevertrace.c |only gRc-0.4-3.2/gRc/src/clevertrace.h |only gRc-0.4-3.2/gRc/src/rconipm2.c |only gRc-0.4-3.2/gRc/src/scorematching.c |only gRc-0.4-3.2/gRc/src/scorematching.h |only gRc-0.4-3.2/gRc/src/shd_print.c |only gRc-0.4-3.2/gRc/src/shd_print.h |only gRc-0.4-3.2/gRc/src/shd_utils.c |only gRc-0.4-3.2/gRc/src/shd_utils.h |only gRc-0.4.4/gRc/DESCRIPTION | 17 gRc-0.4.4/gRc/MD5 | 101 +++-- gRc-0.4.4/gRc/NAMESPACE | 164 +++++---- gRc-0.4.4/gRc/NEWS |only gRc-0.4.4/gRc/R/NAMESPACE.R |only gRc-0.4.4/gRc/R/RcppExports.R |only gRc-0.4.4/gRc/R/clever-trace.R |only gRc-0.4.4/gRc/R/coerce-parm.R |only gRc-0.4.4/gRc/R/display.R |only gRc-0.4.4/gRc/R/fit-doc.R |only gRc-0.4.4/gRc/R/fit-main.R |only gRc-0.4.4/gRc/R/fit-rcon-ipm.R |only gRc-0.4.4/gRc/R/fit-rcor-ipm.R |only gRc-0.4.4/gRc/R/fit-rcox-matching.R |only gRc-0.4.4/gRc/R/fit-rcox-scoring.R |only gRc-0.4.4/gRc/R/grc-summary-doc.R |only gRc-0.4.4/gRc/R/rcox.R |only gRc-0.4.4/gRc/R/repair-K.R |only gRc-0.4.4/gRc/R/score-information4.R |only gRc-0.4.4/gRc/R/set-op.R |only gRc-0.4.4/gRc/R/testing-add1drop1.R |only gRc-0.4.4/gRc/R/testing-comparecc.R |only gRc-0.4.4/gRc/R/testing-misc.R |only gRc-0.4.4/gRc/R/testing-split1join1.R |only gRc-0.4.4/gRc/R/testing-stepwise.R |only gRc-0.4.4/gRc/R/update.R |only gRc-0.4.4/gRc/R/utility4.R | 294 ++++++++++------- gRc-0.4.4/gRc/R/vcov.R |only gRc-0.4.4/gRc/R/xxx2yyy.R | 253 ++++++++------ gRc-0.4.4/gRc/R/zzz-generating-class.R |only gRc-0.4.4/gRc/inst/CITATION | 4 gRc-0.4.4/gRc/inst/include |only gRc-0.4.4/gRc/man/add1-drop1.Rd |only gRc-0.4.4/gRc/man/clever-trace.Rd |only gRc-0.4.4/gRc/man/coerce-parm.Rd |only gRc-0.4.4/gRc/man/comparecc.Rd | 95 ++--- gRc-0.4.4/gRc/man/fit-doc.Rd |only gRc-0.4.4/gRc/man/fit-main.Rd |only gRc-0.4.4/gRc/man/generating-class.Rd |only gRc-0.4.4/gRc/man/get-slot.Rd |only gRc-0.4.4/gRc/man/grc-summary.Rd |only gRc-0.4.4/gRc/man/internal.Rd | 155 -------- gRc-0.4.4/gRc/man/join-split.Rd |only gRc-0.4.4/gRc/man/rcox.Rd | 130 ++++--- gRc-0.4.4/gRc/man/score-information.Rd |only gRc-0.4.4/gRc/man/set-op.Rd |only gRc-0.4.4/gRc/man/step.Rd |only gRc-0.4.4/gRc/man/update-doc.Rd |only gRc-0.4.4/gRc/man/xxx2yyy.Rd |only gRc-0.4.4/gRc/src/RcppExports.cpp |only gRc-0.4.4/gRc/src/ct.cpp |only gRc-0.4.4/gRc/src/init.c | 30 - 92 files changed, 613 insertions(+), 630 deletions(-)
Title: Complex Split Procedures in Random Forests Through Candidate
Split Sampling
Description: Implements interaction forests [1], which are specific diversity forests, and
the basic form of diversity forests that uses univariable, binary splitting [2].
Interaction forests (IFs) are ensembles of decision trees that model quantitative and
qualitative interaction effects using bivariable splitting. IFs come with the
Effect Importance Measure (EIM), which can be used to identify variable pairs that
feature quantitative and qualitative interaction effects with high predictive
relevance. IFs and EIM focus on well interpretable forms of interactions.
The package also offers plot functions for visualising the estimated forms of
interaction effects.
Categorical, metric, and survival outcomes are supported.
This is a fork of the R package 'ranger' (main author: Marvin N. Wright) that
implements random forests using an efficient C++ implementation.
References:
[1] Hornung, R. & Boulesteix, A.-L. (2021) Interaction Forests: Identifying and
exploiting interpretable quantitative and qualitative interaction effects.
Technical Report No. 237, Department of Statistics, University of Munich
[2] Hornung, R. (2020) Diversity Forests: Using split sampling to allow for complex
split procedures in random forest. Technical Report No. 234, Department of Statistics,
University of Munich.
Author: Roman Hornung [aut, cre], Marvin N. Wright [ctb, cph]
Maintainer: Roman Hornung <hornung@ibe.med.uni-muenchen.de>
Diff between diversityForest versions 0.3.0 dated 2021-04-01 and 0.3.1 dated 2021-04-03
diversityForest-0.3.0/diversityForest/NEWS |only diversityForest-0.3.1/diversityForest/DESCRIPTION | 8 - diversityForest-0.3.1/diversityForest/MD5 | 26 ++--- diversityForest-0.3.1/diversityForest/build/partial.rdb |binary diversityForest-0.3.1/diversityForest/inst/NEWS.Rd |only diversityForest-0.3.1/diversityForest/src/Forest.cpp | 8 - diversityForest-0.3.1/diversityForest/src/Tree.cpp | 52 ++++------ diversityForest-0.3.1/diversityForest/src/TreeClassification.cpp | 19 --- diversityForest-0.3.1/diversityForest/src/TreeClassification.h | 2 diversityForest-0.3.1/diversityForest/src/TreeProbability.cpp | 15 -- diversityForest-0.3.1/diversityForest/src/TreeProbability.h | 2 diversityForest-0.3.1/diversityForest/src/TreeRegression.cpp | 34 +----- diversityForest-0.3.1/diversityForest/src/TreeRegression.h | 2 diversityForest-0.3.1/diversityForest/src/TreeSurvival.cpp | 5 diversityForest-0.3.1/diversityForest/src/TreeSurvival.h | 2 15 files changed, 65 insertions(+), 110 deletions(-)
More information about diversityForest at CRAN
Permanent link
Title: Importing and Analysing SNP and Silicodart Data Generated by
Genome-Wide Restriction Fragment Analysis
Description: Functions are provided that facilitate the import and analysis of
SNP (single nucleotide polymorphism) and silicodart (presence/absence) data. The main focus is on data generated
by DarT (Diversity Arrays Technology). However, once SNP or related fragment
presence/absence data from any source is imported into a genlight object many
of the functions can be used. Functions are available for input and output of
SNP and silicodart data, for reporting on and filtering on various criteria
(e.g. CallRate, Heterozygosity, Reproducibility, maximum allele frequency).
Advanced filtering is based on Linkage Disequilibrium and HWE (Hardy-Weinberg equilibrium). Other functions
are available for visualization after PCoA (Principle Coordinate Analysis), or to facilitate transfer of data
between genlight/genind objects and newhybrids, related, phylip, structure, faststructure packages.
Author: Bernd Gruber [aut, cre],
Arthur Georges [aut],
Jose L. Mijangos [aut],
Peter J. Unmack [ctb],
Oliver Berry [ctb],
Lindsay V. Clark [ctb],
Floriaan Devloo-Delva [ctb]
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Diff between dartR versions 1.8.3 dated 2020-09-01 and 1.9.1 dated 2021-04-03
DESCRIPTION | 19 ++++--- MD5 | 77 ++++++++++++++++------------- NAMESPACE | 14 +++-- R/gl.dist.ind.r | 84 +++++++++----------------------- R/gl.filter.callrate.r | 12 ++-- R/gl.filter.locmetric.r |only R/gl.filter.overshoot.r | 7 ++ R/gl.filter.sexlinked.r | 2 R/gl.genleastcost.r | 13 +++-- R/gl.grm.r | 81 ++++++++++++++++++++----------- R/gl.ibd.r | 58 +++++++++++++++------- R/gl.pcoa.plot.3d.r | 85 ++++++++++++++++----------------- R/gl.pcoa.plot.r | 54 +++++++++++++++++++- R/gl.pcoa.r | 6 +- R/gl.plot.heatmap.r | 4 - R/gl.read.vcf.r | 56 ++++++++++----------- R/gl.recode.ind.r | 2 R/gl.recode.pop.r | 2 R/gl.report.hwe.r | 12 ++-- R/gl.report.locmetric.r |only R/gl.report.maf.r | 6 +- R/gl.report.parent.offspring.r | 18 ++++-- R/gl2bayescan.r | 28 ++++++++-- R/gl2hiphop.r |only R/utils.dart2genlight.r | 2 build/vignette.rds |binary inst/doc/IntroTutorial_dartR.R | 2 inst/doc/IntroTutorial_dartR.Rmd | 2 inst/doc/IntroTutorial_dartR.pdf |binary inst/doc/dartRTutorials.Rmd |only inst/doc/dartRTutorials.pdf |only man/gl.dist.ind.Rd | 18 +----- man/gl.filter.locmetric.Rd |only man/gl.grm.Rd | 17 +++--- man/gl.ibd.Rd | 4 - man/gl.pcoa.Rd | 6 +- man/gl.pcoa.plot.3d.Rd | 24 ++------- man/gl.pcoa.plot.Rd | 10 +++ man/gl.read.vcf.Rd | 14 +++-- man/gl.report.locmetric.Rd |only man/gl2hiphop.Rd |only man/util.outflank.MakeDiploidFSTMat.Rd | 42 ++++++++-------- vignettes/IntroTutorial_dartR.Rmd | 2 vignettes/dartRTutorials.Rmd |only 44 files changed, 433 insertions(+), 350 deletions(-)
Title: Bayesian Fertility Projection
Description: Making probabilistic projections of total fertility rate for all countries of the world, using a Bayesian hierarchical model.
Author: Hana Sevcikova (hanas@uw.edu), Leontine Alkema (alkema@nus.edu.sg), Peiran Liu (prliu@uw.edu), Adrian Raftery (raftery@uw.edu), Bailey Fosdick (bfosdick@uw.edu), Patrick Gerland (gerland@un.org)
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between bayesTFR versions 6.4-0 dated 2019-10-18 and 7.0-4 dated 2021-04-03
bayesTFR-6.4-0/bayesTFR/data/correlation_predictors.txt |only bayesTFR-6.4-0/bayesTFR/data/iso3166.R |only bayesTFR-6.4-0/bayesTFR/data/iso3166.txt |only bayesTFR-7.0-4/bayesTFR/ChangeLog | 30 bayesTFR-7.0-4/bayesTFR/DESCRIPTION | 18 bayesTFR-7.0-4/bayesTFR/MD5 | 77 +- bayesTFR-7.0-4/bayesTFR/NAMESPACE | 31 bayesTFR-7.0-4/bayesTFR/R/diagnostics.R | 170 ++++ bayesTFR-7.0-4/bayesTFR/R/get_outputs.R | 612 ++++++++++++---- bayesTFR-7.0-4/bayesTFR/R/mcmc3_sampling.R | 152 --- bayesTFR-7.0-4/bayesTFR/R/mcmc_ini.R | 262 ++++-- bayesTFR-7.0-4/bayesTFR/R/mcmc_likelihoods.R | 6 bayesTFR-7.0-4/bayesTFR/R/mcmc_sampling.R | 381 ++++++++- bayesTFR-7.0-4/bayesTFR/R/mcmc_storage.R | 105 ++ bayesTFR-7.0-4/bayesTFR/R/mcmc_update.R | 585 ++++++++------- bayesTFR-7.0-4/bayesTFR/R/plot_functions.R | 448 +++++++---- bayesTFR-7.0-4/bayesTFR/R/predict_tfr.R | 192 +++-- bayesTFR-7.0-4/bayesTFR/R/run_mcmc.R | 294 ++++++- bayesTFR-7.0-4/bayesTFR/R/run_mcmc3.R | 14 bayesTFR-7.0-4/bayesTFR/R/tfr_median_set_new.R |only bayesTFR-7.0-4/bayesTFR/R/updated_functions.R |only bayesTFR-7.0-4/bayesTFR/R/wpp_data.R | 116 ++- bayesTFR-7.0-4/bayesTFR/data/correlation_predictors.rda |only bayesTFR-7.0-4/bayesTFR/data/iso3166.rda |only bayesTFR-7.0-4/bayesTFR/data/rawTFR.rda |only bayesTFR-7.0-4/bayesTFR/inst/CITATION | 4 bayesTFR-7.0-4/bayesTFR/man/bayesTFR-internal.Rd | 1 bayesTFR-7.0-4/bayesTFR/man/bayesTFR-package.Rd | 19 bayesTFR-7.0-4/bayesTFR/man/get.est.model.Rd |only bayesTFR-7.0-4/bayesTFR/man/get.tfr.estimation.Rd |only bayesTFR-7.0-4/bayesTFR/man/get.thinned.tfr.mcmc.Rd | 5 bayesTFR-7.0-4/bayesTFR/man/include.Rd | 2 bayesTFR-7.0-4/bayesTFR/man/plot-trajectories.Rd | 7 bayesTFR-7.0-4/bayesTFR/man/predict-tfr.Rd | 11 bayesTFR-7.0-4/bayesTFR/man/run-mcmc.Rd | 52 - bayesTFR-7.0-4/bayesTFR/man/run.tfr.mcmc.extra.Rd | 46 - bayesTFR-7.0-4/bayesTFR/man/run.tfr3.mcmc.Rd | 7 bayesTFR-7.0-4/bayesTFR/man/tfr.estimation.plot.Rd |only bayesTFR-7.0-4/bayesTFR/man/tfr.median.set.all.Rd |only bayesTFR-7.0-4/bayesTFR/man/tfr.parameter.names.Rd | 3 bayesTFR-7.0-4/bayesTFR/man/tfr.predict.extra.Rd | 3 bayesTFR-7.0-4/bayesTFR/man/tfr_raw_data.Rd |only bayesTFR-7.0-4/bayesTFR/src/bayesTFR_init.c | 4 bayesTFR-7.0-4/bayesTFR/src/mcmc_likelihood.c | 4 bayesTFR-7.0-4/bayesTFR/tests/run_tests.R | 2 bayesTFR-7.0-4/bayesTFR/tests/test_functions.R | 126 +++ 46 files changed, 2692 insertions(+), 1097 deletions(-)
Title: PARAFAC Analysis of Fluorescence Excitation-Emission Matrices
Description: Perform parallel factor analysis (PARAFAC: Hitchcock, 1927)
<doi:10.1002/sapm192761164> on fluorescence excitation-emission
matrices (FEEMs): handle scattering signal and inner filter
effect, scale the dataset, fit the model; perform split-half
validation or jack-knifing. A modified approach called
"randomised split-half" is also available. The package has a low
dependency footprint (only two direct dependencies not in core
or recommended; four total non-core/recommended dependencies)
and has been tested on a wide range of R versions (including R
as old as 3.3.3 from Debian Stretch).
Author: Ivan Krylov [aut, cre],
Timur Labutin [ths]
Maintainer: Ivan Krylov <ikrylov@laser.chem.msu.ru>
Diff between albatross versions 0.3-0 dated 2021-03-26 and 0.3-1 dated 2021-04-03
DESCRIPTION | 8 ++++---- MD5 | 22 +++++++++++----------- R/feemlist.R | 20 ++++++-------------- R/import.R | 7 ++++++- build/partial.rdb |binary inst/NEWS.Rd | 23 +++++++++++++++++------ man/feemcube.Rd | 3 +-- man/feemlist.Rd | 4 ++-- man/feemparafac.Rd | 6 +++--- man/plot.feem.Rd | 2 +- man/write.openfluor.Rd | 6 ++++-- tests/feemlist.R | 21 +++++++++++++++------ 12 files changed, 70 insertions(+), 52 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-07-30 0.1.0
2016-03-31 0.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-09 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-02-14 1.4.7
2019-12-16 1.4.6
2016-09-07 1.4.5
2014-03-28 1.4.4
2013-08-05 1.4.3
2013-07-08 1.4.2
2013-07-01 1.4.1
2013-04-29 1.4.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2007-09-05 1.3
2007-03-30 1.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-04-24 2.3.0
2017-11-24 2.2.1
2014-09-08 2.2
2014-03-29 2.1
2014-03-03 2.0.3
Title: Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests
Description: Comprehensive open-source toolbox for analysing Spatial Point Patterns. Focused mainly on two-dimensional point patterns, including multitype/marked points, in any spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, point patterns on a linear network, and patterns of other geometrical objects. Supports spatial covariate data such as pixel images.
Contains over 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference.
Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks.
Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Monte Carlo, Diggle-Cressie-Loosmore-Ford, Dao-Genton, two-stage Monte Carlo) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov, ANOVA) are also supported.
Parametric models can be fitted to point pattern data using the functions ppm(), kppm(), slrm(), dppm() similar to glm(). Types of models include Poisson, Gibbs and Cox point processes, Neyman-Scott cluster processes, and determinantal point processes. Models may involve dependence on covariates, inter-point interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods.
A model can be fitted to a list of point patterns (replicated point pattern data) using the function mppm(). The model can include random effects and fixed effects depending on the experimental design, in addition to all the features listed above.
Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise(), AIC()) and variable selection (sdr). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.
Author: Adrian Baddeley [aut, cre],
Rolf Turner [aut],
Ege Rubak [aut]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat versions 2.0-1 dated 2021-03-13 and 2.1-0 dated 2021-04-03
DESCRIPTION | 17 ++--- MD5 | 28 ++++---- NEWS | 33 ++++++++++ inst/doc/Nickname.txt | 2 inst/doc/bugfixes.pdf |binary inst/doc/datasets.R | 147 ++++++++++++++++++++++++---------------------- inst/doc/datasets.Rnw | 11 +++ inst/doc/datasets.pdf |binary inst/doc/getstart.pdf |binary inst/doc/packagesizes.txt | 2 inst/doc/replicated.pdf |binary inst/doc/shapefiles.pdf |binary inst/doc/updates.pdf |binary man/spatstat-package.Rd | 4 + vignettes/datasets.Rnw | 11 +++ 15 files changed, 161 insertions(+), 94 deletions(-)
Title: Statistical Toolbox for Sedimentary Provenance Analysis
Description: Bundles a number of established statistical methods to facilitate the visual interpretation of large datasets in sedimentary geology. Includes functionality for adaptive kernel density estimation, principal component analysis, correspondence analysis, multidimensional scaling, generalised procrustes analysis and individual differences scaling using a variety of dissimilarity measures. Univariate provenance proxies, such as single-grain ages or (isotopic) compositions are compared with the Kolmogorov-Smirnov, Kuiper or Sircombe-Hazelton L2 distances. Categorical provenance proxies such as chemical compositions are compared with the Aitchison and Bray-Curtis distances, and point-counting data with the chi-square distance. Also included are tools to plot compositional and point-counting data on ternary diagrams and point-counting data on radial plots, to calculate the sample size required for specified levels of statistical precision, and to assess the effects of hydraulic sorting on detrital compositions. Includes an intuitive query-based user interface for users who are not proficient in R.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between provenance versions 3.0 dated 2021-02-24 and 3.2 dated 2021-04-03
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- data/Namib.rda |binary inst/PT.csv | 34 +++++++++++++++++----------------- man/indscal.Rd | 2 +- 5 files changed, 26 insertions(+), 26 deletions(-)
Title: Interface to 'TensorFlow' Datasets
Description: Interface to 'TensorFlow' Datasets, a high-level library for
building complex input pipelines from simple, re-usable pieces.
See <https://www.tensorflow.org/guide> for additional
details.
Author: Daniel Falbel [ctb, cph, cre],
JJ Allaire [aut, cph],
Yuan Tang [aut] (<https://orcid.org/0000-0001-5243-233X>),
Kevin Ushey [aut],
RStudio [cph, fnd],
Google Inc. [cph]
Maintainer: Daniel Falbel <daniel@rstudio.com>
Diff between tfdatasets versions 2.2.0 dated 2020-05-25 and 2.4.0 dated 2021-04-03
DESCRIPTION | 15 MD5 | 50 +- NAMESPACE | 3 NEWS.md | 6 R/dataset_methods.R | 3 R/feature_spec.R | 29 + R/input_fn.R | 2 R/package.R | 27 - README.md | 4 build/vignette.rds |binary inst/doc/feature_columns.R | 110 ++--- inst/doc/feature_columns.Rmd | 2 inst/doc/feature_columns.html | 404 +++++-------------- inst/doc/feature_spec.R | 126 +++--- inst/doc/feature_spec.html | 375 ++++-------------- inst/doc/introduction.Rmd | 10 inst/doc/introduction.html | 770 ++++++++++++++----------------------- man/feature_spec.Rd | 2 man/hearts.Rd | 6 man/input_fn.Rd | 2 man/next_batch.Rd | 2 man/reexports.Rd | 2 man/selectors.Rd | 4 tests/testthat/test-feature_spec.R | 45 ++ vignettes/feature_columns.Rmd | 2 vignettes/introduction.Rmd | 10 26 files changed, 741 insertions(+), 1270 deletions(-)
Title: Interface with Live Bikeshare Data
Description: Supplies a set of functions to interface with bikeshare data
following the General Bikeshare Feed Specification, allowing users to query
and accumulate tidy datasets for specified cities/bikeshare programs.
Author: Simon P. Couch [aut, cre],
Kaelyn Rosenberg [aut],
Mark Padgham [ctb]
Maintainer: Simon P. Couch <simonpatrickcouch@gmail.com>
Diff between gbfs versions 1.3.6 dated 2021-01-06 and 1.3.7 dated 2021-04-03
DESCRIPTION | 7 +++---- MD5 | 14 +++++++------- NEWS.md | 7 +++++++ R/get_static_feeds.R | 10 ---------- man/get_system_pricing_plans.Rd | 11 ----------- tests/testthat/test-static-feeds.R | 2 -- tests/testthat/test-utils.R | 2 +- tests/testthat/test-wrapper.R | 2 -- 8 files changed, 18 insertions(+), 37 deletions(-)
Title: Representation of DET Curve with Confidence Intervals
Description: Builds both ROC (Receiver Operating Characteristic) and DET (Detection Error Tradeoff) curves from a set of predictors, which are the
results of a binary classification system. The curves give a general vision of the performance of the classifier,
and are useful for comparing performance of different systems.
Author: García-Ródenas, Álvaro [aut, cre],
Franco, Manuel [aut],
Vivo, Juana-María [aut],
Fernández-Breis, Jesualdo T. [aut],
Font, Roberto [aut]
Maintainer: "García-Ródenas, Álvaro" <alvaro.garcia9@um.es>
Diff between DET versions 3.0.0 dated 2021-04-01 and 3.0.1 dated 2021-04-02
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/detc.R | 6 ++++-- man/detc.Rd | 3 ++- man/detc.ci.Rd | 3 ++- 5 files changed, 15 insertions(+), 11 deletions(-)
Title: Survey Sampling Procedures
Description: Sampling procedures from the book 'Stichproben - Methoden und praktische Umsetzung mit R' by Goeran Kauermann and Helmut Kuechenhoff (2010).
Author: Juliane Manitz [aut,cre], Mark Hempelmann [ctb], Goeran Kauermann [ctb], Helmut Kuechenhoff [aut], Shuai Shao [ctb], Cornelia Oberhauser [ctb], Nina Westerheide [ctb], Manuel Wiesenfarth [ctb]
Maintainer: Juliane Manitz <r@manitz.org>
Diff between samplingbook versions 1.2.2 dated 2017-05-22 and 1.2.4 dated 2021-04-02
DESCRIPTION | 26 +-- MD5 | 67 +++++---- R/Smean.R | 90 ++++++------ R/Sprop.R | 194 +++++++++++++------------- R/htestimate.R | 134 +++++++++--------- R/mbes.R | 328 ++++++++++++++++++++++----------------------- R/pps.sampling.R | 128 ++++++++--------- R/print.Smean.R | 22 +-- R/print.Sprop.R | 52 +++---- R/print.htestimate.R | 22 +-- R/print.mbes.R | 82 +++++------ R/print.pps.sampling.R | 34 ++-- R/print.sample.size.mean.R | 18 +- R/print.sample.size.prop.R | 18 +- R/print.stratamean.R | 24 +-- R/print.stratasize.R | 16 +- R/print.submean.R | 26 +-- R/sample.size.mean.R | 66 ++++----- R/sample.size.prop.R | 72 ++++----- R/stratamean.R | 192 +++++++++++++------------- R/stratasamp.R | 158 ++++++++++----------- R/stratasize.R | 100 ++++++------- R/submean.R | 212 ++++++++++++++--------------- README.md |only build |only inst |only man/stratamean.Rd | 94 ++++++------ man/stratasamp.Rd | 58 +++---- man/stratasize.Rd | 66 ++++----- man/submean.Rd | 98 ++++++------- man/tax.Rd | 66 ++++----- man/wage.Rd | 64 ++++---- tests |only vignettes |only 34 files changed, 1267 insertions(+), 1260 deletions(-)
Title: Measuring Information Flow Between Time Series with Shannon and
Renyi Transfer Entropy
Description: Measuring information flow between time series with Shannon and Rényi transfer entropy. See also Dimpfl and Peter (2013) <doi:10.1515/snde-2012-0044> and Dimpfl and Peter (2014) <doi:10.1016/j.intfin.2014.03.004> for theory and applications to financial time series. Additional references can be found in the theory part of the vignette.
Author: David Zimmermann [aut, cre],
Simon Behrendt [aut],
Thomas Dimpfl [aut],
Franziska Peter [aut]
Maintainer: David Zimmermann <david_j_zimmermann@hotmail.com>
Diff between RTransferEntropy versions 0.2.13 dated 2020-12-17 and 0.2.14 dated 2021-04-02
DESCRIPTION | 8 MD5 | 44 NAMESPACE | 38 R/RcppExports.R | 30 R/bootstrap_renyi.R | 4 R/bootstrap_shannon.R | 4 R/te_renyi.R | 7 R/te_shannon.R | 6 R/transfer_entropy.R | 2 README.md | 706 +++++-------- build/vignette.rds |binary inst/doc/transfer-entropy.R | 668 ++++++------- inst/doc/transfer-entropy.html | 1690 +++++++++++++-------------------- man/calc_ete.Rd | 226 ++-- man/calc_te.Rd | 222 ++-- man/coef.transfer_entropy.Rd | 72 - man/is.transfer_entropy.Rd | 40 man/print.transfer_entropy.Rd | 168 +-- man/set_quiet.Rd | 40 man/stocks.Rd | 52 - man/summary.transfer_entropy.Rd | 86 - man/transfer_entropy.Rd | 282 ++--- tests/testthat/test.transfer_entropy.R | 400 +++---- 23 files changed, 2179 insertions(+), 2616 deletions(-)
More information about RTransferEntropy at CRAN
Permanent link
Title: NHDPlus Tools
Description: Tools for traversing and working with National Hydrography Dataset Plus (NHDPlus) data. All methods implemented in 'nhdplusTools' are available in the NHDPlus documentation available from the US Environmental Protection Agency <https://www.epa.gov/waterdata/basic-information>.
Author: David Blodgett [aut, cre],
Mike Johnson [ctb] (<https://orcid.org/0000-0002-5288-8350>)
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between nhdplusTools versions 0.3.16 dated 2020-11-13 and 0.4.0 dated 2021-04-02
nhdplusTools-0.3.16/nhdplusTools/inst/extdata/new_hope.gpkg |only nhdplusTools-0.3.16/nhdplusTools/inst/extdata/new_hope_wbd.gpkg |only nhdplusTools-0.3.16/nhdplusTools/inst/extdata/petapsco_flowlines.gpkg |only nhdplusTools-0.3.16/nhdplusTools/inst/extdata/sample_natseamless.gpkg |only nhdplusTools-0.3.16/nhdplusTools/inst/extdata/walker.gpkg |only nhdplusTools-0.3.16/nhdplusTools/man/discover_nldi_navigation.Rd |only nhdplusTools-0.3.16/nhdplusTools/man/discover_nldi_sources.Rd |only nhdplusTools-0.4.0/nhdplusTools/DESCRIPTION | 19 nhdplusTools-0.4.0/nhdplusTools/MD5 | 165 +- nhdplusTools-0.4.0/nhdplusTools/NAMESPACE | 211 +- nhdplusTools-0.4.0/nhdplusTools/NEWS.md | 37 nhdplusTools-0.4.0/nhdplusTools/R/downloading_tools.R | 333 ++-- nhdplusTools-0.4.0/nhdplusTools/R/geoserver_tools.R |only nhdplusTools-0.4.0/nhdplusTools/R/get_geometry.R | 95 - nhdplusTools-0.4.0/nhdplusTools/R/get_hydro.R |only nhdplusTools-0.4.0/nhdplusTools/R/get_network.R | 698 ++++----- nhdplusTools-0.4.0/nhdplusTools/R/get_nhdplus.R | 304 +--- nhdplusTools-0.4.0/nhdplusTools/R/get_nhdplushr.R | 719 +++++----- nhdplusTools-0.4.0/nhdplusTools/R/get_nldi.R | 563 +++---- nhdplusTools-0.4.0/nhdplusTools/R/get_paths.R | 233 ++- nhdplusTools-0.4.0/nhdplusTools/R/get_vaa.R |only nhdplusTools-0.4.0/nhdplusTools/R/index_nhdplus.R | 30 nhdplusTools-0.4.0/nhdplusTools/R/nhdplusTools.R | 535 +++---- nhdplusTools-0.4.0/nhdplusTools/R/plot_nhdplus.R | 27 nhdplusTools-0.4.0/nhdplusTools/R/prep_nhdplus.R | 282 ++- nhdplusTools-0.4.0/nhdplusTools/R/subset_nhdplus.R | 103 + nhdplusTools-0.4.0/nhdplusTools/README.md | 363 ++--- nhdplusTools-0.4.0/nhdplusTools/build/vignette.rds |binary nhdplusTools-0.4.0/nhdplusTools/inst/doc/nhdplusTools.R | 336 ++-- nhdplusTools-0.4.0/nhdplusTools/inst/doc/nhdplusTools.Rmd | 702 ++++----- nhdplusTools-0.4.0/nhdplusTools/inst/doc/nhdplusTools.html | 674 ++++----- nhdplusTools-0.4.0/nhdplusTools/inst/doc/nhdplushr.R | 191 +- nhdplusTools-0.4.0/nhdplusTools/inst/doc/nhdplushr.Rmd | 381 ++--- nhdplusTools-0.4.0/nhdplusTools/inst/doc/nhdplushr.html | 507 +++---- nhdplusTools-0.4.0/nhdplusTools/inst/doc/plot_nhdplus.R | 274 +-- nhdplusTools-0.4.0/nhdplusTools/inst/doc/plot_nhdplus.Rmd | 28 nhdplusTools-0.4.0/nhdplusTools/inst/doc/plot_nhdplus.html | 534 ++----- nhdplusTools-0.4.0/nhdplusTools/inst/doc/point_indexing.R | 250 +-- nhdplusTools-0.4.0/nhdplusTools/inst/doc/point_indexing.Rmd | 416 ++--- nhdplusTools-0.4.0/nhdplusTools/inst/doc/point_indexing.html | 526 +++---- nhdplusTools-0.4.0/nhdplusTools/inst/extdata/new_hope_data.R | 43 nhdplusTools-0.4.0/nhdplusTools/inst/extdata/nhdplushr_data.R | 66 nhdplusTools-0.4.0/nhdplusTools/inst/extdata/sample_data.R |only nhdplusTools-0.4.0/nhdplusTools/inst/extdata/sample_flines.R |only nhdplusTools-0.4.0/nhdplusTools/inst/extdata/utils.R |only nhdplusTools-0.4.0/nhdplusTools/inst/extdata/walker_data.R | 33 nhdplusTools-0.4.0/nhdplusTools/man/discover_nhdplus_id.Rd | 64 nhdplusTools-0.4.0/nhdplusTools/man/discover_nldi_characteristics.Rd | 4 nhdplusTools-0.4.0/nhdplusTools/man/download_vaa.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/download_wbd.Rd | 62 nhdplusTools-0.4.0/nhdplusTools/man/get_DD.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_DM.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_UM.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_UT.Rd | 4 nhdplusTools-0.4.0/nhdplusTools/man/get_flowline_index.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_gagesII.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_huc12.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_huc8.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_levelpaths.Rd | 110 - nhdplusTools-0.4.0/nhdplusTools/man/get_nhdarea.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_nhdplus.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_nhdplushr.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_nldi_basin.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_nldi_characteristics.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_nldi_feature.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/get_node.Rd | 7 nhdplusTools-0.4.0/nhdplusTools/man/get_nwis.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_vaa.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_vaa_names.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_vaa_path.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_waterbodies.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/get_waterbody_index.Rd | 8 nhdplusTools-0.4.0/nhdplusTools/man/navigate_nldi.Rd | 18 nhdplusTools-0.4.0/nhdplusTools/man/plot_nhdplus.Rd | 3 nhdplusTools-0.4.0/nhdplusTools/man/prepare_nhdplus.Rd | 9 nhdplusTools-0.4.0/nhdplusTools/man/query_usgs_geoserver.Rd |only nhdplusTools-0.4.0/nhdplusTools/man/stage_national_data.Rd | 6 nhdplusTools-0.4.0/nhdplusTools/man/subset_nhdplus.Rd | 301 ++-- nhdplusTools-0.4.0/nhdplusTools/man/subset_rpu.Rd | 4 nhdplusTools-0.4.0/nhdplusTools/tests/testthat/data/reweight_test.rds |only nhdplusTools-0.4.0/nhdplusTools/tests/testthat/helper.R | 36 nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_calc_network.R | 63 nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_get_functions.R |only nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_get_geometry.R | 44 nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_get_network.R | 521 +++---- nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_get_nhdplus.R | 131 - nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_get_nldi.R | 299 ++-- nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_get_path.R |only nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_get_vaa.R |only nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_index.R | 209 +- nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_nhdplusTools.R | 255 +-- nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_plot_nhdplus.R | 21 nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_subset.R | 689 ++++----- nhdplusTools-0.4.0/nhdplusTools/tests/testthat/test_wb_index.R | 90 - nhdplusTools-0.4.0/nhdplusTools/vignettes/nhdplusTools.Rmd | 702 ++++----- nhdplusTools-0.4.0/nhdplusTools/vignettes/nhdplushr.Rmd | 381 ++--- nhdplusTools-0.4.0/nhdplusTools/vignettes/plot_nhdplus.Rmd | 28 nhdplusTools-0.4.0/nhdplusTools/vignettes/point_indexing.Rmd | 416 ++--- 98 files changed, 7056 insertions(+), 7155 deletions(-)
Title: Multiple Imputation Using Weighted Quantile Sum Regression
Description: The miWQS package handles the uncertainty due to below the detection limit in a correlated component mixture problem. Researchers want to determine if a set/mixture of continuous and correlated components/chemicals is associated with an outcome and if so, which components are important in that mixture. These components share a common outcome but are interval-censored between zero and low thresholds, or detection limits, that may be different across the components. This package applies the multiple imputation (MI) procedure to the weighted quantile sum regression (WQS) methodology for continuous, binary, or count outcomes (Hargarten & Wheeler (2020) <doi:10.1016/j.envres.2020.109466>). The imputation models are: bootstrapping imputation (Lubin et.al (2004) <doi:10.1289/ehp.7199>), univariate Bayesian imputation (Hargarten & Wheeler (2020) <doi:10.1016/j.envres.2020.109466>), and multivariate Bayesian regression imputation.
Author: Paul M. Hargarten [aut, cre],
David C. Wheeler [aut, rev, ths]
Maintainer: Paul M. Hargarten <hargartenp@alumni.vcu.edu>
Diff between miWQS versions 0.4.2 dated 2021-01-21 and 0.4.4 dated 2021-04-02
DESCRIPTION | 14 ++--- MD5 | 14 ++--- NEWS.md | 21 +++++++- R/head_array.R | 2 R/impute_univariate_bayesian_imputation_stage1.R | 2 R/make_quantile_matrix_WQS.R | 57 +++++++++++++++++------ inst/WORDLIST | 5 -- inst/doc/README.pdf |binary 8 files changed, 80 insertions(+), 35 deletions(-)
Title: A 'HTTP' Server Graphics Device
Description: A graphics device for R that is accessible via network protocols.
This package was created to make it easier to embed live R graphics in
integrated development environments and other applications.
The included 'HTML/JavaScript' client (plot viewer) aims to provide a better overall user experience when dealing with R graphics.
The device asynchronously serves 'SVG' graphics via 'HTTP' and 'WebSockets'.
Author: Florian Rupprecht [aut, cre] (<https://orcid.org/0000-0002-1795-8624>),
Kun Ren [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Hadley Wickham [cph] (Author of included svglite code),
Lionel Henry [cph] (Author of included svglite code),
Thomas Lin Pedersen [cph] (Author and creator of included svglite code),
T Jake Luciani [cph] (Author of included svglite code),
Matthieu Decorde [cph] (Author of included svglite code),
Vaudor Lise [cph] (Author of included svglite code),
Tony Plate [cph] (Contributor to included svglite code),
David Gohel [cph] (Contributor to included svglite code),
Yixuan Qiu [cph] (Contributor to included svglite code),
Håkon Malmedal [cph] (Contributor to included svglite code),
RStudio [cph] (Copyright holder of included svglite code),
Brett Robinson [cph] (Author of included belle library),
Google [cph] (Copyright holder of included material design icons),
Victor Zverovich [cph] (Author of included fmt library)
Maintainer: Florian Rupprecht <floruppr@gmail.com>
Diff between httpgd versions 1.1.0 dated 2021-04-01 and 1.1.1 dated 2021-04-02
DESCRIPTION | 6 MD5 | 18 - NEWS.md | 5 R/httpgd.R | 7 build/vignette.rds |binary inst/doc/api-documentation.html | 530 ++++++++++++++++++++-------------------- inst/www/index.html | 11 inst/www/style.css | 6 man/hgd_url.Rd | 5 src/DrawData.cpp | 2 10 files changed, 314 insertions(+), 276 deletions(-)
Title: Prepare Reproducible Example Code via the Clipboard
Description: Convenience wrapper that uses the 'rmarkdown'
package to render small snippets of code to target formats that
include both code and output. The goal is to encourage the sharing of
small, reproducible, and runnable examples on code-oriented websites,
such as <https://stackoverflow.com> and <https://github.com>, or in
email. The user's clipboard is the default source of input code and
the default target for rendered output. 'reprex' also extracts clean,
runnable R code from various common formats, such as copy/paste from
an R session.
Author: Jennifer Bryan [aut, cre] (<https://orcid.org/0000-0002-6983-2759>),
Jim Hester [aut] (<https://orcid.org/0000-0002-2739-7082>),
David Robinson [aut],
Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>),
RStudio [cph, fnd]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between reprex versions 1.0.0 dated 2021-01-27 and 2.0.0 dated 2021-04-02
DESCRIPTION | 18 +- MD5 | 91 +++++++------ NEWS.md | 72 ++++++++++ R/aaa.R |only R/ensure.R | 6 R/highlight.R | 10 - R/prex.R | 30 +--- R/reprex-addin.R | 24 +-- R/reprex-locale.R | 13 + R/reprex-options.R | 7 - R/reprex-undo.R | 182 +++++++++++---------------- R/reprex.R | 101 +++++++-------- R/reprex_document.R | 147 +++++++++++---------- R/reprex_impl.R | 97 ++++++-------- R/reprex_render.R | 199 ++++++++++++++++++----------- R/sysdata.rda |only R/utils-clipboard.R |only R/utils-interactivity.R | 11 - R/utils-io.R | 228 +++++++++++++++++++++++++++------- R/utils-ui.R | 12 + R/utils.R | 58 ++------ README.md | 18 +- inst/WORDLIST | 5 inst/doc/reprex-dos-and-donts.html | 10 + man/reprex.Rd | 92 ++++++------- man/reprex_addin.Rd | 1 man/reprex_document.Rd | 10 - man/reprex_locale.Rd | 10 + man/reprex_options.Rd | 7 - man/un-reprex.Rd | 110 +++++++--------- tests/testthat.R | 2 tests/testthat/_snaps/input.md | 53 +++++++ tests/testthat/_snaps/rprofile.md |only tests/testthat/_snaps/utils-io.md |only tests/testthat/_snaps/utils-ui.md | 7 - tests/testthat/helper.R | 38 +---- tests/testthat/setup.R |only tests/testthat/test-env.R | 15 +- tests/testthat/test-filepaths.R | 59 +++++--- tests/testthat/test-input.R | 37 ++--- tests/testthat/test-outfiles.R | 140 ++++++++------------ tests/testthat/test-pandoc.R | 5 tests/testthat/test-reprex-addin.R |only tests/testthat/test-reprex_impl.R |only tests/testthat/test-reprex_render.R | 43 ++++++ tests/testthat/test-rprofile.R |only tests/testthat/test-undo.R | 40 +---- tests/testthat/test-utils-clipboard.R |only tests/testthat/test-utils-io.R |only tests/testthat/test-utils-ui.R | 5 tests/testthat/test-utils.R | 21 ++- vignettes/articles/rtf.Rmd | 2 52 files changed, 1159 insertions(+), 877 deletions(-)
Title: Analyze Group Patterns using Graph Theory in Educational
Settings
Description: Analyzes group patterns using discourse analysis data with graph theory mathematics. Takes the order of which individuals talk and converts it to a network edge and weight list. Returns the density, centrality, centralization, and subgroup information for each group. Based on the analytical framework laid out in Chai et al. (2019) <doi:10.1187/cbe.18-11-0222>.
Author: Albert Chai [aut],
Andrew Lee [aut],
Joshua Le [aut, cre],
Katherine Ly [ctb],
Kevin Banh [ctb],
Priya Pahal [ctb],
Stanley Lo [aut]
Maintainer: Joshua Le <jpl038@ucsd.edu>
Diff between discourseGT versions 1.1.4 dated 2021-02-17 and 1.1.5 dated 2021-04-02
DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- R/attributeData.R | 4 ++-- R/basicPlot.R | 26 ++++++++++++++++++++------ R/plotNGTData.R | 10 +--------- R/sampleData1.R | 4 ++-- data/attributeData.rda |binary data/sampleData1.rda |binary man/attributeData.Rd | 4 ++-- man/basicPlot.Rd | 11 +++++++---- man/sampleData1.Rd | 4 ++-- 11 files changed, 51 insertions(+), 42 deletions(-)
Title: 'RStudio' Addin for Editing a 'data.frame'
Description: An 'RStudio' addin for editing a 'data.frame' or a 'tibble'. You can delete, add or update a 'data.frame'
without coding. You can get resultant data as a 'data.frame'. In the package, modularized 'shiny' app codes are provided.
These modules are intended for reuse across applications.
Author: Keon-Woong Moon [aut, cre]
Maintainer: Keon-Woong Moon <cardiomoon@gmail.com>
Diff between editData versions 0.1.2 dated 2017-10-07 and 0.1.8 dated 2021-04-02
editData-0.1.2/editData/R/editableDT2.R |only editData-0.1.8/editData/DESCRIPTION | 12 - editData-0.1.8/editData/MD5 | 63 ++++--- editData-0.1.8/editData/NAMESPACE | 31 ++- editData-0.1.8/editData/NEWS.md | 51 +++++ editData-0.1.8/editData/R/editData.R |only editData-0.1.8/editData/R/editFiles.R |only editData-0.1.8/editData/R/editableDT.R |only editData-0.1.8/editData/R/myget.R |only editData-0.1.8/editData/R/textInput3.R | 24 ++ editData-0.1.8/editData/README.md | 19 +- editData-0.1.8/editData/build/vignette.rds |binary editData-0.1.8/editData/inst/doc/editData.R | 25 +- editData-0.1.8/editData/inst/doc/editData.Rmd | 20 +- editData-0.1.8/editData/inst/doc/editData.html | 207 +++++++++++++++-------- editData-0.1.8/editData/inst/example/app.R | 19 +- editData-0.1.8/editData/inst/multipleData/app.R | 26 +- editData-0.1.8/editData/inst/multipleFiles/app.R | 25 +- editData-0.1.8/editData/inst/multipleFiles2 |only editData-0.1.8/editData/man/editData.Rd | 6 editData-0.1.8/editData/man/editFiles.Rd |only editData-0.1.8/editData/man/editableDT.Rd | 15 - editData-0.1.8/editData/man/editableDTUI.Rd | 45 ++--- editData-0.1.8/editData/man/figures/1.png |binary editData-0.1.8/editData/man/figures/2.png |binary editData-0.1.8/editData/man/figures/3.png |binary editData-0.1.8/editData/man/figures/4.png |binary editData-0.1.8/editData/man/figures/5.png |binary editData-0.1.8/editData/man/figures/6.png |binary editData-0.1.8/editData/man/figures/7.png |only editData-0.1.8/editData/man/file2ext.Rd |only editData-0.1.8/editData/man/myget.Rd |only editData-0.1.8/editData/man/myimport.Rd |only editData-0.1.8/editData/man/numericInput3.Rd | 12 + editData-0.1.8/editData/man/pickerInput3.Rd |only editData-0.1.8/editData/man/radioButtons3.Rd | 12 + editData-0.1.8/editData/man/sampleData.Rd | 6 editData-0.1.8/editData/man/selectizeInput3.Rd |only editData-0.1.8/editData/vignettes/editData.Rmd | 20 +- 39 files changed, 425 insertions(+), 213 deletions(-)
Title: Manipulation of Microsoft Word and PowerPoint Documents
Description: Access and manipulate 'Microsoft Word' and 'Microsoft PowerPoint' documents from R.
The package focuses on tabular and graphical reporting from R; it also provides two functions
that let users get document content into data objects. A set of functions
lets add and remove images, tables and paragraphs of text in new or existing documents.
The package does not require any installation of Microsoft products to be able to write Microsoft
files.
Author: David Gohel [aut, cre],
Frank Hangler [ctb] (function body_replace_all_text),
Liz Sander [ctb] (several documentation fixes),
Anton Victorson [ctb] (fixes xml structures),
Jon Calder [ctb] (update vignettes),
John Harrold [ctb] (function annotate_base),
John Muschelli [ctb] (google doc compatibility)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between officer versions 0.3.17 dated 2021-03-05 and 0.3.18 dated 2021-04-02
DESCRIPTION | 7 ++---- MD5 | 12 +++++----- NEWS.md | 9 +++++++ R/docx_section.R | 57 +++++++++++++++++++++++++++++++++++++++----------- R/ooxml_run_objects.R | 2 - R/utils.R | 4 +-- man/run_autonum.Rd | 2 - 7 files changed, 67 insertions(+), 26 deletions(-)
Title: List Comprehension for R
Description: Syntactic shortcuts for creating synthetic lists, vectors, and
data frames using list comprehension.
Author: Patrick Roocks <mail@p-roocks.de>
Maintainer: Patrick Roocks <mail@p-roocks.de>
Diff between listcompr versions 0.1.0 dated 2021-01-13 and 0.2.0 dated 2021-04-02
DESCRIPTION | 11 -- MD5 | 24 ++-- NAMESPACE | 1 NEWS.md | 10 + R/gen-list.r | 154 ++++++++++++++++++++++------- README.md | 6 - inst/doc/introduction.R | 18 ++- inst/doc/introduction.Rmd | 48 ++++++--- inst/doc/introduction.html | 234 +++++++++++++++++++++++++++++++++------------ man/gen.list.Rd | 35 ++++-- man/gen.list.char.Rd | 2 tests/testthat/testbase.r | 33 +++++- vignettes/introduction.Rmd | 48 ++++++--- 13 files changed, 445 insertions(+), 179 deletions(-)
Title: Historical and Ahistorical Population Projection Matrix Analysis
Description: Creates matrix population models for use in population ecological
analyses. Specializes on the construction of historical matrices,
which are 2d matrices comprising 3 consecutive times of demographic
information. Estimates both raw and function-based forms of
historical and standard ahistorical matrices. It also estimates
function-based age-by-stage matrices. Methodology based on Ehrlen
(2000) <doi:10.1890/0012-9658(2000)081[1675:TDOPPD]2.0.CO;2>.
Author: Richard P. Shefferson [aut, cre]
(<https://orcid.org/0000-0002-5234-3131>),
Johan Ehrlen [aut] (<https://orcid.org/0000-0001-8539-8967>)
Maintainer: Richard P. Shefferson <cdorm@g.ecc.u-tokyo.ac.jp>
Diff between lefko3 versions 3.3.2 dated 2021-02-26 and 3.4.0 dated 2021-04-02
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Title: Hierarchical Climate Regionalization
Description: A tool for Hierarchical Climate Regionalization applicable to any correlation-based clustering.
It adds several features and a new clustering method (called, 'regional' linkage) to hierarchical
clustering in R ('hclust' function in 'stats' library): data regridding, coarsening spatial resolution,
geographic masking, contiguity-constrained clustering, data filtering by mean and/or variance
thresholds, data preprocessing (detrending, standardization, and PCA), faster correlation function
with preliminary big data support, different clustering methods, hybrid hierarchical clustering,
multivariate clustering (MVC), cluster validation, visualization of regionalization results, and
exporting region map and mean timeseries into NetCDF-4 file.
The technical details are described in Badr et al. (2015) <doi:10.1007/s12145-015-0221-7>.
Author: Hamada S. Badr [aut, cre] (<https://orcid.org/0000-0002-9808-2344>),
Benjamin F. Zaitchik [aut] (<https://orcid.org/0000-0002-0698-0658>),
Amin K. Dezfuli [aut] (<https://orcid.org/0000-0003-3274-8542>)
Maintainer: Hamada S. Badr <badr@jhu.edu>
Diff between HiClimR versions 2.1.8 dated 2021-01-05 and 2.1.9 dated 2021-04-02
DESCRIPTION | 12 +- MD5 | 18 ++-- NAMESPACE | 24 +++-- NEWS.md | 8 + R/HiClimR.R | 8 + README.md | 66 +++++++-------- build/partial.rdb |binary build/vignette.rds |binary inst/WORDLIST | 12 ++ inst/doc/BugReports.html | 206 +---------------------------------------------- 10 files changed, 97 insertions(+), 257 deletions(-)
Title: Authenticate and Create Google APIs
Description: Create R functions that interact with OAuth2 Google APIs
<https://developers.google.com/apis-explorer/> easily,
with auto-refresh and Shiny compatibility.
Author: Mark Edmondson [aut, cre] (<https://orcid.org/0000-0002-8434-3881>),
Jennifer Bryan [ctb],
Johann deBoer [ctb],
Neal Richardson [ctb],
David Kulp [ctb],
Joe Cheng [ctb]
Maintainer: Mark Edmondson <m@sunholo.com>
Diff between googleAuthR versions 1.3.1 dated 2020-12-05 and 1.4.0 dated 2021-04-02
DESCRIPTION | 11 MD5 | 47 - NEWS.md | 8 R/auto_auth.R | 31 R/batch.R | 259 ++++---- R/generator.R | 3 R/memoise.R | 17 R/new_batch.R |only R/options.R | 2 R/service_creation.R | 40 + R/set_client.R | 2 R/setup_wizard.R | 29 R/setup_wizard_auth.R | 36 - README.md | 8 inst/doc/advanced-building.html | 650 +++++++------------- inst/doc/building.html | 660 +++++++-------------- inst/doc/google-authentication-types.Rmd | 52 - inst/doc/google-authentication-types.html | 932 ++++++++++++------------------ inst/doc/setup.html | 230 ------- inst/doc/troubleshooting.html | 240 ------- man/gar_auto_auth.Rd | 13 man/gar_batch.Rd | 4 man/gar_service_create.Rd | 23 man/gar_setup_auth_check.Rd | 7 vignettes/google-authentication-types.Rmd | 52 - 25 files changed, 1252 insertions(+), 2104 deletions(-)
Title: Methods for Calculating Gradient Surface Metrics
Description: Methods for calculating gradient surface metrics for
continuous analysis of landscape features.
Author: Annie C. Smith, Phoebe Zarnetske, Kyla Dahlin, Adam Wilson, Andrew Latimer
Maintainer: Annie C. Smith <annie.smith@dnr.wa.gov>
Diff between geodiv versions 1.0.0 dated 2021-03-30 and 1.0.1 dated 2021-04-02
DESCRIPTION | 9 ++++----- MD5 | 18 +++++++++--------- NEWS.md | 6 +++++- R/movingwindow.R | 4 ++-- R/utilities.R | 2 +- README.md | 5 +++++ inst/doc/geodiv_vignette.Rmd | 30 +++++++++++++++++++++--------- inst/doc/geodiv_vignette.html | 29 ++++++++++++++++++----------- man/bestfitplane.Rd | 2 +- vignettes/geodiv_vignette.Rmd | 30 +++++++++++++++++++++--------- 10 files changed, 87 insertions(+), 48 deletions(-)
Title: Recurrent Event Data Analysis
Description: Contains implementations of recurrent event data analysis routines
including (1) survival and recurrent event data simulation from
stochastic process point of view by the thinning method
proposed by Lewis and Shedler (1979) <doi:10.1002/nav.3800260304>
and the inversion method introduced in Cinlar (1975, ISBN:978-0486497976),
(2) the mean cumulative function (MCF) estimation by the
Nelson-Aalen estimator of the cumulative hazard rate function,
(3) two-sample recurrent event responses comparison with the pseudo-score
tests proposed by Lawless and Nadeau (1995) <doi:10.2307/1269617>,
(4) gamma frailty model with spline rate function following
Fu, et al. (2016) <doi:10.1080/10543406.2014.992524>.
Author: Wenjie Wang [aut, cre] (<https://orcid.org/0000-0003-0363-3180>),
Haoda Fu [aut],
Sy Han (Steven) Chiou [ctb],
Jun Yan [ctb] (<https://orcid.org/0000-0003-4401-7296>)
Maintainer: Wenjie Wang <wang@wwenjie.org>
Diff between reda versions 0.5.2 dated 2020-07-08 and 0.5.3 dated 2021-04-02
DESCRIPTION | 13 MD5 | 91 +- NAMESPACE | 2 NEWS.md | 14 R/RcppExports.R | 21 R/Recur.R | 288 +++--- R/Survr.R | 2 R/aic.R | 2 R/baseline.R | 2 R/class.R | 40 R/coef.R | 2 R/data.R | 2 R/mcf-formula.R | 14 R/mcf-generic.R | 2 R/mcf-rateReg.R | 2 R/mcfDiff.R | 2 R/misc.R | 8 R/plot.R | 2 R/rateReg.R | 6 R/reda.R | 2 R/show.R | 28 R/simEvent.R | 2 R/summary.R | 41 R/zzz.R | 2 README.md | 47 - build/vignette.rds |binary inst/CITATION | 4 inst/doc/reda-Recur.R | 4 inst/doc/reda-Recur.Rmd | 8 inst/doc/reda-Recur.html | 1377 +-------------------------------- inst/doc/reda-intro.html | 1414 +--------------------------------- inst/doc/reda-simulate.html | 1414 +--------------------------------- inst/include/reda.h | 2 inst/include/reda/Process.h | 2 inst/include/reda/nonparametric_mcf.h | 2 inst/include/reda/utils.h | 2 inst/tinytest/test_Recur.R | 8 man/Recur-class.Rd | 6 man/check_Recur.Rd | 2 man/show-method.Rd | 3 man/summary-Recur-method.Rd |only man/summary.Recur-class.Rd |only src/RcppExports.cpp | 29 src/nonparametric_mcf.cpp | 2 src/relativeRisk.cpp | 2 src/utils.cpp |only tests/tinytest.R | 2 vignettes/reda-Recur.Rmd | 8 48 files changed, 618 insertions(+), 4310 deletions(-)
Title: UCA Rcmdr Plug-in
Description: Some extensions to Rcmdr (R Commander), randomness test,
variance test for one normal sample and predictions using active model,
made by R-UCA project and used in teaching statistics at University of Cadiz (UCA).
Author: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Maintainer: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Diff between RcmdrPlugin.UCA versions 4.4-2 dated 2021-04-01 and 4.4-3 dated 2021-04-02
ChangeLog | 2 +- DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- R/qualitycontrol.R | 6 +++--- inst/doc/additions.html | 4 ++-- inst/doc/adiciones.html | 4 ++-- inst/etc/menus.txt | 7 ++++--- man/RcmdrPlugin.UCA-package.Rd | 2 +- man/RcmdrPlugin.UCA.es-package.Rd | 2 +- 9 files changed, 27 insertions(+), 26 deletions(-)
More information about RcmdrPlugin.UCA at CRAN
Permanent link
Title: Multivariate Generalized Kernel Smoothing and Related
Statistical Methods
Description: Probability mass functions (PMFs), probability density functions (PDFs), cumulative distribution functions (CDFs) and quantile functions, mainly via (optionally bounded/truncated) kernel smoothing. In the continuous case, there's support for univariate, multivariate and conditional distributions, including distributions that are both multivariate and conditional. These generalize methods from the book "Kernel Smoothing", Wand and Jones (1995). Also, supports categorical distributions, mixed conditional distributions (with mixed input types) and smooth empirical-like distributions, some of which, can be used for statistical classification. There are extensions for computing distance matrices (between distributions), multivariate probabilities, multivariate random numbers, moment-based statistics and mode estimates.
Author: Abby Spurdle
Maintainer: Abby Spurdle <spurdle.a@gmail.com>
Diff between probhat versions 0.3.1 dated 2020-07-14 and 0.4.0 dated 2021-04-02
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probhat-0.4.0/probhat/R/y_dataprep.r | 18 probhat-0.4.0/probhat/build/vignette.rds |binary probhat-0.4.0/probhat/inst/doc/probhat.R | 244 +++-- probhat-0.4.0/probhat/inst/doc/probhat.Rnw | 312 ++----- probhat-0.4.0/probhat/inst/doc/probhat.pdf |binary probhat-0.4.0/probhat/inst/doc/probhatx_kernels.R |only probhat-0.4.0/probhat/inst/doc/probhatx_kernels.Rnw |only probhat-0.4.0/probhat/inst/doc/probhatx_kernels.pdf |only probhat-0.4.0/probhat/man/00_kernels.Rd |only probhat-0.4.0/probhat/man/01_bridging_functions.Rd |only probhat-0.4.0/probhat/man/10_is_functions.Rd |only probhat-0.4.0/probhat/man/11_names_methods.Rd |only probhat-0.4.0/probhat/man/12_succinct_constructors.Rd |only probhat-0.4.0/probhat/man/20_discrete_kernel_smoothing.Rd |only probhat-0.4.0/probhat/man/21_continuous_kernel_smoothing.Rd |only probhat-0.4.0/probhat/man/22_categorical_distributions.Rd |only probhat-0.4.0/probhat/man/23_mixed_conditional.Rd |only probhat-0.4.0/probhat/man/24_empirical-like_distributions.Rd |only probhat-0.4.0/probhat/man/30_bandwidth_selection.Rd |only probhat-0.4.0/probhat/man/31_distribution_sets.Rd |only probhat-0.4.0/probhat/man/40_as_methods.Rd |only probhat-0.4.0/probhat/man/41_print_methods.Rd |only probhat-0.4.0/probhat/man/42_kernel_plot_methods.Rd |only probhat-0.4.0/probhat/man/43_model_plot_methods.Rd |only probhat-0.4.0/probhat/man/44_other_plot_methods.Rd |only probhat-0.4.0/probhat/man/45_range_and_sequence_methods.Rd |only probhat-0.4.0/probhat/man/50_duv_plotting_functions.Rd |only probhat-0.4.0/probhat/man/51_cuv_plotting_functions.Rd |only probhat-0.4.0/probhat/man/52_cmv_plotting_functions.Rd |only probhat-0.4.0/probhat/man/53_pairwise_kernel_arrays.Rd |only probhat-0.4.0/probhat/man/60_distance_matrices.Rd |only probhat-0.4.0/probhat/man/61_main_multivariate_probabilities.Rd |only probhat-0.4.0/probhat/man/62_other_multivariate_probabilities.Rd |only probhat-0.4.0/probhat/man/63_probability_matrices.Rd |only probhat-0.4.0/probhat/man/64_random_number_generation.Rd |only probhat-0.4.0/probhat/man/70_moment-based_statistics.Rd |only probhat-0.4.0/probhat/man/71_quantile-based_summaries.Rd |only probhat-0.4.0/probhat/man/72_quantile-based_statistics.Rd |only probhat-0.4.0/probhat/man/73_mode_estimation.Rd |only probhat-0.4.0/probhat/man/80_mockup_function_objects.Rd |only probhat-0.4.0/probhat/man/90_global_options.Rd |only probhat-0.4.0/probhat/man/91_other_functions.Rd |only probhat-0.4.0/probhat/man/92_temp_and_deprecated.Rd |only probhat-0.4.0/probhat/vignettes/Makefile | 6 probhat-0.4.0/probhat/vignettes/probhat.Rnw | 312 ++----- probhat-0.4.0/probhat/vignettes/probhatx_kernels.Rnw |only 109 files changed, 1804 insertions(+), 1404 deletions(-)
Title: Geometric Morphometric Analyses of 2D/3D Landmark Data
Description: Read, manipulate, and digitize landmark data, generate shape
variables via Procrustes analysis for points, curves and surfaces, perform
shape analyses, and provide graphical depictions of shapes and patterns of
shape variation.
Author: Dean Adams [aut, cre],
Michael Collyer [aut],
Antigoni Kaliontzopoulou [aut],
Erica Baken [aut]
Maintainer: Dean Adams <dcadams@iastate.edu>
Diff between geomorph versions 3.3.2 dated 2021-01-12 and 4.0.0 dated 2021-04-02
geomorph-3.3.2/geomorph/R/plotGMPhyloMorphoSpace.r |only geomorph-3.3.2/geomorph/R/plotTangentSpace.r |only geomorph-3.3.2/geomorph/man/plotGMPhyloMorphoSpace.Rd |only geomorph-3.3.2/geomorph/man/plotTangentSpace.Rd |only geomorph-4.0.0/geomorph/DESCRIPTION | 13 geomorph-4.0.0/geomorph/MD5 | 62 geomorph-4.0.0/geomorph/NAMESPACE | 9 geomorph-4.0.0/geomorph/NEWS.md | 13 geomorph-4.0.0/geomorph/R/bilat.symmetry.r | 138 +- geomorph-4.0.0/geomorph/R/compare.evol.rates.r | 2 geomorph-4.0.0/geomorph/R/compare.multi.evol.rates.r | 2 geomorph-4.0.0/geomorph/R/deprecated.defunct.r | 14 geomorph-4.0.0/geomorph/R/geomorph.support.code.r | 895 +++++++++----- geomorph-4.0.0/geomorph/R/geomorph.utils.r | 41 geomorph-4.0.0/geomorph/R/gm.prcomp.R | 1 geomorph-4.0.0/geomorph/R/gpagen.r | 144 +- geomorph-4.0.0/geomorph/R/integration.test.r | 2 geomorph-4.0.0/geomorph/R/make_ggplot.r |only geomorph-4.0.0/geomorph/R/phylo.integration.r | 11 geomorph-4.0.0/geomorph/R/physignal.r | 29 geomorph-4.0.0/geomorph/R/plotAllometry.r | 2 geomorph-4.0.0/geomorph/R/procD.lm.r | 43 geomorph-4.0.0/geomorph/R/shared.support.code.R | 3 geomorph-4.0.0/geomorph/inst/CITATION | 24 geomorph-4.0.0/geomorph/inst/doc/geomorph.PCA.html | 367 +---- geomorph-4.0.0/geomorph/inst/doc/geomorph.assistance.html | 646 +++------- geomorph-4.0.0/geomorph/inst/doc/geomorph.digitize3D.html | 232 --- geomorph-4.0.0/geomorph/inst/doc/geomorph.functions.html | 229 --- geomorph-4.0.0/geomorph/man/bilat.symmetry.Rd | 32 geomorph-4.0.0/geomorph/man/compare.evol.rates.Rd | 2 geomorph-4.0.0/geomorph/man/compare.multi.evol.rates.Rd | 2 geomorph-4.0.0/geomorph/man/gpagen.Rd | 53 geomorph-4.0.0/geomorph/man/make_ggplot.Rd |only geomorph-4.0.0/geomorph/man/procD.lm.Rd | 38 geomorph-4.0.0/geomorph/man/rotate.coords.Rd | 2 35 files changed, 1429 insertions(+), 1622 deletions(-)
Title: Get Images Out of DICOM Format Quickly
Description: Provides tools to sort DICOM-format medical image files, and
convert them to NIfTI-1 format.
Author: Jon Clayden [aut, cre] (<https://orcid.org/0000-0002-6608-0619>),
Chris Rorden [aut],
Martin J Fiedler [cph],
Cong Xu [cph],
Pascal Gloor [cph]
Maintainer: Jon Clayden <code@clayden.org>
Diff between divest versions 0.10.0 dated 2021-03-28 and 0.10.1 dated 2021-04-02
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 14 ++++++++++++++ README.md | 12 ++++++------ src/dcm2niix/nii_dicom_batch.cpp | 8 ++++---- 5 files changed, 32 insertions(+), 18 deletions(-)
Title: A Graphical EDA Tool
Description: An automated graphical exploratory data analysis (EDA) tool that introduces:
a.) wideplot() graphics for exploring the structure of a dataset through a grid of variables
and graphic types.
b.) longplot() graphics, which present the entire catalog of available graphics for representing
a particular variable using a grid of graphic types and variations on these types.
c.) plotup() function, which presents a particular graphic for a specific variable of a dataset.
The plotup() function also makes it possible to obtain the code used to generate the graphic,
meaning that the user can adjust its properties as needed.
Author: Pere Millán-Martínez [aut, cre],
Ramon Oller Piqué [ctb]
Maintainer: Pere Millán-Martínez <info@sciencegraph.org>
Diff between brinton versions 0.2.4 dated 2021-01-08 and 0.2.5 dated 2021-04-02
DESCRIPTION | 8 +++--- MD5 | 43 ++++++++++++++++++------------------ R/70_plotup.R | 9 +++++++ README.md | 2 - inst/CITATION |only inst/doc/brinton.R | 13 ++++++++++ inst/doc/brinton.Rmd | 19 +++++++++++++++ inst/doc/brinton.html | 16 +++++++++++-- inst/doc/specimen.html | 2 - vignettes/brinton.Rmd | 19 +++++++++++++++ vignettes/figures/2factor_03-1.png |binary vignettes/figures/2factor_04-1.png |binary vignettes/figures/2factor_08-1.png |binary vignettes/figures/2factor_13-1.png |binary vignettes/figures/2ordered_03-1.png |binary vignettes/figures/2ordered_04-1.png |binary vignettes/figures/2ordered_07-1.png |binary vignettes/figures/2ordered_10-1.png |binary vignettes/figures/fac-ord_04-1.png |binary vignettes/figures/fac-ord_05-1.png |binary vignettes/figures/fac-ord_09-1.png |binary vignettes/figures/fac-ord_14-1.png |binary vignettes/figures/numeric_18-1.png |binary 23 files changed, 101 insertions(+), 30 deletions(-)
Title: Binary Expansion Testing
Description: Nonparametric detection of nonuniformity and dependence with Binary Expansion Testing (BET). See Kai Zhang (2019) BET on Independence, Journal of the American Statistical Association, 114:528, 1620-1637, <DOI:10.1080/01621459.2018.1537921> and Zhigen Zhao, Michael Baiocchi, Kai Zhang. SorBET: A Fast and Powerful Algorithm to Test Dependence of Variables.
Author: Wan Zhang [aut, cre],
Zhigen Zhao [aut],
Michael Baiocchi [aut],
Kai Zhang [aut]
Maintainer: Wan Zhang <wanz63@live.unc.edu>
Diff between BET versions 0.3.4 dated 2021-03-21 and 0.3.5 dated 2021-04-02
DESCRIPTION | 6 +++--- MD5 | 6 +++--- build/partial.rdb |binary src/BET3.cpp | 16 ++++++++-------- 4 files changed, 14 insertions(+), 14 deletions(-)
Title: Bindings for Bayesian TidyModels
Description: Fit Bayesian models using 'brms'/'Stan' with 'parsnip'/'tidymodels'
via 'bayesian' <doi:10.5281/zenodo.4430991>. 'tidymodels' is a collection of
packages for machine learning; see Wickham (2020) <https://www.tidymodels.org>).
The technical details of 'brms' and 'Stan' are described in Bürkner (2017)
<doi:10.18637/jss.v080.i01>, Bürkner (2018) <doi:10.32614/RJ-2018-017>,
and Carpenter et al. (2017) <doi:10.18637/jss.v076.i01>.
Author: Hamada S. Badr [aut, cre] (<https://orcid.org/0000-0002-9808-2344>),
Paul C. Bürkner [aut]
Maintainer: Hamada S. Badr <badr@jhu.edu>
Diff between bayesian versions 0.0.2 dated 2021-01-14 and 0.0.3 dated 2021-04-02
DESCRIPTION | 22 ++- MD5 | 29 ++--- NAMESPACE | 5 NEWS.md | 9 + R/bayesian.R | 234 +++++++++++++++++++++++++++++++++++------ R/bayesian_init.R | 2 R/bayesian_make.R | 30 ++--- README.md | 24 +++- build/vignette.rds |binary inst/CITATION |only inst/WORDLIST | 6 + inst/doc/BugReports.html | 206 ------------------------------------ man/bayesian.Rd | 164 +++++++++++----------------- man/rmd/bayesian-engine.Rmd | 4 tests/spelling.R | 4 tests/testthat/test-bayesian.R | 5 16 files changed, 367 insertions(+), 377 deletions(-)
Title: Tidy Interface to 'data.table'
Description: A tidy interface to 'data.table' that is 'rlang' compatible,
giving users the speed of 'data.table' with the clean syntax of the tidyverse.
Author: Mark Fairbanks [aut, cre],
Tyson Barrett [ctb],
Ivan Leung [ctb],
Ross Kennedy [ctb],
Lionel Henry [ctb],
Matt Carlson [ctb],
Abdessabour Moutik [ctb]
Maintainer: Mark Fairbanks <mark.t.fairbanks@gmail.com>
Diff between tidytable versions 0.5.9 dated 2021-03-04 and 0.6.0 dated 2021-04-02
tidytable-0.5.9/tidytable/man/knit_print.tidytable.Rd |only tidytable-0.6.0/tidytable/DESCRIPTION | 14 - tidytable-0.6.0/tidytable/MD5 | 133 +++++----- tidytable-0.6.0/tidytable/NAMESPACE | 17 - tidytable-0.6.0/tidytable/NEWS.md | 33 ++ tidytable-0.6.0/tidytable/R/arrange.R | 28 -- tidytable-0.6.0/tidytable/R/arrange_across.R | 25 + tidytable-0.6.0/tidytable/R/c_across.R | 6 tidytable-0.6.0/tidytable/R/case.R | 13 tidytable-0.6.0/tidytable/R/complete.R | 10 tidytable-0.6.0/tidytable/R/crossing.R | 13 tidytable-0.6.0/tidytable/R/expand.R | 12 tidytable-0.6.0/tidytable/R/expand_grid.R | 5 tidytable-0.6.0/tidytable/R/filter.R | 31 +- tidytable-0.6.0/tidytable/R/if_all-if_any.R |only tidytable-0.6.0/tidytable/R/mutate.R | 67 ++--- tidytable-0.6.0/tidytable/R/mutate_across.R | 27 -- tidytable-0.6.0/tidytable/R/mutate_rowwise.R | 57 ---- tidytable-0.6.0/tidytable/R/n.R | 15 - tidytable-0.6.0/tidytable/R/nest.R | 2 tidytable-0.6.0/tidytable/R/pivot_longer.R | 130 ++++----- tidytable-0.6.0/tidytable/R/print.R | 18 - tidytable-0.6.0/tidytable/R/rename.R | 4 tidytable-0.6.0/tidytable/R/replace_na.R | 8 tidytable-0.6.0/tidytable/R/row_number.R | 8 tidytable-0.6.0/tidytable/R/separate.R | 2 tidytable-0.6.0/tidytable/R/separate_rows.R | 19 - tidytable-0.6.0/tidytable/R/slice.R | 122 ++++----- tidytable-0.6.0/tidytable/R/summarize.R | 44 --- tidytable-0.6.0/tidytable/R/summarize_across.R | 28 -- tidytable-0.6.0/tidytable/R/tidytable-package.R | 14 - tidytable-0.6.0/tidytable/R/tidytable.R | 13 tidytable-0.6.0/tidytable/R/uncount.R | 4 tidytable-0.6.0/tidytable/R/unite.R | 16 - tidytable-0.6.0/tidytable/R/utils-across.R | 61 ++-- tidytable-0.6.0/tidytable/R/utils-general.R | 86 ++++-- tidytable-0.6.0/tidytable/R/utils-prep_exprs.R |only tidytable-0.6.0/tidytable/README.md | 32 +- tidytable-0.6.0/tidytable/man/arrange..Rd | 10 tidytable-0.6.0/tidytable/man/arrange_across..Rd | 4 tidytable-0.6.0/tidytable/man/filter..Rd | 7 tidytable-0.6.0/tidytable/man/if_all..Rd |only tidytable-0.6.0/tidytable/man/mutate..Rd | 3 tidytable-0.6.0/tidytable/man/mutate_across..Rd | 16 - tidytable-0.6.0/tidytable/man/n..Rd | 13 tidytable-0.6.0/tidytable/man/reexports.Rd | 7 tidytable-0.6.0/tidytable/man/rename..Rd | 2 tidytable-0.6.0/tidytable/man/row_number..Rd | 6 tidytable-0.6.0/tidytable/man/slice..Rd | 9 tidytable-0.6.0/tidytable/man/summarize..Rd | 7 tidytable-0.6.0/tidytable/man/summarize_across..Rd | 12 tidytable-0.6.0/tidytable/man/tidytable.Rd | 2 tidytable-0.6.0/tidytable/tests/testthat/test-arrange.R | 15 + tidytable-0.6.0/tidytable/tests/testthat/test-arrange_across.R | 10 tidytable-0.6.0/tidytable/tests/testthat/test-bind.R | 2 tidytable-0.6.0/tidytable/tests/testthat/test-case_when.R | 12 tidytable-0.6.0/tidytable/tests/testthat/test-expand.R | 34 ++ tidytable-0.6.0/tidytable/tests/testthat/test-extract.R | 15 - tidytable-0.6.0/tidytable/tests/testthat/test-if_all-if_any.R |only tidytable-0.6.0/tidytable/tests/testthat/test-ifelse.R | 28 ++ tidytable-0.6.0/tidytable/tests/testthat/test-mutate.R | 19 + tidytable-0.6.0/tidytable/tests/testthat/test-mutate_across.R | 50 ++- tidytable-0.6.0/tidytable/tests/testthat/test-mutate_rowwise.R | 20 + tidytable-0.6.0/tidytable/tests/testthat/test-pivot_longer.R | 61 +++- tidytable-0.6.0/tidytable/tests/testthat/test-rename.R | 8 tidytable-0.6.0/tidytable/tests/testthat/test-replace_na.R | 18 - tidytable-0.6.0/tidytable/tests/testthat/test-summarize.R | 21 - tidytable-0.6.0/tidytable/tests/testthat/test-summarize_across.R | 23 + tidytable-0.6.0/tidytable/tests/testthat/test-tidytable.R | 7 tidytable-0.6.0/tidytable/tests/testthat/test-top_n.R | 8 70 files changed, 902 insertions(+), 664 deletions(-)
Title: Synthetic Experience Tracking Insurance Claims
Description: Creation of an individual claims simulator which generates various
features of non-life insurance claims. An initial set of test parameters,
designed to mirror the experience of an Auto Liability portfolio, were set
up and applied by default to generate a realistic test data set of
individual claims (see vignette). The simulated data set then allows
practitioners to back-test the validity of various reserving models and to
prove and/or disprove certain actuarial assumptions made in claims
modelling. The distributional assumptions used to generate this data set can
be easily modified by users to match their experiences. Reference: Avanzi B,
Taylor G, Wang M, Wong B (2020) "SynthETIC: an individual insurance claim
simulator with feature control" <arXiv:2008.05693>.
Author: Benjamin Avanzi [aut],
Greg Taylor [aut],
Melantha Wang [aut, cre],
Bernard Wong [aut]
Maintainer: Melantha Wang <wang.melantha@gmail.com>
Diff between SynthETIC versions 0.1.0 dated 2020-08-24 and 1.0.0 dated 2021-04-02
SynthETIC-0.1.0/SynthETIC/data/datalist |only SynthETIC-1.0.0/SynthETIC/DESCRIPTION | 13 SynthETIC-1.0.0/SynthETIC/MD5 | 58 SynthETIC-1.0.0/SynthETIC/NAMESPACE | 1 SynthETIC-1.0.0/SynthETIC/NEWS.md |only SynthETIC-1.0.0/SynthETIC/R/features_01_claim_occurrence.R | 70 SynthETIC-1.0.0/SynthETIC/R/features_02_claim_size.R | 84 SynthETIC-1.0.0/SynthETIC/R/features_03_claim_notification.R | 131 SynthETIC-1.0.0/SynthETIC/R/features_04_claim_closure.R | 147 SynthETIC-1.0.0/SynthETIC/R/features_05_claim_payment_count.R | 148 SynthETIC-1.0.0/SynthETIC/R/features_06_claim_payment_size.R | 136 SynthETIC-1.0.0/SynthETIC/R/features_07_claim_payment_time.R | 176 SynthETIC-1.0.0/SynthETIC/R/output.R | 50 SynthETIC-1.0.0/SynthETIC/R/to_SynthETIC.R |only SynthETIC-1.0.0/SynthETIC/build/vignette.rds |binary SynthETIC-1.0.0/SynthETIC/data/test_claim_dataset.rda |binary SynthETIC-1.0.0/SynthETIC/data/test_claims_object.rda |binary SynthETIC-1.0.0/SynthETIC/data/test_transaction_dataset.rda |binary SynthETIC-1.0.0/SynthETIC/inst/doc/SynthETIC-demo.R | 555 ++ SynthETIC-1.0.0/SynthETIC/inst/doc/SynthETIC-demo.Rmd | 755 ++- SynthETIC-1.0.0/SynthETIC/inst/doc/SynthETIC-demo.html | 1944 +++++----- SynthETIC-1.0.0/SynthETIC/man/SynthETIC-package.Rd | 8 SynthETIC-1.0.0/SynthETIC/man/claim_closure.Rd | 61 SynthETIC-1.0.0/SynthETIC/man/claim_frequency.Rd | 35 SynthETIC-1.0.0/SynthETIC/man/claim_notification.Rd | 59 SynthETIC-1.0.0/SynthETIC/man/claim_output.Rd | 9 SynthETIC-1.0.0/SynthETIC/man/claim_payment_delay.Rd | 51 SynthETIC-1.0.0/SynthETIC/man/claim_payment_no.Rd | 48 SynthETIC-1.0.0/SynthETIC/man/claim_payment_size.Rd | 54 SynthETIC-1.0.0/SynthETIC/man/claim_size.Rd | 31 SynthETIC-1.0.0/SynthETIC/man/to_SynthETIC.Rd |only SynthETIC-1.0.0/SynthETIC/vignettes/SynthETIC-demo.Rmd | 755 ++- 32 files changed, 3590 insertions(+), 1789 deletions(-)
Title: Import Financial Data from the 'SimFin' Project
Description: Uses the 'SimFin' (SIMmplifying FINnance) api at <https://simfin.com/data/access/api> to download financial data straight into your R session.
It includes financial statements -- balance sheet, cash flow and income statement -- and adjusted daily price of stocks.
The available data is comprehensive, going back to 2005 and available for quarters (Q1, Q2, Q3, Q4) and years (FY).
Author: Marcelo S. Perlin
Maintainer: Marcelo S. Perlin <marceloperlin@gmail.com>
Diff between simfinR versions 0.2.2 dated 2020-04-29 and 0.2.3 dated 2021-04-02
DESCRIPTION | 15 ++++++++------- MD5 | 8 ++++---- NEWS.md | 4 ++++ README.md | 16 +++++++++++++++- man/simfinR_get_single_fin_statement.Rd | 3 ++- 5 files changed, 33 insertions(+), 13 deletions(-)
Title: Bayesian and Classical Audit Sampling
Description: Implements the audit sampling workflow as discussed in Derks et al. (2019) <doi:10.31234/osf.io/9f6ub>. The package makes it easy for an auditor to plan an audit sample, sample from the population, and evaluating that sample using various confidence bounds according to the International Standards on Auditing. Furthermore, the package implements Bayesian equivalents of these methods.
Author: Koen Derks [aut, cre] (<https://orcid.org/0000-0002-5533-9349>)
Maintainer: Koen Derks <k.derks@nyenrode.nl>
Diff between jfa versions 0.5.1 dated 2021-03-02 and 0.5.2 dated 2021-04-02
jfa-0.5.1/jfa/tests/testthat/test-comparison-appendix-a.R |only jfa-0.5.1/jfa/tests/testthat/test-comparison-appendix-c.R |only jfa-0.5.1/jfa/tests/testthat/test-comparison-audit-sampler.R |only jfa-0.5.1/jfa/tests/testthat/test-function-auditPrior.R |only jfa-0.5.1/jfa/tests/testthat/test-function-evaluation.R |only jfa-0.5.1/jfa/tests/testthat/test-function-planning.R |only jfa-0.5.1/jfa/tests/testthat/test-function-selection.R |only jfa-0.5.1/jfa/tests/testthat/test-function-workflow.R |only jfa-0.5.1/jfa/tests/testthat/test-other.R |only jfa-0.5.2/jfa/DESCRIPTION | 8 jfa-0.5.2/jfa/MD5 | 61 jfa-0.5.2/jfa/NEWS.md | 7 jfa-0.5.2/jfa/R/auditPrior.R | 406 ++--- jfa-0.5.2/jfa/R/evaluation.R | 794 +++++------ jfa-0.5.2/jfa/R/hidden.R | 494 +++--- jfa-0.5.2/jfa/R/internal.R | 34 jfa-0.5.2/jfa/R/methods.R | 444 +++--- jfa-0.5.2/jfa/R/planning.R | 529 +++---- jfa-0.5.2/jfa/R/report.R | 34 jfa-0.5.2/jfa/R/selection.R | 259 +-- jfa-0.5.2/jfa/README.md | 240 +-- jfa-0.5.2/jfa/inst/CITATION | 6 jfa-0.5.2/jfa/inst/doc/jfa.html | 9 jfa-0.5.2/jfa/inst/doc/v1auditWorkflow.html | 9 jfa-0.5.2/jfa/inst/doc/v2priorDistributions.html | 9 jfa-0.5.2/jfa/inst/doc/v4testing.html | 9 jfa-0.5.2/jfa/man/auditPrior.Rd | 68 jfa-0.5.2/jfa/man/evaluation.Rd | 126 - jfa-0.5.2/jfa/man/planning.Rd | 70 jfa-0.5.2/jfa/man/report.Rd | 22 jfa-0.5.2/jfa/man/selection.Rd | 48 jfa-0.5.2/jfa/tests/testthat/test-consistency-auditPrior.R |only jfa-0.5.2/jfa/tests/testthat/test-consistency-evaluation.R |only jfa-0.5.2/jfa/tests/testthat/test-consistency-other.R |only jfa-0.5.2/jfa/tests/testthat/test-consistency-planning.R |only jfa-0.5.2/jfa/tests/testthat/test-consistency-selection.R |only jfa-0.5.2/jfa/tests/testthat/test-consistency-workflow.R |only jfa-0.5.2/jfa/tests/testthat/test-validation-appendix-a.R |only jfa-0.5.2/jfa/tests/testthat/test-validation-appendix-c.R |only jfa-0.5.2/jfa/tests/testthat/test-validation-audit-sampler.R |only jfa-0.5.2/jfa/tests/testthat/test-validation-touwhoogduin.R |only 41 files changed, 1864 insertions(+), 1822 deletions(-)
Title: Inspection, Comparison and Visualisation of Data Frames
Description: A collection of utilities for columnwise summary, comparison and visualisation of data frames. Functions report missingness, categorical levels, numeric distribution, correlation, column types and memory usage.
Author: Alastair Rushworth [aut, cre],
David Wilkins [ctb]
Maintainer: Alastair Rushworth <alastairmrushworth@gmail.com>
Diff between inspectdf versions 0.0.10 dated 2021-02-20 and 0.0.11 dated 2021-04-02
DESCRIPTION | 6 +- MD5 | 12 ++-- NAMESPACE | 1 NEWS.md | 8 ++- R/plot_types.R | 133 ++++++++++++++++++++++++++++++++++++++----------------- R/show_plot.R | 5 +- man/show_plot.Rd | 2 7 files changed, 113 insertions(+), 54 deletions(-)
Title: Generate Synthetic Data from Statistical Models
Description: Generate synthetic time series from commonly used statistical models, including linear, nonlinear and chaotic systems. Applications to testing methods can be found in Jiang, Z., Sharma, A., & Johnson, F. (2019) <doi:10.1016/j.advwatres.2019.103430> and Jiang, Z., Sharma, A., & Johnson, F. (2020) <doi:10.1029/2019WR026962> associated with an open-source tool by Jiang, Z., Rashid, M. M., Johnson, F., & Sharma, A. (2020) <doi:10.1016/j.envsoft.2020.104907>.
Author: Ze Jiang [aut, cre] (<https://orcid.org/0000-0002-3472-0829>)
Maintainer: Ze Jiang <ze.jiang@unsw.edu.au>
Diff between synthesis versions 1.2.0 dated 2020-11-05 and 1.2.1 dated 2021-04-02
synthesis-1.2.0/synthesis/R/data_gen_SW.R |only synthesis-1.2.0/synthesis/man/data.gen.SW.Rd |only synthesis-1.2.0/synthesis/man/data.gen.SW1.Rd |only synthesis-1.2.1/synthesis/DESCRIPTION | 19 synthesis-1.2.1/synthesis/MD5 | 85 - synthesis-1.2.1/synthesis/NAMESPACE | 56 - synthesis-1.2.1/synthesis/NEWS.md |only synthesis-1.2.1/synthesis/R/data_gen.R | 136 +- synthesis-1.2.1/synthesis/R/data_gen_AR.R | 350 +++--- synthesis-1.2.1/synthesis/R/data_gen_Chaotic.R | 647 ++++++------ synthesis-1.2.1/synthesis/R/data_gen_Class.R | 292 ++--- synthesis-1.2.1/synthesis/R/data_gen_Friedman.R | 207 ++-- synthesis-1.2.1/synthesis/R/data_gen_HL.R | 109 +- synthesis-1.2.1/synthesis/R/data_gen_NL.R | 185 +-- synthesis-1.2.1/synthesis/R/data_gen_RW.R | 72 - synthesis-1.2.1/synthesis/R/data_gen_SS.R | 52 - synthesis-1.2.1/synthesis/R/data_gen_TAR.R | 97 - synthesis-1.2.1/synthesis/README.md | 67 - synthesis-1.2.1/synthesis/build |only synthesis-1.2.1/synthesis/inst/doc |only synthesis-1.2.1/synthesis/inst/synthesis.bib | 1086 +++++++++++---------- synthesis-1.2.1/synthesis/man/data.gen.Duffing.Rd | 106 +- synthesis-1.2.1/synthesis/man/data.gen.HL.Rd | 130 +- synthesis-1.2.1/synthesis/man/data.gen.Henon.Rd | 106 +- synthesis-1.2.1/synthesis/man/data.gen.LGSS.Rd | 78 - synthesis-1.2.1/synthesis/man/data.gen.Logistic.Rd | 84 - synthesis-1.2.1/synthesis/man/data.gen.Lorenz.Rd | 118 +- synthesis-1.2.1/synthesis/man/data.gen.Rossler.Rd | 160 +-- synthesis-1.2.1/synthesis/man/data.gen.ar1.Rd | 48 synthesis-1.2.1/synthesis/man/data.gen.ar4.Rd | 48 synthesis-1.2.1/synthesis/man/data.gen.ar9.Rd | 48 synthesis-1.2.1/synthesis/man/data.gen.blobs.Rd | 87 - synthesis-1.2.1/synthesis/man/data.gen.circles.Rd | 68 - synthesis-1.2.1/synthesis/man/data.gen.fm1.Rd | 66 - synthesis-1.2.1/synthesis/man/data.gen.fm2.Rd | 70 - synthesis-1.2.1/synthesis/man/data.gen.nl1.Rd | 70 - synthesis-1.2.1/synthesis/man/data.gen.nl2.Rd | 72 - synthesis-1.2.1/synthesis/man/data.gen.norm.Rd | 50 synthesis-1.2.1/synthesis/man/data.gen.rw.Rd | 60 - synthesis-1.2.1/synthesis/man/data.gen.spirals.Rd | 58 - synthesis-1.2.1/synthesis/man/data.gen.tar.Rd | 108 +- synthesis-1.2.1/synthesis/man/data.gen.tar1.Rd | 58 - synthesis-1.2.1/synthesis/man/data.gen.tar2.Rd | 58 - synthesis-1.2.1/synthesis/man/data.gen.unif.Rd | 56 - synthesis-1.2.1/synthesis/tests/testthat.R | 4 synthesis-1.2.1/synthesis/vignettes |only 46 files changed, 2696 insertions(+), 2575 deletions(-)
Title: Bindings to Selected 'liblwgeom' Functions for Simple Features
Description: Access to selected functions found in 'liblwgeom' <https://github.com/postgis/postgis/tree/master/liblwgeom>, the light-weight geometry library used by 'PostGIS' <http://postgis.net/>.
Author: Edzer Pebesma [aut, cre] (<https://orcid.org/0000-0001-8049-7069>),
Colin Rundel [ctb],
Andy Teucher [ctb],
liblwgeom developers [cph]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between lwgeom versions 0.2-5 dated 2020-06-12 and 0.2-6 dated 2021-04-02
lwgeom-0.2-5/lwgeom/TODO |only lwgeom-0.2-5/lwgeom/src/liblwgeom/README.topo |only lwgeom-0.2-5/lwgeom/src/liblwgeom/TODO |only lwgeom-0.2-5/lwgeom/src/liblwgeom/gserialized.txt |only lwgeom-0.2-5/lwgeom/src/liblwgeom/liblwgeom.h.in |only lwgeom-0.2-5/lwgeom/src/liblwgeom/lwin_wkt_lex.l |only lwgeom-0.2-5/lwgeom/src/liblwgeom/lwin_wkt_parse.y |only lwgeom-0.2-6/lwgeom/DESCRIPTION | 8 +++---- lwgeom-0.2-6/lwgeom/MD5 | 23 +++++++-------------- lwgeom-0.2-6/lwgeom/R/wkt.R | 2 - lwgeom-0.2-6/lwgeom/configure | 22 ++++++-------------- lwgeom-0.2-6/lwgeom/configure.ac | 8 +++++-- lwgeom-0.2-6/lwgeom/man/st_astext.Rd | 2 - lwgeom-0.2-6/lwgeom/src/Makevars.win | 9 ++++---- lwgeom-0.2-6/lwgeom/src/postgis_config.h | 2 - lwgeom-0.2-6/lwgeom/tests/twkb.Rout.save | 22 ++++++++++---------- 16 files changed, 44 insertions(+), 54 deletions(-)
More information about RCMinification at CRAN
Permanent link
Title: The Matrix Normal Distribution
Description: Computes densities, probabilities, and random deviates of the Matrix Normal (Iranmanesh et al. (2010) <doi:10.7508/ijmsi.2010.02.004>). Also includes simple but useful matrix functions. See the vignette for more information.
Author: Paul M. Hargarten [aut, cre]
Maintainer: Paul M. Hargarten <hargartenp@vcu.edu>
Diff between matrixNormal versions 0.0.4 dated 2020-08-26 and 0.0.5 dated 2021-04-02
DESCRIPTION | 8 +-- MD5 | 8 +-- NEWS.md | 25 ++++++---- build/vignette.rds |binary inst/doc/introduction-to-matrixnormal-package.html | 51 ++++++++++++++------- 5 files changed, 57 insertions(+), 35 deletions(-)
Title: Utilities for Working with Google APIs
Description: Provides utilities for working with Google APIs
<https://developers.google.com/apis-explorer>. This includes
functions and classes for handling common credential types and for
preparing, executing, and processing HTTP requests.
Author: Jennifer Bryan [aut, cre] (<https://orcid.org/0000-0002-6983-2759>),
Craig Citro [aut],
Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>),
Google Inc [cph],
RStudio [cph, fnd]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between gargle versions 1.0.0 dated 2021-03-03 and 1.1.0 dated 2021-04-02
gargle-1.0.0/gargle/tests/testthat/fixtures/drive-files-get-nonexistent-file-id_404_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-api-key-not-enabled_403_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-bad-field-mask_400_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-nonexistent-range_400_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-nonexistent-sheet-id_404_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-quota-exceeded-readgroup_429_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/fixtures/tokeninfo-bad-path_404_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/fixtures/tokeninfo-stale_400_MESSAGE.txt |only gargle-1.0.0/gargle/tests/testthat/test-authstate-class.R |only gargle-1.0.0/gargle/tests/testthat/test-oauth-token.R |only gargle-1.0.0/gargle/tests/testthat/test-response-process.R |only gargle-1.1.0/gargle/DESCRIPTION | 18 gargle-1.1.0/gargle/MD5 | 171 ++--- gargle-1.1.0/gargle/NAMESPACE | 6 gargle-1.1.0/gargle/NEWS.md | 81 ++ gargle-1.1.0/gargle/R/AuthState-class.R | 32 - gargle-1.1.0/gargle/R/Gargle-class.R | 94 ++- gargle-1.1.0/gargle/R/aaa.R |only gargle-1.1.0/gargle/R/compat-purrr.R | 5 gargle-1.1.0/gargle/R/conditions.R | 60 + gargle-1.1.0/gargle/R/credential-function-registry.R | 15 gargle-1.1.0/gargle/R/credentials_app_default.R | 8 gargle-1.1.0/gargle/R/credentials_byo_oauth2.R | 12 gargle-1.1.0/gargle/R/credentials_gce.R | 11 gargle-1.1.0/gargle/R/credentials_service_account.R | 14 gargle-1.1.0/gargle/R/credentials_user_oauth2.R | 2 gargle-1.1.0/gargle/R/field-mask.R | 2 gargle-1.1.0/gargle/R/gargle-oauth-app.R | 1 gargle-1.1.0/gargle/R/gargle-package.R | 15 gargle-1.1.0/gargle/R/inside-the-house.R | 23 gargle-1.1.0/gargle/R/oauth-app.R | 3 gargle-1.1.0/gargle/R/oauth-cache.R | 304 +++++++--- gargle-1.1.0/gargle/R/oauth-refresh.R |only gargle-1.1.0/gargle/R/request-develop.R | 4 gargle-1.1.0/gargle/R/request-make.R | 2 gargle-1.1.0/gargle/R/request_retry.R | 35 - gargle-1.1.0/gargle/R/response_process.R | 94 ++- gargle-1.1.0/gargle/R/secret.R | 10 gargle-1.1.0/gargle/R/sysdata.rda |binary gargle-1.1.0/gargle/R/token-fetch.R | 6 gargle-1.1.0/gargle/R/ui.R | 127 +++- gargle-1.1.0/gargle/R/utils.R | 20 gargle-1.1.0/gargle/README.md | 9 gargle-1.1.0/gargle/inst/WORDLIST | 66 +- gargle-1.1.0/gargle/inst/doc/auth-from-web.Rmd | 4 gargle-1.1.0/gargle/inst/doc/auth-from-web.html | 4 gargle-1.1.0/gargle/inst/doc/how-gargle-gets-tokens.Rmd | 2 gargle-1.1.0/gargle/inst/doc/how-gargle-gets-tokens.html | 2 gargle-1.1.0/gargle/inst/doc/non-interactive-auth.R | 4 gargle-1.1.0/gargle/inst/doc/non-interactive-auth.Rmd | 14 gargle-1.1.0/gargle/inst/doc/non-interactive-auth.html | 12 gargle-1.1.0/gargle/inst/doc/troubleshooting.R | 37 - gargle-1.1.0/gargle/inst/doc/troubleshooting.Rmd | 143 +++- gargle-1.1.0/gargle/inst/doc/troubleshooting.html | 131 +++- gargle-1.1.0/gargle/man/AuthState-class.Rd | 12 gargle-1.1.0/gargle/man/Gargle-class.Rd | 18 gargle-1.1.0/gargle/man/gargle_app.Rd | 1 gargle-1.1.0/gargle/man/gargle_oauth_sitrep.Rd | 4 gargle-1.1.0/gargle/man/gargle_options.Rd | 44 + gargle-1.1.0/gargle/man/request_retry.Rd | 2 gargle-1.1.0/gargle/man/response_process.Rd | 18 gargle-1.1.0/gargle/tests/testthat/_snaps |only gargle-1.1.0/gargle/tests/testthat/fixtures/drive-files-get-nonexistent-file-id_404.rds |binary gargle-1.1.0/gargle/tests/testthat/fixtures/fitness-get-wrong-scope_403.R |only gargle-1.1.0/gargle/tests/testthat/fixtures/fitness-get-wrong-scope_403.rds |only gargle-1.1.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-api-key-not-enabled_403.rds |binary gargle-1.1.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-bad-field-mask_400.rds |binary gargle-1.1.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-nonexistent-range_400.rds |binary gargle-1.1.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-nonexistent-sheet-id_404.rds |binary gargle-1.1.0/gargle/tests/testthat/fixtures/sheets-spreadsheets-get-quota-exceeded-readgroup_429.rds |binary gargle-1.1.0/gargle/tests/testthat/fixtures/tokeninfo-bad-path_404.rds |binary gargle-1.1.0/gargle/tests/testthat/fixtures/tokeninfo-stale_400.rds |binary gargle-1.1.0/gargle/tests/testthat/helper.R | 20 gargle-1.1.0/gargle/tests/testthat/test-AuthState-class.R |only gargle-1.1.0/gargle/tests/testthat/test-Gargle-class.R |only gargle-1.1.0/gargle/tests/testthat/test-assets.R | 5 gargle-1.1.0/gargle/tests/testthat/test-credentials-byo-oauth2.R | 4 gargle-1.1.0/gargle/tests/testthat/test-credentials_app_default.R | 44 - gargle-1.1.0/gargle/tests/testthat/test-gce-token.R | 7 gargle-1.1.0/gargle/tests/testthat/test-oauth-app.R | 12 gargle-1.1.0/gargle/tests/testthat/test-oauth-cache.R | 194 ++++-- gargle-1.1.0/gargle/tests/testthat/test-registry.R | 4 gargle-1.1.0/gargle/tests/testthat/test-request-develop.R | 20 gargle-1.1.0/gargle/tests/testthat/test-request-make.R | 8 gargle-1.1.0/gargle/tests/testthat/test-request_retry.R | 148 +++- gargle-1.1.0/gargle/tests/testthat/test-response_process.R |only gargle-1.1.0/gargle/tests/testthat/test-token-info.R | 2 gargle-1.1.0/gargle/tests/testthat/test-ui.R |only gargle-1.1.0/gargle/tests/testthat/test-utils.R | 16 gargle-1.1.0/gargle/vignettes/auth-from-web.Rmd | 4 gargle-1.1.0/gargle/vignettes/deleted_client.png |only gargle-1.1.0/gargle/vignettes/how-gargle-gets-tokens.Rmd | 2 gargle-1.1.0/gargle/vignettes/non-interactive-auth.Rmd | 14 gargle-1.1.0/gargle/vignettes/troubleshooting.Rmd | 143 +++- 94 files changed, 1638 insertions(+), 711 deletions(-)
Title: Maximum Likelihood Shrinkage using Generalized Ridge or Least
Angle Regression
Description: Functions are provided to calculate and display ridge TRACE diagnostics for a
wide variety of alternative shrinkage Paths. While all methods focus on Maximum Likelihood
estimation of unknown true effects under Normal-distribution theory, some estimates are
modified to be Unbiased or to have "Correct Range" when estimating either [1] the noncentrality
of the F-ratio for testing that true Beta coefficients are Zeros or [2] the "relative" MSE
Risk (i.e. MSE divided by true sigma-square, where the "relative" variance of OLS is known.)
The eff.ridge() function implements the "Efficient Shrinkage Path" introduced in Obenchain
(2021) <arXiv:2103.05161>. This new "p-Parameter" Shrinkage-Path always passes through the
vector of regression coefficient estimates Most-Likely to achieve the overall Optimal
Variance-Bias Trade-Off and is the shortest Path with this property. Functions eff.aug() and
eff.biv() augment the calculations made by eff.ridge() to provide plots of the bivariate
confidence ellipses corresponding to any of the p*(p-1) possible ordered pairs of shrunken
regression coefficients.
Author: Bob Obenchain
Maintainer: Bob Obenchain <wizbob@att.net>
Diff between RXshrink versions 1.7 dated 2021-02-04 and 2.0 dated 2021-04-02
DESCRIPTION | 21 +++++++------- MD5 | 72 ++++++++++++++++++++++++------------------------ NAMESPACE | 8 ++--- R/MLfuns.R | 10 +++--- R/RXpredict.R | 8 ++--- R/eff.ridge.R | 6 ++-- R/unr.ridge.R | 8 +++-- demo/00Index | 6 ++-- demo/haldport.R | 34 +++++++--------------- demo/longley2.R | 12 ++++---- demo/mpg.R | 17 ++++++----- demo/tycobb.R | 18 ++++++------ man/MLboot.Rd | 9 ++---- man/MLcalc.Rd | 35 +++++++++++------------ man/MLtrue.Rd | 8 ++--- man/RXpredict.Rd | 14 ++++----- man/RXshrink-package.Rd | 55 ++++++++++++++++++++---------------- man/YonX.Rd | 15 +++++----- man/aug.lars.Rd | 8 ++--- man/correct.signs.Rd | 10 +++--- man/eff.aug.Rd | 9 +++--- man/eff.biv.Rd | 13 +++++--- man/eff.ridge.Rd | 28 +++++++++--------- man/kofm.Rd | 7 +--- man/meff.Rd | 9 +++--- man/mofk.Rd | 11 ++----- man/plot.RXpredict.Rd | 10 +++--- man/plot.YonX.Rd | 4 +- man/plot.aug.lars.Rd | 2 - man/plot.eff.biv.Rd | 22 ++++++++------ man/plot.eff.ridge.Rd | 2 - man/plot.qm.ridge.Rd | 2 - man/plot.uc.lars.Rd | 2 - man/plot.unr.ridge.Rd | 7 ++-- man/qm.ridge.Rd | 13 +++++--- man/uc.lars.Rd | 6 ++-- man/unr.ridge.Rd | 34 +++++++++++----------- 37 files changed, 277 insertions(+), 278 deletions(-)
Title: Apply Functions to All Combinations of List Elements
Description: Provides an extension to the 'purrr' family of mapping
functions to apply a function to each combination of elements in a
list of inputs. Also includes functions for automatically detecting
output type in mapping functions, finding every combination of
elements of lists or rows of data frames, and applying multiple models
to multiple subsets of a dataset.
Author: Alexander Rossell Hayes [aut, cre, cph]
(<https://orcid.org/0000-0001-9412-0457>)
Maintainer: Alexander Rossell Hayes <alexander@rossellhayes.com>
Diff between crossmap versions 0.2.0 dated 2020-09-24 and 0.3.0 dated 2021-04-02
crossmap-0.2.0/crossmap/R/isFALSE.R |only crossmap-0.2.0/crossmap/man/isFALSE.Rd |only crossmap-0.3.0/crossmap/DESCRIPTION | 28 - crossmap-0.3.0/crossmap/MD5 | 68 +-- crossmap-0.3.0/crossmap/NAMESPACE | 4 crossmap-0.3.0/crossmap/NEWS.md | 24 - crossmap-0.3.0/crossmap/R/autonames.R | 14 crossmap-0.3.0/crossmap/R/compact_null.R |only crossmap-0.3.0/crossmap/R/cross_fit.R | 123 +---- crossmap-0.3.0/crossmap/R/cross_fit_glm.R |only crossmap-0.3.0/crossmap/R/cross_fit_internal.R |only crossmap-0.3.0/crossmap/R/cross_join.R | 12 crossmap-0.3.0/crossmap/R/cross_list.R | 7 crossmap-0.3.0/crossmap/R/errors.R | 106 +++- crossmap-0.3.0/crossmap/R/future_map_vec.R | 11 crossmap-0.3.0/crossmap/R/future_xmap.R | 250 ++++++----- crossmap-0.3.0/crossmap/R/future_xmap_mat.R | 5 crossmap-0.3.0/crossmap/R/map_vec.R | 1 crossmap-0.3.0/crossmap/R/onLoad.R |only crossmap-0.3.0/crossmap/R/tidy_glance.R |only crossmap-0.3.0/crossmap/R/xmap.R | 262 +++++------- crossmap-0.3.0/crossmap/R/xmap_mat.R | 2 crossmap-0.3.0/crossmap/README.md | 28 - crossmap-0.3.0/crossmap/man/autonames.Rd | 5 crossmap-0.3.0/crossmap/man/cross_fit.Rd | 38 + crossmap-0.3.0/crossmap/man/cross_fit_glm.Rd |only crossmap-0.3.0/crossmap/man/cross_join.Rd | 10 crossmap-0.3.0/crossmap/man/cross_list.Rd | 3 crossmap-0.3.0/crossmap/man/crossmap-package.Rd | 12 crossmap-0.3.0/crossmap/man/future_map_vec.Rd | 12 crossmap-0.3.0/crossmap/man/future_xmap.Rd | 28 - crossmap-0.3.0/crossmap/man/future_xmap_mat.Rd | 6 crossmap-0.3.0/crossmap/man/tidy_glance.Rd |only crossmap-0.3.0/crossmap/man/xmap.Rd | 1 crossmap-0.3.0/crossmap/tests/testthat/test-cross_fit.R | 121 ++--- crossmap-0.3.0/crossmap/tests/testthat/test-cross_fit_glm.R |only crossmap-0.3.0/crossmap/tests/testthat/test-cross_join.R | 28 - crossmap-0.3.0/crossmap/tests/testthat/test-cross_list.R | 4 crossmap-0.3.0/crossmap/tests/testthat/test-errors.R | 38 - crossmap-0.3.0/crossmap/tests/testthat/test-future_xmap.R | 18 40 files changed, 632 insertions(+), 637 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-18 0.0.12
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-06 0.3.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-22 2.2.4
2020-09-18 2.2.3
2020-04-21 2.1.2
2019-12-13 2.0.10
2019-07-24 2.0.8
2019-07-11 2.0.7
Title: Blind Source Separation and Supervised Dimension Reduction for
Time Series
Description: Different estimators are provided to solve the blind source separation problem for multivariate time series with stochastic volatility (Matilainen, Nordhausen and Oja (2015) <doi:10.1016/j.spl.2015.04.033>; Matilainen, Miettinen, Nordhausen, Oja and Taskinen (2017) <doi:10.17713/ajs.v46i3-4.671>) and supervised dimension reduction problem for multivariate time series (Matilainen, Croux, Nordhausen and Oja (2017) <doi:10.1016/j.ecosta.2017.04.002>). Different functions based on AMUSE and SOBI are also provided for estimating the dimension of the white noise subspace.
Author: Markus Matilainen [cre, aut] (<https://orcid.org/0000-0002-5597-2670>),
Christophe Croux [aut],
Jari Miettinen [aut] (<https://orcid.org/0000-0002-3270-7014>),
Klaus Nordhausen [aut] (<https://orcid.org/0000-0002-3758-8501>),
Hannu Oja [aut],
Sara Taskinen [aut] (<https://orcid.org/0000-0001-9470-7258>),
Joni Virta [aut] (<https://orcid.org/0000-0002-2150-2769>)
Maintainer: Markus Matilainen <markus.matilainen@outlook.com>
Diff between tsBSS versions 0.5.6 dated 2020-11-18 and 0.5.7 dated 2021-04-01
DESCRIPTION | 27 ++++++++++++++++----- MD5 | 64 +++++++++++++++++++++++++-------------------------- NAMESPACE | 2 - R/AMUSEasymp.R | 2 - R/AMUSEboot.R | 10 +++---- R/AMUSEladle.R | 2 - R/FixNA.R | 2 - R/LADLEinternal.R | 4 +-- R/PVC.R | 2 - R/SOBIasymp.R | 2 - R/SOBIboot.R | 10 +++---- R/SOBIladle.R | 2 - R/gFOBI.R | 2 - R/gJADE.R | 2 - R/gSOBI.R | 2 - R/tssdr.R | 2 - R/vSOBI.R | 2 - inst/ChangeLog | 4 +++ man/AMUSEasymp.Rd | 2 - man/FixNA.Rd | 2 - man/PVC.Rd | 2 - man/SOBIasymp.Rd | 2 - man/SOBIboot.Rd | 2 - man/SOBIladle.Rd | 2 - man/gFOBI.Rd | 2 - man/gJADE.Rd | 2 - man/gSOBI.Rd | 6 ++-- man/lbtest.Rd | 4 +-- man/tsBSS-package.Rd | 11 ++++---- man/vSOBI.Rd | 2 - src/bb.c | 2 - src/tsBSS.cpp | 23 ------------------ src/tsBSS.h | 1 33 files changed, 101 insertions(+), 107 deletions(-)
Title: Repeated Measures Correlation
Description: Compute the repeated measures correlation, a statistical technique
for determining the overall within-individual relationship among paired measures
assessed on two or more occasions, first introduced by Bland and Altman (1995).
Includes functions for diagnostics, p-value, effect size with confidence
interval including optional bootstrapping, as well as graphing. Also includes
several example datasets. For more details, see Bakdash and Marusich (2017) <doi:10.3389/fpsyg.2017.00456>.
Author: Jonathan Z. Bakdash, Laura R. Marusich
Maintainer: Laura R. Marusich <laura.m.cooper20.civ@mail.mil>
Diff between rmcorr versions 0.4.2 dated 2021-03-30 and 0.4.3 dated 2021-04-01
rmcorr-0.4.2/rmcorr/vignettes/plots |only rmcorr-0.4.3/rmcorr/DESCRIPTION | 8 rmcorr-0.4.3/rmcorr/MD5 | 36 --- rmcorr-0.4.3/rmcorr/NEWS.md | 4 rmcorr-0.4.3/rmcorr/build/partial.rdb |binary rmcorr-0.4.3/rmcorr/build/vignette.rds |binary rmcorr-0.4.3/rmcorr/inst/doc/New_rmcorr_paper_analyses_figures.R | 57 +++-- rmcorr-0.4.3/rmcorr/inst/doc/New_rmcorr_paper_analyses_figures.Rmd | 77 ++++--- rmcorr-0.4.3/rmcorr/inst/doc/New_rmcorr_paper_analyses_figures.html | 106 ++++------ rmcorr-0.4.3/rmcorr/vignettes/New_rmcorr_paper_analyses_figures.Rmd | 77 ++++--- 10 files changed, 193 insertions(+), 172 deletions(-)
Title: UCA Rcmdr Plug-in
Description: Some extensions to Rcmdr (R Commander), randomness test,
variance test for one normal sample and predictions using active model,
made by R-UCA project and used in teaching statistics at University of Cadiz (UCA).
Author: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Maintainer: Manuel Munoz-Marquez <manuel.munoz@uca.es>
Diff between RcmdrPlugin.UCA versions 4.3-4 dated 2021-03-01 and 4.4-2 dated 2021-04-01
ChangeLog | 5 DESCRIPTION | 15 - MD5 | 33 +-- NAMESPACE | 35 +++ R/RcmdrPlugin.UCA.R | 73 +++++-- R/globals.R | 2 R/qualitycontrol.R |only build/vignette.rds |binary inst/doc/additions.html | 4 inst/doc/adiciones.html | 4 inst/etc/menus.txt | 66 ++++++ inst/po/es/LC_MESSAGES/R-RcmdrPlugin.UCA.mo |binary man/RcmdrPlugin.UCA-internal.Rd | 28 ++ man/RcmdrPlugin.UCA-package.Rd | 4 man/RcmdrPlugin.UCA.es-package.Rd | 4 po/R-RcmdrPlugin.UCA-es.mo |binary po/R-RcmdrPlugin.UCA-es.po | 265 +++++++++++++++++++++++++--- po/R-RcmdrPlugin.UCA.pot | 263 +++++++++++++++++++++++++-- 18 files changed, 692 insertions(+), 109 deletions(-)
More information about RcmdrPlugin.UCA at CRAN
Permanent link
Title: Propensity Score Weighting for Causal Inference with
Observational Studies and Randomized Trials
Description: Supports propensity score weighting analysis of observational studies and randomized trials. Enables the estimation and inference of average causal effects with binary and multiple treatments using overlap weights (ATO), inverse probability of treatment weights (ATE), average treatment effect among the treated weights (ATT), matching weights (ATM) and entropy weights (ATEN), with and without propensity score trimming. These weights are members of the family of balancing weights introduced in Li, Morgan and Zaslavsky (2018) <doi:10.1080/01621459.2016.1260466> and Li and Li (2019) <doi:10.1214/19-AOAS1282>.
Author: Tianhui Zhou [aut, cre],
Guangyu Tong [aut],
Fan Li [aut],
Laine Thomas [aut],
Fan Li [aut]
Maintainer: Tianhui Zhou <tianhui.zhou@duke.edu>
Diff between PSweight versions 1.1.3 dated 2021-02-25 and 1.1.4 dated 2021-04-01
PSweight-1.1.3/PSweight/R/Outmethod.R |only PSweight-1.1.4/PSweight/DESCRIPTION | 8 PSweight-1.1.4/PSweight/MD5 | 30 + PSweight-1.1.4/PSweight/NAMESPACE | 2 PSweight-1.1.4/PSweight/R/NCDS.R | 126 ++++---- PSweight-1.1.4/PSweight/R/OUTmethod.R |only PSweight-1.1.4/PSweight/R/PSmethod.R | 379 +++++++++++++----------- PSweight-1.1.4/PSweight/R/PStrim.R | 476 +++++++++++++++---------------- PSweight-1.1.4/PSweight/R/PSweight.R | 28 - PSweight-1.1.4/PSweight/R/SumStat.R | 18 - PSweight-1.1.4/PSweight/R/bin_est.R | 20 - PSweight-1.1.4/PSweight/R/mul_est.R | 16 - PSweight-1.1.4/PSweight/man/NCDS.Rd | 8 PSweight-1.1.4/PSweight/man/OUTmethod.Rd |only PSweight-1.1.4/PSweight/man/PSmethod.Rd |only PSweight-1.1.4/PSweight/man/PStrim.Rd | 10 PSweight-1.1.4/PSweight/man/PSweight.Rd | 24 - PSweight-1.1.4/PSweight/man/SumStat.Rd | 18 - 18 files changed, 603 insertions(+), 560 deletions(-)
Title: Do 16s Data Analysis and Generate Figures
Description: Provides functions to enhance the available
statistical analysis procedures in R by providing simple functions to
analysis and visualize the 16S rRNA data.Here we present a tutorial
with minimum working examples to demonstrate usage and dependencies.
Author: Kai Guo [aut, cre],
Pan Gao [aut]
Maintainer: Kai Guo <guokai8@gmail.com>
Diff between microbial versions 0.0.18 dated 2021-03-31 and 0.0.19 dated 2021-04-01
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/dada2.R | 21 +++++++++++++++++---- man/processSeq.Rd | 3 +++ 4 files changed, 26 insertions(+), 10 deletions(-)
Title: Latent (Variable) Analysis with Bayesian Learning
Description: A variety of models to analyze latent variables based on Bayesian learning: the partially CFA (Chen, Guo, Zhang, & Pan, 2020) <DOI: 10.1037/met0000293>; generalized PCFA; partially confirmatory IRM (Chen, 2020) <DOI: 10.1007/s11336-020-09724-3>; Bayesian regularized EFA <DOI: 10.1080/10705511.2020.1854763>; Fully and partially EFA.
Author: Jinsong Chen [aut, cre, cph]
Maintainer: Jinsong Chen <jinsong.chen@live.com>
Diff between LAWBL versions 1.3.0 dated 2020-11-03 and 1.4.0 dated 2021-04-01
LAWBL-1.3.0/LAWBL/R/plot_eigen.R |only LAWBL-1.3.0/LAWBL/inst/doc/gpcfa-examples.R |only LAWBL-1.3.0/LAWBL/inst/doc/gpcfa-examples.Rmd |only LAWBL-1.3.0/LAWBL/inst/doc/gpcfa-examples.html |only LAWBL-1.3.0/LAWBL/inst/doc/pcfa-examples.R |only LAWBL-1.3.0/LAWBL/inst/doc/pcfa-examples.Rmd |only LAWBL-1.3.0/LAWBL/inst/doc/pcfa-examples.html |only LAWBL-1.3.0/LAWBL/inst/doc/pcirm-examples.R |only LAWBL-1.3.0/LAWBL/inst/doc/pcirm-examples.Rmd |only LAWBL-1.3.0/LAWBL/inst/doc/pcirm-examples.html |only LAWBL-1.3.0/LAWBL/man/plot_eigen.Rd |only LAWBL-1.3.0/LAWBL/vignettes/gpcfa-examples.Rmd |only LAWBL-1.3.0/LAWBL/vignettes/pcfa-examples.Rmd |only LAWBL-1.3.0/LAWBL/vignettes/pcirm-examples.Rmd |only LAWBL-1.4.0/LAWBL/DESCRIPTION | 9 +- LAWBL-1.4.0/LAWBL/MD5 | 75 ++++++++---------- LAWBL-1.4.0/LAWBL/NAMESPACE | 27 +++--- LAWBL-1.4.0/LAWBL/NEWS.md | 9 ++ LAWBL-1.4.0/LAWBL/R/Gibbs_pefa_main.R |only LAWBL-1.4.0/LAWBL/R/Init.R | 9 +- LAWBL-1.4.0/LAWBL/R/LAWBL-package.R | 41 ++++++--- LAWBL-1.4.0/LAWBL/R/datasets.R | 22 ++++- LAWBL-1.4.0/LAWBL/R/pcfa.R | 53 ++++++------ LAWBL-1.4.0/LAWBL/R/pcirm.R | 38 ++++----- LAWBL-1.4.0/LAWBL/R/pefa.R |only LAWBL-1.4.0/LAWBL/R/plot_lawbl.R |only LAWBL-1.4.0/LAWBL/R/summary.lawbl.R | 60 +++++++++----- LAWBL-1.4.0/LAWBL/R/utils.R | 27 +++--- LAWBL-1.4.0/LAWBL/R/zzz.R |only LAWBL-1.4.0/LAWBL/README.md | 103 +++++++++---------------- LAWBL-1.4.0/LAWBL/build/vignette.rds |binary LAWBL-1.4.0/LAWBL/data/nlsy27.RData |only LAWBL-1.4.0/LAWBL/data/sim18ccfa40.RData |binary LAWBL-1.4.0/LAWBL/data/sim18ccfa41.RData |binary LAWBL-1.4.0/LAWBL/data/sim18cfa0.RData |binary LAWBL-1.4.0/LAWBL/data/sim18cfa1.RData |binary LAWBL-1.4.0/LAWBL/data/sim18mcfa41.RData |binary LAWBL-1.4.0/LAWBL/data/sim24ccfa21.RData |binary LAWBL-1.4.0/LAWBL/inst/doc/LAWBL.Rmd |only LAWBL-1.4.0/LAWBL/inst/doc/LAWBL.html |only LAWBL-1.4.0/LAWBL/man/LAWBL-package.Rd | 38 +++++---- LAWBL-1.4.0/LAWBL/man/nlsy27.Rd |only LAWBL-1.4.0/LAWBL/man/pcfa.Rd | 17 ++-- LAWBL-1.4.0/LAWBL/man/pcirm.Rd | 10 +- LAWBL-1.4.0/LAWBL/man/pefa.Rd |only LAWBL-1.4.0/LAWBL/man/plot_lawbl.Rd |only LAWBL-1.4.0/LAWBL/man/sim18ccfa40.Rd | 2 LAWBL-1.4.0/LAWBL/man/sim18ccfa41.Rd | 2 LAWBL-1.4.0/LAWBL/man/sim18mcfa41.Rd | 4 LAWBL-1.4.0/LAWBL/man/summary.lawbl.Rd | 5 - LAWBL-1.4.0/LAWBL/vignettes/LAWBL.Rmd |only 51 files changed, 297 insertions(+), 254 deletions(-)
Title: 'GitHub' 'API'
Description: Minimal client to access the 'GitHub' 'API'.
Author: Gábor Csárdi [cre, ctb],
Jennifer Bryan [aut],
Hadley Wickham [aut],
RStudio [cph, fnd]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between gh versions 1.2.0 dated 2020-11-27 and 1.2.1 dated 2021-04-01
DESCRIPTION | 9 MD5 | 30 +-- NEWS.md | 9 R/errors.R | 253 ++++++++++++++++++++++---- R/gh_token.R | 23 +- R/gh_whoami.R | 7 build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/managing-personal-access-tokens.Rmd | 2 inst/doc/managing-personal-access-tokens.html | 51 +---- man/gh_token.Rd | 2 man/gh_whoami.Rd | 7 tests/testthat/helper-offline.R | 2 tests/testthat/test-gh_token.R | 6 tests/testthat/test-mock-repos.R | 4 vignettes/managing-personal-access-tokens.Rmd | 2 16 files changed, 294 insertions(+), 114 deletions(-)
Title: Sensitivity Analyses for Unmeasured Confounding and Other Biases
in Observational Studies and Meta-Analyses
Description: Conducts sensitivity analyses for unmeasured confounding, selection bias, and measurement error (individually or in combination; VanderWeele & Ding (2017) <doi:10.7326/M16-2607>; Smith & VanderWeele (2019) <doi:10.1097/EDE.0000000000001032>; VanderWeele & Li (2019) <doi:10.1093/aje/kwz133>; Smith & VanderWeele (2021) <arXiv:2005.02908>). Also conducts sensitivity analyses for unmeasured confounding in meta-analyses (Mathur & VanderWeele (2020a) <doi:10.1080/01621459.2018.1529598>; Mathur & VanderWeele (2020b) <doi:10.1097/EDE.0000000000001180>) and for additive measures of effect modification (Mathur et al., under review).
Author: Maya B. Mathur [cre, aut],
Louisa H. Smith [aut],
Peng Ding [aut],
Tyler J. VanderWeele [aut]
Maintainer: Maya B. Mathur <mmathur@stanford.edu>
Diff between EValue versions 4.1.1 dated 2021-01-04 and 4.1.2 dated 2021-04-01
DESCRIPTION | 8 - MD5 | 25 ++-- NAMESPACE | 1 R/EValue.R | 17 +- R/effect_modification.R |only R/meta-analysis.R | 58 ++++------ R/utils.R | 15 ++ README.md | 10 + inst/doc/meta-analysis.html | 8 - man/confounded_meta.Rd | 5 man/evalue.Rd | 8 + man/evalues.IC.Rd |only man/sens_plot.Rd | 2 tests/testthat/test-effect-mod.R |only tests/testthat/testthat.R | 223 ++++++++------------------------------- 15 files changed, 141 insertions(+), 239 deletions(-)
Title: Complex Split Procedures in Random Forests Through Candidate
Split Sampling
Description: Implements interaction forests [1], which are specific diversity forests, and
the basic form of diversity forests that uses univariable, binary splitting [2].
Interaction forests (IFs) are ensembles of decision trees that model quantitative and
qualitative interaction effects using bivariable splitting. IFs come with the
Effect Importance Measure (EIM), which can be used to identify variable pairs that
feature quantitative and qualitative interaction effects with high predictive
relevance. IFs and EIM focus on well interpretable forms of interactions.
The package also offers plot functions for visualising the estimated forms of
interaction effects.
Categorical, metric, and survival outcomes are supported.
This is a fork of the R package 'ranger' (main author: Marvin N. Wright) that
implements random forests using an efficient C++ implementation.
References:
[1] Hornung, R. & Boulesteix, A.-L. (2021) Interaction Forests: Identifying and
exploiting interpretable quantitative and qualitative interaction effects.
Technical Report No. 237, Department of Statistics, University of Munich
[2] Hornung, R. (2020) Diversity Forests: Using split sampling to allow for complex
split procedures in random forest. Technical Report No. 234, Department of Statistics,
University of Munich.
Author: Roman Hornung [aut, cre], Marvin N. Wright [ctb, cph]
Maintainer: Roman Hornung <hornung@ibe.med.uni-muenchen.de>
Diff between diversityForest versions 0.2.0 dated 2020-01-29 and 0.3.0 dated 2021-04-01
diversityForest-0.2.0/diversityForest/R/predict.R |only diversityForest-0.2.0/diversityForest/man/predictions.divfor.Rd |only diversityForest-0.2.0/diversityForest/man/predictions.divfor.prediction.Rd |only diversityForest-0.2.0/diversityForest/man/print.divfor.Rd |only diversityForest-0.2.0/diversityForest/man/print.divfor.forest.Rd |only diversityForest-0.2.0/diversityForest/man/print.divfor.prediction.Rd |only diversityForest-0.2.0/diversityForest/man/print.tunedivfor.Rd |only diversityForest-0.3.0/diversityForest/DESCRIPTION | 55 diversityForest-0.3.0/diversityForest/MD5 | 105 diversityForest-0.3.0/diversityForest/NAMESPACE | 26 diversityForest-0.3.0/diversityForest/NEWS | 5 diversityForest-0.3.0/diversityForest/R/RcppExports.R | 4 diversityForest-0.3.0/diversityForest/R/diversityForest-package.R |only diversityForest-0.3.0/diversityForest/R/divfor.R | 1768 +++--- diversityForest-0.3.0/diversityForest/R/getPromispairs.R |only diversityForest-0.3.0/diversityForest/R/interactionfor.R |only diversityForest-0.3.0/diversityForest/R/plot.interactionfor.R |only diversityForest-0.3.0/diversityForest/R/plotEffects.R |only diversityForest-0.3.0/diversityForest/R/plotPair.R |only diversityForest-0.3.0/diversityForest/R/predict.divfor.R |only diversityForest-0.3.0/diversityForest/R/predict.interactionfor.R |only diversityForest-0.3.0/diversityForest/R/predictions.R | 44 diversityForest-0.3.0/diversityForest/R/print.R | 104 diversityForest-0.3.0/diversityForest/R/stock.R |only diversityForest-0.3.0/diversityForest/R/tunedivfor.R | 10 diversityForest-0.3.0/diversityForest/R/zoo.R |only diversityForest-0.3.0/diversityForest/build/partial.rdb |binary diversityForest-0.3.0/diversityForest/data |only diversityForest-0.3.0/diversityForest/man/diversityForest-package.Rd |only diversityForest-0.3.0/diversityForest/man/divfor.Rd | 91 diversityForest-0.3.0/diversityForest/man/interactionfor.Rd |only diversityForest-0.3.0/diversityForest/man/plot.interactionfor.Rd |only diversityForest-0.3.0/diversityForest/man/plotEffects.Rd |only diversityForest-0.3.0/diversityForest/man/plotPair.Rd |only diversityForest-0.3.0/diversityForest/man/predict.divfor.Rd | 28 diversityForest-0.3.0/diversityForest/man/predict.interactionfor.Rd |only diversityForest-0.3.0/diversityForest/man/stock.Rd |only diversityForest-0.3.0/diversityForest/man/tunedivfor.Rd | 19 diversityForest-0.3.0/diversityForest/man/zoo.Rd |only diversityForest-0.3.0/diversityForest/src/Data.cpp | 7 diversityForest-0.3.0/diversityForest/src/Data.h | 3 diversityForest-0.3.0/diversityForest/src/Forest.cpp | 254 diversityForest-0.3.0/diversityForest/src/Forest.h | 88 diversityForest-0.3.0/diversityForest/src/ForestClassification.cpp | 51 diversityForest-0.3.0/diversityForest/src/ForestClassification.h | 6 diversityForest-0.3.0/diversityForest/src/ForestProbability.cpp | 19 diversityForest-0.3.0/diversityForest/src/ForestProbability.h | 3 diversityForest-0.3.0/diversityForest/src/ForestRegression.cpp | 47 diversityForest-0.3.0/diversityForest/src/ForestRegression.h | 4 diversityForest-0.3.0/diversityForest/src/ForestSurvival.cpp | 22 diversityForest-0.3.0/diversityForest/src/ForestSurvival.h | 3 diversityForest-0.3.0/diversityForest/src/RcppExports.cpp | 14 diversityForest-0.3.0/diversityForest/src/Tree.cpp | 2638 +++++++--- diversityForest-0.3.0/diversityForest/src/Tree.h | 62 diversityForest-0.3.0/diversityForest/src/TreeClassification.cpp | 192 diversityForest-0.3.0/diversityForest/src/TreeClassification.h | 11 diversityForest-0.3.0/diversityForest/src/TreeProbability.cpp | 169 diversityForest-0.3.0/diversityForest/src/TreeProbability.h | 9 diversityForest-0.3.0/diversityForest/src/TreeRegression.cpp | 187 diversityForest-0.3.0/diversityForest/src/TreeRegression.h | 11 diversityForest-0.3.0/diversityForest/src/TreeSurvival.cpp | 163 diversityForest-0.3.0/diversityForest/src/TreeSurvival.h | 8 diversityForest-0.3.0/diversityForest/src/divforCpp.cpp | 73 diversityForest-0.3.0/diversityForest/src/globals.h | 2 diversityForest-0.3.0/diversityForest/src/utility.cpp | 53 diversityForest-0.3.0/diversityForest/src/utility.h | 31 66 files changed, 4578 insertions(+), 1811 deletions(-)
More information about diversityForest at CRAN
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Title: Deep Learning for General Purpose
Description: Aims to provide simple intuitive functions to create quick prototypes of artificial neural network or deep learning models. In addition novel ensemble models like 'deeptree' and 'deepforest' has been included which combines decision trees and neural network.
Author: Rajesh Balakrishnan
Maintainer: Rajesh Balakirshnan <rajeshbalakrishnan24@gmail.com>
Diff between deepdive versions 1.0.1 dated 2020-03-26 and 1.0.2 dated 2021-04-01
deepdive-1.0.1/deepdive/man/figures |only deepdive-1.0.2/deepdive/DESCRIPTION | 10 deepdive-1.0.2/deepdive/LICENSE | 4 deepdive-1.0.2/deepdive/MD5 | 62 - deepdive-1.0.2/deepdive/NAMESPACE | 44 - deepdive-1.0.2/deepdive/NEWS.md |only deepdive-1.0.2/deepdive/R/backProp.R | 242 +++--- deepdive-1.0.2/deepdive/R/deepForest.R | 622 ++++++++--------- deepdive-1.0.2/deepdive/R/deepnet.R | 710 ++++++++++---------- deepdive-1.0.2/deepdive/R/deeptree.R | 508 +++++++------- deepdive-1.0.2/deepdive/R/feedForward.R | 176 ++-- deepdive-1.0.2/deepdive/R/miniBatchCreate.R | 62 - deepdive-1.0.2/deepdive/R/multiActivationList.R | 44 - deepdive-1.0.2/deepdive/R/multiDataCut.R | 114 +-- deepdive-1.0.2/deepdive/R/multiLayerIntialiser.R | 50 - deepdive-1.0.2/deepdive/R/multiVariableCut.R | 56 - deepdive-1.0.2/deepdive/R/optimiserAdjust.R | 142 ++-- deepdive-1.0.2/deepdive/R/predict.deepforest.R | 166 ++-- deepdive-1.0.2/deepdive/R/predict.deepnet.R | 235 +++--- deepdive-1.0.2/deepdive/R/predict.deeptree.R | 306 ++++---- deepdive-1.0.2/deepdive/R/shuffler.R | 120 +-- deepdive-1.0.2/deepdive/R/variableImportance.R | 152 ++-- deepdive-1.0.2/deepdive/R/weightIntialiser.R | 44 - deepdive-1.0.2/deepdive/R/weightUpdate.R | 304 ++++---- deepdive-1.0.2/deepdive/R/weightUpdateInitialiser.R | 40 - deepdive-1.0.2/deepdive/README.md | 171 ++-- deepdive-1.0.2/deepdive/man/deepforest.Rd | 294 ++++---- deepdive-1.0.2/deepdive/man/deepnet.Rd | 216 +++--- deepdive-1.0.2/deepdive/man/deeptree.Rd | 262 +++---- deepdive-1.0.2/deepdive/man/predict.deepforest.Rd | 42 - deepdive-1.0.2/deepdive/man/predict.deepnet.Rd | 42 - deepdive-1.0.2/deepdive/man/predict.deeptree.Rd | 50 - deepdive-1.0.2/deepdive/man/variableImportance.Rd | 50 - 33 files changed, 2674 insertions(+), 2666 deletions(-)
Title: Spatial Absorbing Markov Chains
Description: Implements functions for working with absorbing Markov chains. The
implementation is based on the framework described in "Toward a unified
framework for connectivity that disentangles movement and mortality in space
and time" by Fletcher et al. (2019) <doi:10.1111/ele.13333>, which applies
them to spatial ecology. This framework incorporates both resistance and
absorption with spatial absorbing Markov chains (SAMC) to provide several
short-term and long-term predictions for metrics related to connectivity in
landscapes. Despite the ecological context of the framework, this package
can be used in any application of absorbing Markov chains.
Author: Andrew Marx [aut, cre, cph] (<https://orcid.org/0000-0002-7456-1631>),
Robert Fletcher [ctb] (<https://orcid.org/0000-0003-1717-5707>),
Miguel Acevedo [ctb] (<https://orcid.org/0000-0002-8289-1497>),
Jorge Sefair [ctb] (<https://orcid.org/0000-0002-5887-8938>),
Chao Wang [ctb] (<https://orcid.org/0000-0003-2706-5122>)
Maintainer: Andrew Marx <andrewjmarx@ufl.edu>
Diff between samc versions 1.2.1 dated 2020-11-02 and 1.3.0 dated 2021-04-01
DESCRIPTION | 20 +- MD5 | 105 ++++++----- NEWS.md | 13 + R/check.R | 35 ++- R/cond_passage.R | 36 ++- R/dispersal.R | 73 ++++--- R/distribution.R | 41 ++-- R/internal-functions.R | 83 +++++++- R/locate.R | 7 R/location-class.R |only R/map.R | 10 - R/mortality.R | 69 ++++--- R/pairwise.R |only R/samc.R | 125 +++++++++---- R/survival.R | 6 R/visitation.R | 40 +++- build/vignette.rds |binary inst/doc/code-snippets.R |only inst/doc/code-snippets.Rmd |only inst/doc/code-snippets.html |only inst/doc/overview.R | 2 inst/doc/overview.Rmd | 11 - inst/doc/overview.html | 94 ++++----- inst/doc/performance.html | 23 -- inst/doc/troubleshooting.html | 136 ++++++-------- inst/doc/tutorial-animations.R | 2 inst/doc/tutorial-animations.html | 188 +++++++++---------- inst/doc/tutorial-basic.R | 2 inst/doc/tutorial-basic.Rmd | 2 inst/doc/tutorial-basic.html | 304 +++++++++++++++----------------- inst/doc/tutorial-ggplot.html | 252 ++++++++++++-------------- inst/doc/tutorial-locations.R |only inst/doc/tutorial-locations.Rmd |only inst/doc/tutorial-locations.html |only inst/doc/tutorial-temporal.R | 2 inst/doc/tutorial-temporal.Rmd | 2 inst/doc/tutorial-temporal.html | 224 +++++++++++------------ inst/examples/locate.R |only inst/examples/pairwise.R |only man/cond_passage.Rd | 31 +-- man/dispersal.Rd | 48 ++--- man/distribution.Rd | 28 +- man/locate.Rd | 56 ++--- man/location-class.Rd |only man/mortality.Rd | 40 ++-- man/pairwise.Rd |only man/samc.Rd | 73 +++++-- man/visitation.Rd | 28 +- tests/testthat/test-check.R |only tests/testthat/test-cond_passage.R | 70 ++++--- tests/testthat/test-dispersal.R | 147 ++++++--------- tests/testthat/test-distribution.R | 85 ++++---- tests/testthat/test-mortality.R | 161 ++++++++-------- tests/testthat/test-samc.R | 4 tests/testthat/test-visitation.R | 50 ++--- vignettes/code-snippets.Rmd |only vignettes/overview.Rmd | 11 - vignettes/scripts/tutorial-animations.R | 2 vignettes/tutorial-basic.Rmd | 2 vignettes/tutorial-locations.Rmd |only vignettes/tutorial-temporal.Rmd | 2 61 files changed, 1458 insertions(+), 1287 deletions(-)
Title: A Parallelized General-Purpose Optimization Based on
Marquardt-Levenberg Algorithm
Description: This algorithm provides a numerical solution to the
problem of unconstrained local minimization (or maximization). It is particularly suited for complex problems and more efficient than
the Gauss-Newton-like algorithm when starting from points very
far from the final minimum (or maximum). Each iteration is parallelized and convergence relies on a stringent stopping criterion based on the first and second derivatives. See Philipps et al, 2020 <arXiv:2009.03840>.
Author: Viviane Philipps, Cecile Proust-Lima, Melanie Prague, Boris Hejblum, Daniel Commenges, Amadou Diakite
Maintainer: Viviane Philipps <viviane.philipps@u-bordeaux.fr>
Diff between marqLevAlg versions 2.0.4 dated 2020-09-12 and 2.0.5 dated 2021-04-01
marqLevAlg-2.0.4/marqLevAlg/man/ForInternalUse.Rd |only marqLevAlg-2.0.5/marqLevAlg/DESCRIPTION | 14 marqLevAlg-2.0.5/marqLevAlg/MD5 | 49 - marqLevAlg-2.0.5/marqLevAlg/R/deriva.R | 2 marqLevAlg-2.0.5/marqLevAlg/R/deriva_grad.R | 1 marqLevAlg-2.0.5/marqLevAlg/R/func.R | 3 marqLevAlg-2.0.5/marqLevAlg/R/func1.R | 3 marqLevAlg-2.0.5/marqLevAlg/R/ghg.R | 4 marqLevAlg-2.0.5/marqLevAlg/R/marqLevAlg-package.R | 4 marqLevAlg-2.0.5/marqLevAlg/R/marqLevAlg.R | 12 marqLevAlg-2.0.5/marqLevAlg/R/print.marqLevAlg.R | 24 marqLevAlg-2.0.5/marqLevAlg/R/searpas.R | 3 marqLevAlg-2.0.5/marqLevAlg/R/summary.marqLevAlg.R | 33 + marqLevAlg-2.0.5/marqLevAlg/R/sup.R | 3 marqLevAlg-2.0.5/marqLevAlg/R/valfpa.R | 1 marqLevAlg-2.0.5/marqLevAlg/build/partial.rdb |binary marqLevAlg-2.0.5/marqLevAlg/inst/doc/mla.R | 332 +++++++++-- marqLevAlg-2.0.5/marqLevAlg/inst/doc/mla.Rmd | 526 +++++++++++++++--- marqLevAlg-2.0.5/marqLevAlg/inst/doc/mla.pdf |binary marqLevAlg-2.0.5/marqLevAlg/man/dataEx.Rd | 6 marqLevAlg-2.0.5/marqLevAlg/man/marqLevAlg-package.Rd | 4 marqLevAlg-2.0.5/marqLevAlg/man/marqLevAlg.Rd | 62 +- marqLevAlg-2.0.5/marqLevAlg/man/print.marqLevAlg.Rd | 81 +- marqLevAlg-2.0.5/marqLevAlg/man/summary.marqLevAlg.Rd | 104 +-- marqLevAlg-2.0.5/marqLevAlg/vignettes/mla.Rmd | 526 +++++++++++++++--- marqLevAlg-2.0.5/marqLevAlg/vignettes/mla.bib | 78 ++ 26 files changed, 1503 insertions(+), 372 deletions(-)
Title: Representation of DET Curve with Confidence Intervals
Description: Builds both ROC (Receiver Operating Characteristic) and DET (Detection Error Tradeoff) curves from a set of predictors, which are the
results of a binary classification system. The curves give a general vision of the performance of the classifier,
and are useful for comparing performance of different systems.
Author: García-Ródenas, Álvaro [aut, cre],
Franco, Manuel [aut],
Vivo, Juana-María [aut],
Fernández-Breis, Jesualdo T. [aut],
Font, Roberto [aut]
Maintainer: "García-Ródenas, Álvaro" <alvaro.garcia9@um.es>
Diff between DET versions 2.0.2 dated 2020-03-29 and 3.0.0 dated 2021-04-01
DET-2.0.2/DET/R/detcurve.R |only DET-2.0.2/DET/R/print.R |only DET-2.0.2/DET/man/detc.CI.Rd |only DET-2.0.2/DET/man/printDET.Rd |only DET-3.0.0/DET/DESCRIPTION | 10 +- DET-3.0.0/DET/MD5 | 36 ++++--- DET-3.0.0/DET/NAMESPACE | 52 +++++----- DET-3.0.0/DET/NEWS.md | 65 ++++++++----- DET-3.0.0/DET/R/classDefinitions.R |only DET-3.0.0/DET/R/detc.R |only DET-3.0.0/DET/R/internalFunctions.R |only DET-3.0.0/DET/R/measures.R |only DET-3.0.0/DET/R/ovarianCancer-data.R | 76 ++++++++------- DET-3.0.0/DET/R/plot.R |only DET-3.0.0/DET/R/show.R |only DET-3.0.0/DET/R/speaker-data.R | 79 ++++++++-------- DET-3.0.0/DET/man/EER.Rd |only DET-3.0.0/DET/man/detc.Rd | 170 ++++++++++++++++++----------------- DET-3.0.0/DET/man/detc.ci.Rd |only DET-3.0.0/DET/man/minDcf.Rd |only DET-3.0.0/DET/man/ovarianCancer.Rd | 36 ++++--- DET-3.0.0/DET/man/plot.DET.Rd |only DET-3.0.0/DET/man/plot.DETs.Rd |only DET-3.0.0/DET/man/plotROC.Rd |only DET-3.0.0/DET/man/plotROCs.Rd |only DET-3.0.0/DET/man/pointsEER.Rd |only DET-3.0.0/DET/man/show.DETs.Rd |only DET-3.0.0/DET/man/speaker.Rd | 46 +++++---- DET-3.0.0/DET/tests |only 29 files changed, 312 insertions(+), 258 deletions(-)
Title: 'shiny' App to Discover Cocktails
Description: A 'shiny' app to discover cocktails. The
app allows one to search for cocktails by ingredient,
filter on rating, and number of ingredients. The
package also contains data with the ingredients of
nearly 26 thousand cocktails scraped from the web.
Author: Steven E. Pav [aut, cre] (<https://orcid.org/0000-0002-4197-6195>)
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between cocktailApp versions 0.2.1 dated 2019-07-02 and 0.2.2 dated 2021-04-01
ChangeLog | 6 ++ DESCRIPTION | 9 +--- MD5 | 18 ++++---- R/cocktailApp.r | 92 +++++++++++++++++++++++++++++++++----------- README.md | 11 ++--- data/cocktails.rda |binary man/NEWS.Rd | 9 ++++ man/cocktailApp.Rd | 4 - man/cocktails.Rd | 14 +++--- tests/testthat/test-basic.r | 61 +++++++++++++++++++++++++++-- 10 files changed, 171 insertions(+), 53 deletions(-)
Title: Extracts the Backbone from Weighted Graphs
Description: Provides methods for extracting from a weighted graph
a binary or signed backbone that retains only the significant edges.
The user may input a weighted graph, or a bipartite graph
from which a weighted graph is first constructed via projection.
Backbone extraction methods include the stochastic degree sequence model (Neal, Z. P. (2014). <doi:10.1016/j.socnet.2014.06.001>),
hypergeometric model (Neal, Z. (2013). <doi:10.1007/s13278-013-0107-y>),
the fixed degree sequence model (Zweig, K. A., and Kaufmann, M. (2011). <doi:10.1007/s13278-011-0021-0>),
fixed column model, fixed fill model,
as well as a universal threshold method.
Author: Rachel Domagalski [aut, cre],
Zachary Neal [aut],
Bruce Sagan [aut]
Maintainer: Rachel Domagalski <domagal9@msu.edu>
Diff between backbone versions 1.3.1 dated 2021-02-16 and 1.4.0 dated 2021-04-01
backbone-1.3.1/backbone/R/hyperg.R |only backbone-1.3.1/backbone/man/bipartite.null.Rd |only backbone-1.3.1/backbone/man/class.convert.Rd |only backbone-1.3.1/backbone/man/rna.Rd |only backbone-1.3.1/backbone/tests/testthat/test-bipartite.null.R |only backbone-1.3.1/backbone/tests/testthat/test-class.convert.R |only backbone-1.3.1/backbone/vignettes/pandoc1c18612a2cfe.html |only backbone-1.3.1/backbone/vignettes/pandoc2fb8dd87a1d.html |only backbone-1.4.0/backbone/DESCRIPTION | 14 backbone-1.4.0/backbone/MD5 | 61 - backbone-1.4.0/backbone/NAMESPACE | 4 backbone-1.4.0/backbone/NEWS.md | 10 backbone-1.4.0/backbone/R/backbone.R | 27 backbone-1.4.0/backbone/R/backbone.extract.R | 19 backbone-1.4.0/backbone/R/fdsm.R | 38 backbone-1.4.0/backbone/R/fixedcol.R |only backbone-1.4.0/backbone/R/fixedfill.R |only backbone-1.4.0/backbone/R/fixedrow.R |only backbone-1.4.0/backbone/R/model.helpers.R | 292 ++--- backbone-1.4.0/backbone/R/sdsm.R | 35 backbone-1.4.0/backbone/R/universal.R | 22 backbone-1.4.0/backbone/README.md | 77 + backbone-1.4.0/backbone/build/partial.rdb |binary backbone-1.4.0/backbone/inst/doc/backbone.R | 14 backbone-1.4.0/backbone/inst/doc/backbone.Rmd | 91 + backbone-1.4.0/backbone/inst/doc/backbone.html | 489 +++++----- backbone-1.4.0/backbone/man/backbone.Rd | 27 backbone-1.4.0/backbone/man/backbone.extract.Rd | 10 backbone-1.4.0/backbone/man/fdsm.Rd | 3 backbone-1.4.0/backbone/man/figures |only backbone-1.4.0/backbone/man/fixedcol.Rd |only backbone-1.4.0/backbone/man/fixedfill.Rd |only backbone-1.4.0/backbone/man/fixedrow.Rd |only backbone-1.4.0/backbone/man/frommatrix.Rd |only backbone-1.4.0/backbone/man/hyperg.Rd | 9 backbone-1.4.0/backbone/man/sdsm.Rd | 5 backbone-1.4.0/backbone/man/tomatrix.Rd |only backbone-1.4.0/backbone/tests/testthat/test-backbone.extract.R | 8 backbone-1.4.0/backbone/tests/testthat/test-frommatrix.R |only backbone-1.4.0/backbone/tests/testthat/test-tomatrix.R |only backbone-1.4.0/backbone/vignettes/backbone.Rmd | 91 + 41 files changed, 731 insertions(+), 615 deletions(-)
Title: Multiple Imputation of Covariates by Substantive Model
Compatible Fully Conditional Specification
Description: Implements multiple imputation of missing covariates by
Substantive Model Compatible Fully Conditional Specification.
This is a modification of the popular FCS/chained equations
multiple imputation approach, and allows imputation of missing
covariate values from models which are compatible with the user
specified substantive model.
Author: Jonathan Bartlett [aut, cre],
Ruth Keogh [aut],
Claus Thorn Ekstrøm [ctb],
Edouard F. Bonneville [ctb]
Maintainer: Jonathan Bartlett <j.w.bartlett@bath.ac.uk>
Diff between smcfcs versions 1.4.2 dated 2020-12-07 and 1.5.0 dated 2021-04-01
DESCRIPTION | 8 MD5 | 87 - NAMESPACE | 17 R/data.r | 273 ++-- R/plot_convergence.R | 398 +++--- R/smcfcs.r | 2187 +++++++++++++++++---------------- README.md | 22 build/partial.rdb |only build/vignette.rds |binary data/ex_cc.rda |binary data/ex_compet.rda |binary data/ex_coxquad.rda |binary data/ex_dtsam.rda |only data/ex_lininter.rda |binary data/ex_linquad.rda |binary data/ex_logisticquad.rda |binary data/ex_ncc.rda |binary data/ex_poisson.rda |binary inst/doc/smcfcs-vignette.R | 96 - inst/doc/smcfcs-vignette.Rmd | 278 ++-- inst/doc/smcfcs-vignette.html | 959 +++++--------- inst/doc/smcfcs_coverror-vignette.R | 168 +- inst/doc/smcfcs_coverror-vignette.Rmd | 262 +-- inst/doc/smcfcs_coverror-vignette.html | 907 +++++-------- man/ex_cc.Rd | 50 man/ex_compet.Rd | 48 man/ex_coxquad.Rd | 50 man/ex_dtsam.Rd |only man/ex_lininter.Rd | 44 man/ex_linquad.Rd | 48 man/ex_logisticquad.Rd | 48 man/ex_ncc.Rd | 52 man/ex_poisson.Rd | 46 man/plot.smcfcs.Rd | 126 - man/smcfcs.Rd | 423 +++--- man/smcfcs.casecohort.Rd | 202 +-- man/smcfcs.dtsam.Rd |only man/smcfcs.nestedcc.Rd | 216 +-- tests/testthat/test_casecohort.r | 166 +- tests/testthat/test_coxph.r | 96 - tests/testthat/test_dtsam.r |only tests/testthat/test_errorchecks.R | 434 +++--- tests/testthat/test_measerror.r | 168 +- tests/testthat/test_nestedcc.R | 272 ++-- tests/testthat/test_weibull.r | 126 - vignettes/smcfcs-vignette.Rmd | 278 ++-- vignettes/smcfcs_coverror-vignette.Rmd | 262 +-- 47 files changed, 4268 insertions(+), 4549 deletions(-)
Title: R Package Installation from Remote Repositories, Including
'GitHub'
Description: Download and install R packages stored in 'GitHub', 'GitLab',
'Bitbucket', 'Bioconductor', or plain 'subversion' or 'git' repositories.
This package provides the 'install_*' functions in 'devtools'. Indeed most
of the code was copied over from 'devtools'.
Author: Jim Hester [aut, cre],
Gábor Csárdi [aut],
Hadley Wickham [aut],
Winston Chang [aut],
RStudio [cph],
Martin Morgan [aut],
Dan Tenenbaum [aut],
Mango Solutions [cph]
Maintainer: Jim Hester <jim.hester@rstudio.com>
Diff between remotes versions 2.2.0 dated 2020-07-21 and 2.3.0 dated 2021-04-01
DESCRIPTION | 8 - MD5 | 87 +++++++-------- NEWS.md | 22 +++ R/bioc-standalone.R | 4 R/deps.R | 26 +++- R/download.R | 2 R/github.R | 19 ++- R/install-bioc.R | 5 R/install-bitbucket.R | 2 R/install-cran.R | 2 R/install-github.R | 5 R/install-gitlab.R | 11 + R/install-remote.R | 16 ++ R/install.R | 7 - R/system_requirements.R | 73 +++++++++--- README.md | 15 -- build/vignette.rds |binary inst/doc/dependencies.html | 39 ++++++ inst/install-github.R | 170 +++++++++++++++++++++--------- man/github_remote.Rd | 2 man/install_bioc.Rd | 7 - man/install_bitbucket.Rd | 11 - man/install_cran.Rd | 9 - man/install_deps.Rd | 9 - man/install_git.Rd | 7 - man/install_github.Rd | 12 +- man/install_gitlab.Rd | 14 +- man/install_local.Rd | 7 - man/install_remote.Rd | 7 - man/install_svn.Rd | 7 - man/install_url.Rd | 7 - man/install_version.Rd | 7 - man/package_deps.Rd | 9 - man/standardise_dep.Rd | 2 man/system_requirements.Rd | 15 ++ man/update_packages.Rd | 7 - tests/testthat/helper.R | 2 tests/testthat/test-bioc.R | 2 tests/testthat/test-deps.R | 24 ++++ tests/testthat/test-download.R | 155 +++++++++++++-------------- tests/testthat/test-github.R | 10 + tests/testthat/test-install-gitlab.R | 12 ++ tests/testthat/test-install.R | 25 +--- tests/testthat/test-system_requirements.R | 12 ++ tests/testthat/urlremotes |only 45 files changed, 567 insertions(+), 327 deletions(-)
Title: Hazard Function Estimation in Survival Analysis
Description: Produces a smooth estimate of the hazard
function for censored data.
Author: S original by Kenneth Hess,
R port by R. Gentleman
Maintainer: David Winsemius <dwinsemius@comcast.net>
Diff between muhaz versions 1.2.6.2 dated 2021-03-29 and 1.2.6.3 dated 2021-04-01
DESCRIPTION | 10 +++++----- MD5 | 3 ++- src/init.c |only 3 files changed, 7 insertions(+), 6 deletions(-)
Title: Bayesian Summary Data Models for Mendelian Randomization Studies
Description: Bayesian estimation of inverse variance weighted (IVW), Burgess
et al. (2013) <doi:10.1002/gepi.21758>, and MR-Egger, Bowden et
al. (2015) <doi:10.1093/ije/dyv080>, summary data models for Mendelian
randomization analyses.
Author: Okezie Uche-Ikonne [aut, cre] (<https://orcid.org/0000-0002-8461-8099>),
Frank Dondelinger [aut] (<https://orcid.org/0000-0003-1816-6300>),
Tom Palmer [aut] (<https://orcid.org/0000-0003-4655-4511>)
Maintainer: Okezie Uche-Ikonne <o.uche-ikonne@lancaster.ac.uk>
Diff between mrbayes versions 0.2.0 dated 2020-05-28 and 0.3.0 dated 2021-04-01
mrbayes-0.2.0/mrbayes/R/do_data.R |only mrbayes-0.2.0/mrbayes/data/do_data.rda |only mrbayes-0.2.0/mrbayes/man/do_data.Rd |only mrbayes-0.3.0/mrbayes/DESCRIPTION | 12 mrbayes-0.3.0/mrbayes/MD5 | 112 - mrbayes-0.3.0/mrbayes/NAMESPACE | 50 mrbayes-0.3.0/mrbayes/NEWS.md | 18 mrbayes-0.3.0/mrbayes/R/bmi_insulin.R | 34 mrbayes-0.3.0/mrbayes/R/dodata.R |only mrbayes-0.3.0/mrbayes/R/mr_egger_rjags.R | 723 +++++----- mrbayes-0.3.0/mrbayes/R/mr_egger_stan.R | 160 +- mrbayes-0.3.0/mrbayes/R/mr_format.R | 78 - mrbayes-0.3.0/mrbayes/R/mr_ivw_rjags.R | 471 +++--- mrbayes-0.3.0/mrbayes/R/mr_ivw_stan.R | 135 - mrbayes-0.3.0/mrbayes/R/mr_radialegger_rjags.R | 713 ++++----- mrbayes-0.3.0/mrbayes/R/mr_radialegger_stan.R | 155 +- mrbayes-0.3.0/mrbayes/R/mrbayes-package.r | 31 mrbayes-0.3.0/mrbayes/R/mrinput_mrformat.R |only mrbayes-0.3.0/mrbayes/R/mvmr_egger_rjags.R |only mrbayes-0.3.0/mrbayes/R/mvmr_egger_stan.R |only mrbayes-0.3.0/mrbayes/R/mvmr_format.R |only mrbayes-0.3.0/mrbayes/R/mvmr_ivw_rjags.R |only mrbayes-0.3.0/mrbayes/R/mvmr_ivw_stan.R |only mrbayes-0.3.0/mrbayes/R/stanmodels.R | 56 mrbayes-0.3.0/mrbayes/R/tsmr_mrformat.R |only mrbayes-0.3.0/mrbayes/README.md | 88 - mrbayes-0.3.0/mrbayes/build |only mrbayes-0.3.0/mrbayes/configure.win | 8 mrbayes-0.3.0/mrbayes/data/dodata.rda |only mrbayes-0.3.0/mrbayes/inst/stan/include/license.stan | 28 mrbayes-0.3.0/mrbayes/inst/stan/mregger.stan | 190 +- mrbayes-0.3.0/mrbayes/inst/stan/mrivw.stan | 88 - mrbayes-0.3.0/mrbayes/inst/stan/mrradialegger.stan | 190 +- mrbayes-0.3.0/mrbayes/inst/stan/mvmregger.stan |only mrbayes-0.3.0/mrbayes/inst/stan/mvmrivw.stan |only mrbayes-0.3.0/mrbayes/man/bmi_insulin.Rd | 58 mrbayes-0.3.0/mrbayes/man/dodata.Rd |only mrbayes-0.3.0/mrbayes/man/mr_egger_rjags.Rd | 148 +- mrbayes-0.3.0/mrbayes/man/mr_egger_stan.Rd | 116 - mrbayes-0.3.0/mrbayes/man/mr_format.Rd | 70 mrbayes-0.3.0/mrbayes/man/mr_ivw_rjags.Rd | 132 - mrbayes-0.3.0/mrbayes/man/mr_ivw_stan.Rd | 104 - mrbayes-0.3.0/mrbayes/man/mr_radialegger_rjags.Rd | 148 +- mrbayes-0.3.0/mrbayes/man/mr_radialegger_stan.Rd | 116 - mrbayes-0.3.0/mrbayes/man/mrbayes-package.Rd | 27 mrbayes-0.3.0/mrbayes/man/mrinput_mr_format.Rd |only mrbayes-0.3.0/mrbayes/man/mvmr_egger_rjags.Rd |only mrbayes-0.3.0/mrbayes/man/mvmr_egger_stan.Rd |only mrbayes-0.3.0/mrbayes/man/mvmr_format.Rd |only mrbayes-0.3.0/mrbayes/man/mvmr_ivw_rjags.Rd |only mrbayes-0.3.0/mrbayes/man/mvmr_ivw_stan.Rd |only mrbayes-0.3.0/mrbayes/src/Makevars | 10 mrbayes-0.3.0/mrbayes/src/Makevars.win | 11 mrbayes-0.3.0/mrbayes/src/RcppExports.cpp | 4 mrbayes-0.3.0/mrbayes/src/stanExports_mregger.h | 20 mrbayes-0.3.0/mrbayes/src/stanExports_mrivw.h | 20 mrbayes-0.3.0/mrbayes/src/stanExports_mrradialegger.h | 20 mrbayes-0.3.0/mrbayes/src/stanExports_mvmregger.cc |only mrbayes-0.3.0/mrbayes/src/stanExports_mvmregger.h |only mrbayes-0.3.0/mrbayes/src/stanExports_mvmrivw.cc |only mrbayes-0.3.0/mrbayes/src/stanExports_mvmrivw.h |only mrbayes-0.3.0/mrbayes/tests/testthat.R | 8 mrbayes-0.3.0/mrbayes/tests/testthat/test-mr_egger_rjags.R | 223 +-- mrbayes-0.3.0/mrbayes/tests/testthat/test-mr_egger_stan.R | 146 +- mrbayes-0.3.0/mrbayes/tests/testthat/test-mr_ivw_rjags.R | 152 +- mrbayes-0.3.0/mrbayes/tests/testthat/test-mr_ivw_stan.R | 114 - mrbayes-0.3.0/mrbayes/tests/testthat/test-mr_radialegger_rjags.R | 222 +-- mrbayes-0.3.0/mrbayes/tests/testthat/test-mr_radialegger_stan.R | 146 +- mrbayes-0.3.0/mrbayes/tests/testthat/test-mvmr_egger_rjags.R |only mrbayes-0.3.0/mrbayes/tests/testthat/test-mvmr_egger_stan.R |only mrbayes-0.3.0/mrbayes/tests/testthat/test-mvmr_ivw_rjags.R |only mrbayes-0.3.0/mrbayes/tests/testthat/test-mvmr_ivw_stan.R |only 72 files changed, 2861 insertions(+), 2494 deletions(-)
Title: Cross-Platform Perl Based R Function to Create Excel 2003 (XLS)
and Excel 2007 (XLSX) Files
Description: Cross-platform Perl based R function to create Excel 2003 (XLS) and Excel 2007 (XLSX)
files from one or more data frames. Each data frame will be
written to a separate named worksheet in the Excel spreadsheet.
The worksheet name will be the name of the data frame it contains
or can be specified by the user.
Author: Marc Schwartz <marc_schwartz@me.com> and various authors for Perl modules listed in each .pm file.
Maintainer: Marc Schwartz <marc_schwartz@me.com>
Diff between WriteXLS versions 6.2.0 dated 2021-02-22 and 6.3.0 dated 2021-04-01
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/WriteXLS.R | 2 +- R/testPerl.R | 2 +- inst/Perl/WriteXLS.pl | 16 ++++++++++++++-- inst/Perl/WriteXLSX.pl | 16 ++++++++++++++-- 6 files changed, 39 insertions(+), 15 deletions(-)
Title: Extract Tables and Sentences from PDFs with User Interface
Description: The PDE (Pdf Data Extractor) allows the extraction of
information and tables optionally based on search words from
PDF (Portable Document Format) files and enables the visualization
of the results, both by providing a convenient user-interface.
Author: Erik Stricker [aut, cre]
Maintainer: Erik Stricker <erik.stricker@gmx.com>
Diff between PDE versions 1.1.2 dated 2020-11-26 and 1.2.1 dated 2021-04-01
PDE-1.1.2/PDE/man/PDE_install_XpdfReader4.02.Rd |only PDE-1.1.2/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.input_output_MTX_example.png |only PDE-1.1.2/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.input_output_empty.png |only PDE-1.2.1/PDE/DESCRIPTION | 9 PDE-1.2.1/PDE/MD5 | 63 PDE-1.2.1/PDE/NAMESPACE | 1 PDE-1.2.1/PDE/NEWS.md | 17 PDE-1.2.1/PDE/R/PDE.R | 1099 +++++----- PDE-1.2.1/PDE/README.md | 153 - PDE-1.2.1/PDE/inst/doc/PDE.R | 15 PDE-1.2.1/PDE/inst/doc/PDE.Rmd | 125 - PDE-1.2.1/PDE/inst/doc/PDE.html | 93 PDE-1.2.1/PDE/man/PDE-deprecated.Rd | 2 PDE-1.2.1/PDE/man/PDE.Rd | 4 PDE-1.2.1/PDE/man/PDE_analyzer.Rd | 3 PDE-1.2.1/PDE/man/PDE_extr_data_from_pdfs.Rd | 30 PDE-1.2.1/PDE/man/PDE_path.Rd | 2 PDE-1.2.1/PDE/man/PDE_pdfs2table.Rd | 12 PDE-1.2.1/PDE/man/PDE_pdfs2table_searchandfilter.Rd | 22 PDE-1.2.1/PDE/man/PDE_pdfs2txt_searchandfilter.Rd | 16 PDE-1.2.1/PDE/man/dot-PDE_extr_data_from_pdf.Rd | 26 PDE-1.2.1/PDE/vignettes/PDE.Rmd | 125 - PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.choose_variables_empty.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.docus_MTX_example.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.docus_empty.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.filter_words_MTX_example.png |only PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.filter_words_empty.png |only PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.parameters_MTX_example.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.parameters_empty.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.search_words_MTX_example.png |only PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.search_words_empty.png |only PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface.start_MTX_example.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface_MTX_example.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface_empty_linux.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface_empty_mac.png |binary PDE-1.2.1/PDE/vignettes/scrnshots/Screenshot_PDE_analyzer_user_interface_empty_win.png |binary 36 files changed, 1016 insertions(+), 801 deletions(-)
Title: Bootstrap Inference for Multiple Imputation
Description: Bootstraps and imputes incomplete datasets. Then performs inference on estimates obtained from analysing the imputed datasets as proposed by von Hippel and Bartlett (2019) <arXiv:1210.0870v10>.
Author: Jonathan Bartlett
Maintainer: Jonathan Bartlett <j.w.bartlett@bath.ac.uk>
Diff between bootImpute versions 1.1.0 dated 2020-07-10 and 1.2.0 dated 2021-04-01
DESCRIPTION | 6 +- MD5 | 16 ++--- NEWS.md | 9 --- R/bootImpute.R | 32 ++++++++--- R/bootMice.R | 16 +++-- R/bootSmcfcs.R | 12 ++-- man/bootImpute.Rd | 35 +++++++----- tests/testthat/test_bootImpute.r | 110 ++++++++++++++++++++++++++++++++------- tests/testthat/test_parallel.R | 68 +++++++++++++++++------- 9 files changed, 215 insertions(+), 89 deletions(-)
Title: Function Collection Related to Plotting and Hydrology
Description: Draw horizontal histograms, color scattered points by 3rd dimension,
enhance date- and log-axis plots, zoom in X11 graphics, trace errors and warnings,
use the unit hydrograph in a linear storage cascade, convert lists to data.frames and arrays,
fit multiple functions.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>
Diff between berryFunctions versions 1.19.1 dated 2020-06-06 and 1.20.1 dated 2021-04-01
berryFunctions-1.19.1/berryFunctions/inst/extdata/RainfallStationsMap.pdf |only berryFunctions-1.20.1/berryFunctions/DESCRIPTION | 12 berryFunctions-1.20.1/berryFunctions/MD5 | 183 +-- berryFunctions-1.20.1/berryFunctions/NAMESPACE | 7 berryFunctions-1.20.1/berryFunctions/NEWS | 20 berryFunctions-1.20.1/berryFunctions/R/TFtest.R | 6 berryFunctions-1.20.1/berryFunctions/R/checkFile.R | 33 berryFunctions-1.20.1/berryFunctions/R/classify.R | 27 berryFunctions-1.20.1/berryFunctions/R/climateGraph.R | 24 berryFunctions-1.20.1/berryFunctions/R/colPoints.R | 2 berryFunctions-1.20.1/berryFunctions/R/combineFiles.R | 3 berryFunctions-1.20.1/berryFunctions/R/compareDist.R |only berryFunctions-1.20.1/berryFunctions/R/compareFiles.R | 2 berryFunctions-1.20.1/berryFunctions/R/createPres.R | 63 + berryFunctions-1.20.1/berryFunctions/R/dataStr.R | 55 - berryFunctions-1.20.1/berryFunctions/R/distance.R | 3 berryFunctions-1.20.1/berryFunctions/R/funnelPlot.R | 8 berryFunctions-1.20.1/berryFunctions/R/getName.R | 4 berryFunctions-1.20.1/berryFunctions/R/gof.R | 4 berryFunctions-1.20.1/berryFunctions/R/googleLink2pdf.R | 4 berryFunctions-1.20.1/berryFunctions/R/groupHist.R | 5 berryFunctions-1.20.1/berryFunctions/R/if.error.R |only berryFunctions-1.20.1/berryFunctions/R/insertRows.R | 2 berryFunctions-1.20.1/berryFunctions/R/l2array.R | 3 berryFunctions-1.20.1/berryFunctions/R/l2df.R | 10 berryFunctions-1.20.1/berryFunctions/R/learnVocab.R | 2 berryFunctions-1.20.1/berryFunctions/R/library2.R | 14 berryFunctions-1.20.1/berryFunctions/R/linLogTrans.R | 6 berryFunctions-1.20.1/berryFunctions/R/locatorRS.R |only berryFunctions-1.20.1/berryFunctions/R/logSpaced.R | 4 berryFunctions-1.20.1/berryFunctions/R/logVals.R | 3 berryFunctions-1.20.1/berryFunctions/R/lsMem.R | 2 berryFunctions-1.20.1/berryFunctions/R/lsc.R | 6 berryFunctions-1.20.1/berryFunctions/R/mReg.R | 2 berryFunctions-1.20.1/berryFunctions/R/normalizePathCP.R | 2 berryFunctions-1.20.1/berryFunctions/R/owa.R | 8 berryFunctions-1.20.1/berryFunctions/R/pal.R | 12 berryFunctions-1.20.1/berryFunctions/R/popleaf.R | 15 berryFunctions-1.20.1/berryFunctions/R/rescale.R | 2 berryFunctions-1.20.1/berryFunctions/R/runTime.R |only berryFunctions-1.20.1/berryFunctions/R/seasonality.R | 2 berryFunctions-1.20.1/berryFunctions/R/seqR.R | 3 berryFunctions-1.20.1/berryFunctions/R/smallPlot.R | 2 berryFunctions-1.20.1/berryFunctions/R/sumatraInitialize.R | 49 berryFunctions-1.20.1/berryFunctions/R/testExamples.R | 1 berryFunctions-1.20.1/berryFunctions/R/textField.R | 4 berryFunctions-1.20.1/berryFunctions/R/timer.R | 2 berryFunctions-1.20.1/berryFunctions/R/traceCall.R | 7 berryFunctions-1.20.1/berryFunctions/R/tryStack.R | 8 berryFunctions-1.20.1/berryFunctions/R/unitHydrograph.R | 9 berryFunctions-1.20.1/berryFunctions/README.md | 8 berryFunctions-1.20.1/berryFunctions/build/vignette.rds |binary berryFunctions-1.20.1/berryFunctions/inst/doc/berryFunctions.html | 541 +++------- berryFunctions-1.20.1/berryFunctions/man/TFtest.Rd | 1 berryFunctions-1.20.1/berryFunctions/man/catPal.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/checkFile.Rd | 6 berryFunctions-1.20.1/berryFunctions/man/classify.Rd | 17 berryFunctions-1.20.1/berryFunctions/man/climateGraph.Rd | 391 +++---- berryFunctions-1.20.1/berryFunctions/man/colPoints.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/combineFiles.Rd | 3 berryFunctions-1.20.1/berryFunctions/man/compareDist.Rd |only berryFunctions-1.20.1/berryFunctions/man/compareFiles.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/createPres.Rd | 7 berryFunctions-1.20.1/berryFunctions/man/dataStr.Rd | 25 berryFunctions-1.20.1/berryFunctions/man/distance.Rd | 3 berryFunctions-1.20.1/berryFunctions/man/divPal.Rd | 6 berryFunctions-1.20.1/berryFunctions/man/funnelPlot.Rd | 8 berryFunctions-1.20.1/berryFunctions/man/getName.Rd | 4 berryFunctions-1.20.1/berryFunctions/man/gof.Rd | 4 berryFunctions-1.20.1/berryFunctions/man/googleLink2pdf.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/groupHist.Rd | 3 berryFunctions-1.20.1/berryFunctions/man/if.error.Rd |only berryFunctions-1.20.1/berryFunctions/man/insertRows.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/l2array.Rd | 3 berryFunctions-1.20.1/berryFunctions/man/l2df.Rd | 10 berryFunctions-1.20.1/berryFunctions/man/learnVocab.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/library2.Rd | 10 berryFunctions-1.20.1/berryFunctions/man/linLogTrans.Rd | 6 berryFunctions-1.20.1/berryFunctions/man/locatorRS.Rd |only berryFunctions-1.20.1/berryFunctions/man/logSpaced.Rd | 4 berryFunctions-1.20.1/berryFunctions/man/logVals.Rd | 3 berryFunctions-1.20.1/berryFunctions/man/lsMem.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/lsc.Rd | 6 berryFunctions-1.20.1/berryFunctions/man/mReg.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/owa.Rd | 8 berryFunctions-1.20.1/berryFunctions/man/popleaf.Rd | 19 berryFunctions-1.20.1/berryFunctions/man/rescale.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/runTime.Rd |only berryFunctions-1.20.1/berryFunctions/man/seasonality.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/seqPal.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/seqR.Rd | 3 berryFunctions-1.20.1/berryFunctions/man/showPal.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/sumatraInitialize.Rd | 5 berryFunctions-1.20.1/berryFunctions/man/textField.Rd | 4 berryFunctions-1.20.1/berryFunctions/man/timer.Rd | 2 berryFunctions-1.20.1/berryFunctions/man/tryStack.Rd | 8 berryFunctions-1.20.1/berryFunctions/man/unitHydrograph.Rd | 9 97 files changed, 933 insertions(+), 863 deletions(-)
More information about berryFunctions at CRAN
Permanent link
Title: A 'HTTP' Server Graphics Device
Description: A graphics device for R that is accessible via network protocols.
This package was created to make it easier to embed live R graphics in
integrated development environments and other applications.
The included 'HTML/JavaScript' client (plot viewer) aims to provide a better overall user experience when dealing with R graphics.
The device asynchronously serves 'SVG' graphics via 'HTTP' and 'WebSockets'.
Author: Florian Rupprecht [aut, cre] (<https://orcid.org/0000-0002-1795-8624>),
Kun Ren [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Hadley Wickham [cph] (Author of included svglite code),
Lionel Henry [cph] (Author of included svglite code),
Thomas Lin Pedersen [cph] (Author and creator of included svglite code),
T Jake Luciani [cph] (Author of included svglite code),
Matthieu Decorde [cph] (Author of included svglite code),
Vaudor Lise [cph] (Author of included svglite code),
Tony Plate [cph] (Contributor to included svglite code),
David Gohel [cph] (Contributor to included svglite code),
Yixuan Qiu [cph] (Contributor to included svglite code),
Håkon Malmedal [cph] (Contributor to included svglite code),
RStudio [cph] (Copyright holder of included svglite code),
Brett Robinson [cph] (Author of included belle library),
Google [cph] (Copyright holder of included material design icons),
Victor Zverovich [cph] (Author of included fmt library)
Maintainer: Florian Rupprecht <floruppr@gmail.com>
Diff between httpgd versions 1.0.1 dated 2021-01-21 and 1.1.0 dated 2021-04-01
DESCRIPTION | 14 MD5 | 86 - NAMESPACE | 1 NEWS.md | 12 R/cpp11.R | 26 R/httpgd.R | 330 ++++-- README.md | 94 - build |only inst/doc |only inst/www/httpgd.js | 487 +++++---- inst/www/index.html | 346 +++--- inst/www/plot-none.svg |only inst/www/style.css |only man/hgd.Rd | 8 man/hgd_browse.Rd | 6 man/hgd_clear.Rd | 2 man/hgd_close.Rd | 5 man/hgd_id.Rd |only man/hgd_inline.Rd | 10 man/hgd_remove.Rd | 8 man/hgd_state.Rd | 4 man/hgd_svg.Rd | 16 man/hgd_url.Rd | 23 src/DrawData.cpp | 860 +++++++--------- src/DrawData.h | 330 +++--- src/Httpgd.cpp | 93 + src/HttpgdApi.h | 12 src/HttpgdApiAsync.cpp | 30 src/HttpgdApiAsync.h | 9 src/HttpgdCommons.h | 20 src/HttpgdDataStore.cpp | 175 ++- src/HttpgdDataStore.h | 63 - src/HttpgdDev.cpp | 198 ++- src/HttpgdDev.h | 16 src/HttpgdGeom.h |only src/HttpgdWebServer.cpp | 200 ++- src/HttpgdWebServer.h | 1 src/Makevars.win | 2 src/cpp11.cpp | 38 src/devGeneric.cpp | 8 src/lib/fmt/core.h | 448 ++++++-- src/lib/fmt/format-inl.h | 1896 +++++++++++++++++++++++++++++++------ src/lib/fmt/format.h | 1157 +++++++++++++--------- src/lib/fmt/ostream.h | 28 src/lib/svglite_utils.h | 54 - tests/testthat/test-svglite-rect.R | 6 vignettes |only 47 files changed, 4728 insertions(+), 2394 deletions(-)
Title: Interactive Genomic Visualization of Biological Data
Description: Provides interactive, configurable and elegant graphics visualization of the chromosomes or chromosome regions
of any living organism allowing users to map chromosome elements (like genes, SNPs etc.) on the chromosome plot. It introduces
a special plot viz. the "chromosome heatmap" that, in addition to mapping elements, can visualize the data
associated with chromosome elements (like gene expression) in the form of heat colors which can be highly
advantageous in the scientific interpretations and research work. Because of the large size of the chromosomes,
it is impractical to visualize each element on the same plot. However, the plot provides a magnified view for each
of chromosome locus to render additional information and visualization specific for that location. You can map
thousands of genes and can view all mappings easily. Users can investigate the detailed information about the mappings
(like gene names or total genes mapped on a location) or can view the magnified single or double stranded view of the
chromosome at a location showing each mapped element in sequential order. The package provide multiple features
like visualizing multiple sets, chromosome heat-maps, group annotations, adding hyperlinks, and labelling.
The plots can be saved as HTML documents that can be customized and shared easily. In addition, you can include them in R Markdown or in R 'Shiny' applications.
Author: Lakshay Anand [aut, cre]
Maintainer: Lakshay Anand <lakshayanand15@gmail.com>
Diff between chromoMap versions 0.3 dated 2021-01-13 and 0.3.1 dated 2021-04-01
DESCRIPTION | 6 MD5 | 29 NAMESPACE | 2 R/chromoMap.R | 390 +++++-- inst/doc/chromoMap.R | 254 ++++ inst/doc/chromoMap.Rmd | 395 +++++++ inst/doc/chromoMap.html | 1111 ++++++++++++++++++-- inst/htmlwidgets/chromoMap.js | 10 inst/htmlwidgets/lib/chromoMap-3.0/chromoMap-3.0.js | 630 +++++++++++ man/chromoMap.Rd | 52 vignettes/chromoMap.Rmd | 395 +++++++ vignettes/data/ANNO_DATA_FOR_CATSCATTER.txt |only vignettes/data/SLINK22.csv |only vignettes/data/SLINK_anno.txt |only vignettes/data/SLINK_chr.txt |only vignettes/data/SLINK_link1.csv |only vignettes/data/SLINK_link2.csv |only vignettes/data/TEST_LINKSSS.csv |only vignettes/data/TEST_anno.txt |only vignettes/data/TEST_chr.txt |only 20 files changed, 3052 insertions(+), 222 deletions(-)
Title: Origin Estimation for Propagation Processes on Complex Networks
Description: Performs network-based source estimation. Different approaches are available: effective distance median, recursive backtracking, and centrality-based source estimation. Additionally, we provide public transportation network data as well as methods for data preparation, source estimation performance analysis and visualization.
Author: Juliane Manitz [aut, cre],
Jonas Harbering [ctb],
Jun Li [ctb]
Maintainer: Juliane Manitz <r@manitz.org>
Diff between NetOrigin versions 1.0-3 dated 2018-04-19 and 1.1-2 dated 2021-04-01
NetOrigin-1.0-3/NetOrigin/man/plot.Rd |only NetOrigin-1.1-2/NetOrigin/DESCRIPTION | 24 NetOrigin-1.1-2/NetOrigin/MD5 | 60 NetOrigin-1.1-2/NetOrigin/NAMESPACE | 83 - NetOrigin-1.1-2/NetOrigin/R/0_helper_net.r | 192 +- NetOrigin-1.1-2/NetOrigin/R/NetOrigin.r | 40 NetOrigin-1.1-2/NetOrigin/R/compute_mu_lambda.R |only NetOrigin-1.1-2/NetOrigin/R/data.r | 256 +-- NetOrigin-1.1-2/NetOrigin/R/data_handling.r | 144 - NetOrigin-1.1-2/NetOrigin/R/distance.r | 276 +-- NetOrigin-1.1-2/NetOrigin/R/initial_condition_sib_model.R |only NetOrigin-1.1-2/NetOrigin/R/origin_helper.r | 626 ++++--- NetOrigin-1.1-2/NetOrigin/R/origin_methods.r | 862 ++++++----- NetOrigin-1.1-2/NetOrigin/R/robustness.r | 274 +-- NetOrigin-1.1-2/NetOrigin/R/stochastic_sib_model.R |only NetOrigin-1.1-2/NetOrigin/README.md |only NetOrigin-1.1-2/NetOrigin/man/NetOrigin.Rd | 48 NetOrigin-1.1-2/NetOrigin/man/aggr_data.Rd | 51 NetOrigin-1.1-2/NetOrigin/man/analyze_ptn.Rd | 91 - NetOrigin-1.1-2/NetOrigin/man/compute_mu_lambda.Rd |only NetOrigin-1.1-2/NetOrigin/man/delay-data.Rd | 131 - NetOrigin-1.1-2/NetOrigin/man/eff_dist.Rd | 106 - NetOrigin-1.1-2/NetOrigin/man/initial_condition_sib_model.Rd |only NetOrigin-1.1-2/NetOrigin/man/origin-methods.Rd | 127 - NetOrigin-1.1-2/NetOrigin/man/origin.Rd | 305 ++- NetOrigin-1.1-2/NetOrigin/man/origin_multiple.Rd | 104 - NetOrigin-1.1-2/NetOrigin/man/performance.Rd | 39 NetOrigin-1.1-2/NetOrigin/man/plot_performance.Rd | 148 - NetOrigin-1.1-2/NetOrigin/man/plot_ptn.Rd | 76 NetOrigin-1.1-2/NetOrigin/man/ptn-data.Rd | 95 - NetOrigin-1.1-2/NetOrigin/man/read_DB_data.Rd | 43 NetOrigin-1.1-2/NetOrigin/man/robustness-methods.Rd | 71 NetOrigin-1.1-2/NetOrigin/man/robustness.Rd | 124 - NetOrigin-1.1-2/NetOrigin/man/stochastic_sib_model.Rd |only NetOrigin-1.1-2/NetOrigin/man/var_wtd_mean_cochran.Rd | 53 35 files changed, 2316 insertions(+), 2133 deletions(-)
Title: Extract, Analyze and Visualize Mutational Signatures for Genomic
Variations
Description: Genomic alterations including single nucleotide
substitution, copy number alteration, etc. are the major force for
cancer initialization and development. Due to the specificity of
molecular lesions caused by genomic alterations, we can generate
characteristic alteration spectra, called 'signature' (Wang, Shixiang,
et al. (2020) <DOI:10.1101/2020.04.27.20082404> & Alexandrov, Ludmil
B., et al. (2020) <DOI:10.1038/s41586-020-1943-3>). This package helps
users to extract, analyze and visualize signatures from genomic
alteration records, thus providing new insight into cancer study.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>),
Ziyu Tao [aut] (<https://orcid.org/0000-0003-3272-1227>),
Huimin Li [aut] (<https://orcid.org/0000-0003-1683-9057>),
Tao Wu [aut] (<https://orcid.org/0000-0002-8999-9628>),
Xue-Song Liu [aut, ctb] (<https://orcid.org/0000-0002-7736-0077>),
Anand Mayakonda [ctb]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between sigminer versions 1.2.5 dated 2021-02-19 and 2.0.0 dated 2021-04-01
sigminer-1.2.5/sigminer/R/CN-mutex-classification-methed.R |only sigminer-1.2.5/sigminer/R/get_tidy_parameter.R |only sigminer-1.2.5/sigminer/R/helper_calc_sum_of_events.R |only sigminer-1.2.5/sigminer/R/helper_fit_cn_components.R |only sigminer-1.2.5/sigminer/R/show_sig_number_survey.R |only sigminer-1.2.5/sigminer/R/show_sig_number_survey2.R |only sigminer-1.2.5/sigminer/man/get_tidy_parameter.Rd |only sigminer-1.2.5/sigminer/man/show_sig_number_survey.Rd |only sigminer-1.2.5/sigminer/man/show_sig_number_survey2.Rd |only sigminer-2.0.0/sigminer/DESCRIPTION | 29 - sigminer-2.0.0/sigminer/MD5 | 125 ++-- sigminer-2.0.0/sigminer/NAMESPACE | 3 sigminer-2.0.0/sigminer/NEWS.md | 35 + sigminer-2.0.0/sigminer/R/CN-mutex-classification-method.R |only sigminer-2.0.0/sigminer/R/best_practice.R | 30 - sigminer-2.0.0/sigminer/R/generate_matrices.R | 2 sigminer-2.0.0/sigminer/R/get.R | 196 ------- sigminer-2.0.0/sigminer/R/get_reconstructed_similarity.R | 45 + sigminer-2.0.0/sigminer/R/get_shannon_diversity_index.R | 3 sigminer-2.0.0/sigminer/R/get_sig_cancer_type_index.R | 12 sigminer-2.0.0/sigminer/R/get_sig_db.R | 54 ++ sigminer-2.0.0/sigminer/R/get_sig_feature_association.R | 2 sigminer-2.0.0/sigminer/R/get_sig_similarity.R | 10 sigminer-2.0.0/sigminer/R/get_sv.R | 130 ++--- sigminer-2.0.0/sigminer/R/group_enrichment.R | 1 sigminer-2.0.0/sigminer/R/helper_normalize_by_feature.R | 66 -- sigminer-2.0.0/sigminer/R/output.R | 9 sigminer-2.0.0/sigminer/R/read_vcf.R | 27 - sigminer-2.0.0/sigminer/R/show_catalogue.R | 21 sigminer-2.0.0/sigminer/R/show_cn_components.R | 234 +-------- sigminer-2.0.0/sigminer/R/show_cn_features.R | 129 ---- sigminer-2.0.0/sigminer/R/show_cn_group_profile.R | 6 sigminer-2.0.0/sigminer/R/show_group_enrichment.R | 83 ++- sigminer-2.0.0/sigminer/R/show_sig_profile.R | 103 --- sigminer-2.0.0/sigminer/R/show_sig_profile_heatmap.R | 2 sigminer-2.0.0/sigminer/R/sig_estimate.R | 260 +++++++++- sigminer-2.0.0/sigminer/R/sig_fit.R | 13 sigminer-2.0.0/sigminer/R/sig_tally.R | 115 ---- sigminer-2.0.0/sigminer/R/sigminer.R | 1 sigminer-2.0.0/sigminer/R/utils.R | 21 sigminer-2.0.0/sigminer/R/zzz.R | 2 sigminer-2.0.0/sigminer/README.md | 9 sigminer-2.0.0/sigminer/build/partial.rdb |binary sigminer-2.0.0/sigminer/inst/doc/sigminer.html | 45 + sigminer-2.0.0/sigminer/inst/extdata/e1.RData |only sigminer-2.0.0/sigminer/inst/extdata/toy_copynumber_tally_M.RData |binary sigminer-2.0.0/sigminer/man/bp.Rd | 20 sigminer-2.0.0/sigminer/man/figures/README-unnamed-chunk-1-1.png |binary sigminer-2.0.0/sigminer/man/figures/README-unnamed-chunk-2-1.png |binary sigminer-2.0.0/sigminer/man/figures/README-unnamed-chunk-3-1.png |binary sigminer-2.0.0/sigminer/man/figures/README-unnamed-chunk-4-1.png |binary sigminer-2.0.0/sigminer/man/figures/README-unnamed-chunk-5-1.png |binary sigminer-2.0.0/sigminer/man/figures/README-unnamed-chunk-8-1.png |binary sigminer-2.0.0/sigminer/man/get_sig_db.Rd | 3 sigminer-2.0.0/sigminer/man/get_sig_feature_association.Rd | 4 sigminer-2.0.0/sigminer/man/get_sig_rec_similarity.Rd | 2 sigminer-2.0.0/sigminer/man/get_sig_similarity.Rd | 7 sigminer-2.0.0/sigminer/man/read_sv_as_rs.Rd | 14 sigminer-2.0.0/sigminer/man/read_vcf.Rd | 7 sigminer-2.0.0/sigminer/man/show_catalogue.Rd | 11 sigminer-2.0.0/sigminer/man/show_cn_components.Rd | 30 - sigminer-2.0.0/sigminer/man/show_cn_features.Rd | 16 sigminer-2.0.0/sigminer/man/show_cosmic_sig_profile.Rd | 3 sigminer-2.0.0/sigminer/man/show_group_enrichment.Rd | 15 sigminer-2.0.0/sigminer/man/show_sig_profile.Rd | 37 - sigminer-2.0.0/sigminer/man/sig_estimate.Rd | 134 ++++- sigminer-2.0.0/sigminer/man/sig_fit.Rd | 7 sigminer-2.0.0/sigminer/man/sig_fit_bootstrap.Rd | 3 sigminer-2.0.0/sigminer/man/sig_tally.Rd | 59 -- 69 files changed, 1047 insertions(+), 1148 deletions(-)
Title: Reading Annual Financial Reports from Bovespa's DFP, FRE and FCA
System
Description: Reads annual financial reports including assets, liabilities, dividends history, stockholder composition and much more from Bovespa's DFP, FRE and FCA systems <http://www.b3.com.br/pt_br/produtos-e-servicos/negociacao/renda-variavel/empresas-listadas.htm>.
These are web based interfaces for all financial reports of companies traded at Bovespa. The package is specially designed for large scale data importation, keeping a tabular (long) structure for easier processing.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between GetDFPData versions 1.5.3 dated 2020-05-18 and 1.6 dated 2021-04-01
DESCRIPTION | 16 - MD5 | 16 - NEWS.md | 5 R/gdfpd_utils.R | 18 + README.md | 11 - build/vignette.rds |binary inst/doc/gdfpd-vignette-introduction.Rmd | 8 inst/doc/gdfpd-vignette-introduction.html | 306 +++++++----------------------- vignettes/gdfpd-vignette-introduction.Rmd | 8 9 files changed, 129 insertions(+), 259 deletions(-)
Title: Shape Constrained Additive Models
Description: Routines for generalized additive modelling under shape
constraints on the component functions of the linear predictor
(Pya and Wood, 2015) <doi:10.1007/s11222-013-9448-7>.
Models can contain multiple shape constrained (univariate
and/or bivariate) and unconstrained terms. The routines of gam()
in package 'mgcv' are used for setting up the model matrix,
printing and plotting the results. Penalized likelihood
maximization based on Newton-Raphson method is used to fit a
model with multiple smoothing parameter selection by GCV or
UBRE/AIC.
Author: Natalya Pya <nat.pya@gmail.com>
Maintainer: Natalya Pya <nat.pya@gmail.com>
Diff between scam versions 1.2-10 dated 2021-02-01 and 1.2-11 dated 2021-04-01
ChangeLog | 13 DESCRIPTION | 8 MD5 | 52 - NAMESPACE | 32 + R/bfgs.r | 4 R/estimate.scam.R | 2 R/plot.r | 19 R/print.scam.R | 1 R/scam.r | 28 - R/summary.scam.R | 143 ++--- R/uni.smooth.const-with-po.r | 840 ++++++++++++++++++++++++++++++- build/partial.rdb |binary man/Predict.matrix.mpi.smooth.Rd | 16 man/linear.functional.terms.Rd | 42 + man/plot.scam.Rd | 6 man/predict.scam.Rd | 14 man/scam.Rd | 117 +--- man/smooth.construct.cv.smooth.spec.rd | 79 ++ man/smooth.construct.cx.smooth.spec.Rd | 113 ++-- man/smooth.construct.mdcv.smooth.spec.Rd | 45 + man/smooth.construct.mdcx.smooth.spec.Rd | 47 + man/smooth.construct.micv.smooth.spec.Rd | 52 + man/smooth.construct.micx.smooth.spec.Rd | 56 +- man/smooth.construct.mpd.smooth.spec.Rd | 86 ++- man/smooth.construct.mpi.smooth.spec.Rd | 102 +++ man/summary.scam.Rd | 4 man/vis.scam.Rd | 13 27 files changed, 1567 insertions(+), 367 deletions(-)
Title: Utilities for Handling Strings and Text
Description: Utilities for handling character vectors
that store human-readable text (either plain or with
markup, such as HTML or LaTeX). The package provides,
in particular, functions that help with the
preparation of plain-text reports, e.g. for expanding
and aligning strings that form the lines of such
reports. The package also provides generic functions for
transforming R objects to HTML and to plain text.
Author: Enrico Schumann [aut, cre] (<https://orcid.org/0000-0001-7601-6576>)
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between textutils versions 0.2-0 dated 2020-01-07 and 0.2-1 dated 2021-04-01
DESCRIPTION | 8 ++++---- MD5 | 25 +++++++++++++------------ NAMESPACE | 1 + NEWS | 16 ++++++++++++++++ R/functions.R | 27 +++++++++++++++++++++------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/btable.pdf |binary inst/tinytest/test_HTMLdecode.R | 9 +++++++++ inst/tinytest/test_toHTML.R |only man/btable.Rd | 2 +- man/dctable.Rd | 2 +- man/toHTML.Rd | 7 ++++++- man/toText.Rd | 6 +++--- 14 files changed, 75 insertions(+), 28 deletions(-)
Title: Sign-Simplicity-Regression-Solver
Description: Implementation of the SSR-Algorithm. The Sign-Simplicity-Regression model is a nonparametric statistical model which is based on residual signs and simplicity assumptions on the regression function. Goal is to calculate the most parsimonious regression function satisfying the statistical adequacy requirements. Theory and functions are specified in Metzner (2020, ISBN: 979-8-68239-420-3, "Trendbasierte Prognostik") and Metzner (2021, ISBN: 979-8-59347-027-0, "Adäquates Maschinelles Lernen").
Author: Lars Metzner [aut, cre]
Maintainer: Lars Metzner <lars.metzner@ppi.de>
Diff between sisireg versions 0.8.1 dated 2021-01-25 and 0.9.0 dated 2021-04-01
DESCRIPTION | 8 ++++---- MD5 | 13 ++++++++----- NAMESPACE | 2 +- R/ssrMLP.R |only man/psvalid.Rd | 3 ++- man/runvalid.Rd | 3 ++- man/ssr.Rd | 11 +++++++---- man/ssrmlp_predict.Rd |only man/ssrmlp_train.Rd |only 9 files changed, 24 insertions(+), 16 deletions(-)
Title: Numerical Methods and Optimization in Finance
Description: Functions, examples and data from the first and
the second edition of "Numerical Methods and Optimization
in Finance" by M. Gilli, D. Maringer and E. Schumann
(2019, ISBN:978-0128150658). The package provides
implementations of optimisation heuristics (Differential
Evolution, Genetic Algorithms, Particle Swarm
Optimisation, Simulated Annealing and Threshold
Accepting), and other optimisation tools, such as grid
search and greedy search. There are also functions for
the valuation of financial instruments such as bonds and
options, for portfolio selection and functions that help
with stochastic simulations.
Author: Enrico Schumann [aut, cre] (<https://orcid.org/0000-0001-7601-6576>)
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between NMOF versions 2.3-1 dated 2021-01-19 and 2.4-0 dated 2021-04-01
DESCRIPTION | 8 +-- MD5 | 50 ++++++++++--------- NEWS | 16 ++++++ R/callHestoncf.R | 10 +-- R/market_data.R | 96 ++++++++++++++++++++++++++++--------- R/portfolio.R | 29 +++++++++++ R/randomReturns.R | 9 ++- build/partial.rdb |binary build/vignette.rds |binary inst/doc/An_overview.pdf |binary inst/doc/DEnss.pdf |binary inst/doc/LSqueens.pdf |binary inst/doc/LSselect.pdf |binary inst/doc/PSlms.pdf |binary inst/doc/TAportfolio.pdf |binary inst/doc/portfolio.pdf |binary inst/doc/qTableEx.pdf |binary inst/doc/repair.pdf |binary inst/doc/vectorise.pdf |binary inst/tinytest/test_French.R |only inst/tinytest/test_portfolio.R | 58 ++++++++++++++++++++-- inst/tinytest/test_randomReturns.R |only inst/unitTests/runTests.R | 2 inst/unitTests/test_results.txt | 38 ++++++++------ man/callHestoncf.Rd | 7 +- man/randomReturns.Rd | 5 + man/xtContractValue.Rd | 2 27 files changed, 248 insertions(+), 82 deletions(-)
Title: Utilities for Dates and Times
Description: Utilities for handling dates and times, such
as selecting particular days of the week or month,
formatting timestamps as required by RSS feeds, or
converting timestamp representations of other software
(such as 'MATLAB' and 'Excel') to R. The package is
lightweight (no dependencies, pure R implementations) and
relies only on R's standard classes to represent dates
and times ('Date' and 'POSIXt'); it aims to provide
efficient implementations, through vectorisation and the
use of R's native numeric representations of timestamps
where possible.
Author: Enrico Schumann [aut, cre] (<https://orcid.org/0000-0001-7601-6576>),
Unicode, Inc. [dtc, cph] (source of timezone names in 'tznames')
Maintainer: Enrico Schumann <es@enricoschumann.net>
Diff between datetimeutils versions 0.4-0 dated 2020-03-25 and 0.5-0 dated 2021-04-01
datetimeutils-0.4-0/datetimeutils/inst/unitTests |only datetimeutils-0.5-0/datetimeutils/DESCRIPTION | 9 - datetimeutils-0.5-0/datetimeutils/MD5 | 31 +-- datetimeutils-0.5-0/datetimeutils/NEWS | 16 + datetimeutils-0.5-0/datetimeutils/R/functions.R | 84 +++++++--- datetimeutils-0.5-0/datetimeutils/build/partial.rdb |binary datetimeutils-0.5-0/datetimeutils/build/vignette.rds |binary datetimeutils-0.5-0/datetimeutils/data/tznames.RData |binary datetimeutils-0.5-0/datetimeutils/inst/doc/datetimeutils_examples.R | 2 datetimeutils-0.5-0/datetimeutils/inst/doc/datetimeutils_examples.Rnw | 16 - datetimeutils-0.5-0/datetimeutils/inst/doc/datetimeutils_examples.pdf |binary datetimeutils-0.5-0/datetimeutils/inst/tinytest |only datetimeutils-0.5-0/datetimeutils/man/convertDate.Rd | 10 - datetimeutils-0.5-0/datetimeutils/man/guess_datetime.Rd | 41 +++- datetimeutils-0.5-0/datetimeutils/man/rfc822t.Rd | 4 datetimeutils-0.5-0/datetimeutils/tests |only datetimeutils-0.5-0/datetimeutils/vignettes/datetimeutils_examples.Rnw | 16 - 17 files changed, 151 insertions(+), 78 deletions(-)
Title: Easy Access to Model Information for Various Model Objects
Description: A tool to provide an easy, intuitive and consistent
access to information contained in various R models, like model
formulas, model terms, information about random effects, data that was
used to fit the model or data from response variables. 'insight'
mainly revolves around two types of functions: Functions that find
(the names of) information, starting with 'find_', and functions that
get the underlying data, starting with 'get_'. The package has a
consistent syntax and works with many different model objects, where
otherwise functions to access these information are missing.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>,
@strengejacke),
Dominique Makowski [aut, ctb] (<https://orcid.org/0000-0001-5375-9967>,
@Dom_Makowski),
Indrajeet Patil [aut, ctb] (<https://orcid.org/0000-0003-1995-6531>,
@patilindrajeets),
Philip Waggoner [aut, ctb] (<https://orcid.org/0000-0002-7825-7573>),
Mattan S. Ben-Shachar [aut, ctb]
(<https://orcid.org/0000-0002-4287-4801>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between insight versions 0.13.1 dated 2021-02-22 and 0.13.2 dated 2021-04-01
DESCRIPTION | 14 MD5 | 209 +++++---- NAMESPACE | 72 +++ NEWS.md | 461 ++------------------- R/clean_names.R | 32 + R/clean_parameters.R | 56 +- R/colour_tools.R | 16 R/compute_variances.R | 125 ++++- R/display.R | 2 R/ellipsis_info.R | 40 - R/export_table.R | 24 + R/find_formula.R | 85 +++ R/find_interactions.R | 18 R/find_parameter_zi.R | 52 ++ R/find_parameters.R | 78 --- R/find_parameters_emmeans.R |only R/find_parameters_other.R | 82 +++ R/find_predictors.R | 5 R/find_response.R | 86 +++ R/find_statistic.R | 11 R/find_weights.R | 6 R/format_p.R | 31 + R/format_table.R | 202 ++++++--- R/format_value.R | 49 +- R/get_auxiliary.R | 5 R/get_call.R | 6 R/get_data.R | 35 + R/get_deviance.R | 10 R/get_df.R | 6 R/get_family.R |only R/get_loglikelihood.R | 50 +- R/get_parameters.R | 50 ++ R/get_parameters_bayesian.R | 16 R/get_parameters_emmeans.R | 17 R/get_parameters_mixed.R | 8 R/get_parameters_others.R | 32 + R/get_parameters_zi.R | 73 +++ R/get_predicted.R | 696 ++++++++++++++------------------ R/get_predicted_ci.R |only R/get_predicted_methods.R |only R/get_priors.R | 56 ++ R/get_residuals.R | 9 R/get_sigma.R | 9 R/get_statistic.R | 171 +++++++ R/get_varcov.R | 28 + R/get_variances.R | 23 - R/get_weights.R | 4 R/helper_functions.R | 101 ++++ R/is_gam_model.R |only R/is_model.R | 347 ++++----------- R/is_model_supported.R | 113 +---- R/link_function.R | 9 R/link_inverse.R | 8 R/model_info.R | 29 + R/n_obs.R | 35 + R/n_parameters.R | 7 R/print_color.R | 40 + R/print_parameters.R | 102 +++- R/reshape_ci.R |only R/utils_model_info.R | 20 README.md | 40 - build/partial.rdb |binary inst/WORDLIST | 9 inst/doc/display.R | 8 inst/doc/display.Rmd | 36 - inst/doc/display.html | 290 +++++-------- man/display.Rd | 6 man/ellipsis_info.Rd | 24 - man/export_table.Rd | 30 - man/find_interactions.Rd | 104 ++-- man/find_parameters.Rd | 1 man/find_parameters.averaging.Rd | 146 +++--- man/find_parameters.emmGrid.Rd |only man/find_parameters.zeroinfl.Rd | 114 ++--- man/find_response.Rd | 68 +-- man/format_ci.Rd | 7 man/format_p.Rd | 11 man/format_rope.Rd | 7 man/format_table.Rd | 182 ++++---- man/format_value.Rd | 34 + man/get_family.Rd |only man/get_parameters.betareg.Rd | 123 ++--- man/get_parameters.emmGrid.Rd | 90 ++-- man/get_parameters.glmm.Rd | 122 ++--- man/get_parameters.zeroinfl.Rd | 98 ++-- man/get_predicted.Rd | 104 +--- man/get_predicted_ci.Rd |only man/get_sigma.Rd | 98 ++-- man/get_statistic.Rd | 3 man/is_gam_model.Rd |only man/model_info.Rd | 1 man/n_parameters.Rd | 178 ++++---- man/print_color.Rd | 79 ++- man/print_parameters.Rd | 226 +++++----- man/reshape_ci.Rd |only tests/testthat/test-BayesFactorBF.R | 27 - tests/testthat/test-Gam2.R | 5 tests/testthat/test-brms.R | 24 - tests/testthat/test-fixest.R | 9 tests/testthat/test-gamm4.R | 4 tests/testthat/test-get_loglikelihood.R | 13 tests/testthat/test-get_predicted.R | 353 ++++++++++------ tests/testthat/test-get_variance.R | 53 +- tests/testthat/test-lme.R | 2 tests/testthat/test-lmer.R | 3 tests/testthat/test-metaBMA.R | 4 tests/testthat/test-model_data.R | 15 tests/testthat/test-panelr.R | 20 tests/testthat/test-standardize_names.R | 6 tests/testthat/test-tidymodels.R | 5 vignettes/display.Rmd | 36 - 111 files changed, 3829 insertions(+), 2860 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-03-17 1.2.3
2021-02-15 1.2.2
2020-12-17 1.2.1
2020-11-04 1.2
Title: Psychometric Functions from the Waller Lab
Description: Computes fungible coefficients and Monte Carlo data. Underlying theory for these functions is described in the following publications:
Waller, N. (2008). Fungible Weights in Multiple Regression. Psychometrika, 73(4), 691-703, <DOI:10.1007/s11336-008-9066-z>.
Waller, N. & Jones, J. (2009). Locating the Extrema of Fungible Regression Weights.
Psychometrika, 74(4), 589-602, <DOI:10.1007/s11336-008-9087-7>.
Waller, N. G. (2016). Fungible Correlation Matrices:
A Method for Generating Nonsingular, Singular, and Improper Correlation Matrices for
Monte Carlo Research. Multivariate Behavioral Research, 51(4), 554-568, <DOI:10.1080/00273171.2016.1178566>.
Jones, J. A. & Waller, N. G. (2015). The normal-theory and asymptotic distribution-free (ADF)
covariance matrix of standardized regression coefficients: theoretical extensions
and finite sample behavior. Psychometrika, 80, 365-378, <DOI:10.1007/s11336-013-9380-y>.
Waller, N. G. (2018). Direct Schmid-Leiman transformations and rank-deficient loadings matrices. Psychometrika, 83, 858-870. <DOI:10.1007/s11336-017-9599-0>.
Author: Niels Waller [aut, cre],
Jeff Jones [ctb],
Casey Giordano [ctb]
Maintainer: Niels Waller <nwaller@umn.edu>
Diff between fungible versions 1.96.3 dated 2020-06-03 and 1.97 dated 2021-04-01
DESCRIPTION | 11 +-- MD5 | 78 +++++++++++++------------ NAMESPACE | 1 R/eigGen.R | 7 +- R/faAlign.R | 56 +++++++++++++++--- R/faLocalMin.R |only R/faMain.R | 16 ++--- R/fungibleExtrema.R | 150 ++++++++++++++++++++++++++++++++++--------------- R/rGivens.R | 5 + R/rMAP.R | 15 +++- R/simFA.R | 22 ++++--- R/summary.faMain.R | 7 +- R/tetcor.R | 4 - inst/CITATION | 8 +- man/BiFAD.Rd | 1 man/Box26.Rd | 1 man/GenerateBoxData.Rd | 1 man/Ledermann.Rd | 1 man/SLi.Rd | 1 man/SchmidLeiman.Rd | 1 man/faAlign.Rd | 1 man/faEKC.Rd | 1 man/faIB.Rd | 1 man/faLocalMin.Rd |only man/faMB.Rd | 1 man/faMain.Rd | 1 man/faScores.Rd | 1 man/faSort.Rd | 1 man/faStandardize.Rd | 1 man/faX.Rd | 1 man/fals.Rd | 1 man/fapa.Rd | 1 man/fareg.Rd | 1 man/fungibleExtrema.Rd | 69 +++++++++++++++++----- man/orderFactors.Rd | 1 man/print.faMB.Rd | 1 man/print.faMain.Rd | 1 man/promaxQ.Rd | 1 man/simFA.Rd | 15 ++-- man/summary.faMB.Rd | 1 man/summary.faMain.Rd | 4 - 41 files changed, 342 insertions(+), 149 deletions(-)
Title: Data-Limited Methods Toolkit
Description: A collection of data-limited management procedures that can be evaluated
with management strategy evaluation with the 'MSEtool' package, or applied to
fishery data to provide management recommendations.
Author: Tom Carruthers [aut],
Quang Huynh [aut],
Adrian Hordyk [aut, cre],
M. Bryan [ctb],
HF. Geremont [ctb],
C. Grandin [ctb],
W. Harford [ctb],
Q. Huynh [ctb],
C. Walters [ctb]
Maintainer: Adrian Hordyk <adrian@bluematterscience.com>
Diff between DLMtool versions 6.0.0 dated 2021-01-13 and 6.0.1 dated 2021-04-01
DESCRIPTION | 9 - MD5 | 141 ++++++++++---------- NEWS.md | 6 R/MPs_Input.R | 138 ++++++++++++-------- README.md | 38 +++-- man/AvC.Rd | 122 ++++++++--------- man/AvC_MLL.Rd | 124 +++++++++--------- man/BK.Rd | 228 ++++++++++++++++----------------- man/CC.Rd | 52 +++---- man/CC1.Rd | 214 +++++++++++++++---------------- man/CompSRA.Rd | 150 +++++++++++----------- man/CompSRA_.Rd | 44 +++--- man/DBSRA.Rd | 224 ++++++++++++++++---------------- man/DBSRA_.Rd | 48 +++---- man/DBSRAopt.Rd | 62 ++++----- man/DCAC.Rd | 354 ++++++++++++++++++++++++++-------------------------- man/DCAC_.Rd | 52 +++---- man/DD.Rd | 174 ++++++++++++------------- man/DD_.Rd | 44 +++--- man/DD_R.Rd | 94 ++++++------- man/DDe.Rd | 166 ++++++++++++------------ man/DTe40.Rd | 132 +++++++++---------- man/DynF.Rd | 168 ++++++++++++------------ man/EtargetLopt.Rd | 120 ++++++++--------- man/Fadapt.Rd | 210 +++++++++++++++--------------- man/Fdem.Rd | 174 ++++++++++++------------- man/Fdem_.Rd | 42 +++--- man/FilterSmooth.Rd | 48 +++---- man/Fratio.Rd | 244 +++++++++++++++++------------------ man/Fratio_.Rd | 42 +++--- man/GB_CC.Rd | 140 ++++++++++---------- man/GB_slope.Rd | 164 ++++++++++++------------ man/GB_target.Rd | 176 ++++++++++++------------- man/Gcontrol.Rd | 172 ++++++++++++------------- man/ICI.Rd | 200 ++++++++++++++--------------- man/IT5.Rd | 154 +++++++++++----------- man/ITM.Rd | 106 +++++++-------- man/IT_.Rd | 56 ++++---- man/ITe5.Rd | 142 ++++++++++---------- man/Iratio.Rd | 152 +++++++++++----------- man/Islope1.Rd | 202 ++++++++++++++--------------- man/Islope_.Rd | 52 +++---- man/Itarget1.Rd | 226 ++++++++++++++++----------------- man/Itarget1_MPA.Rd | 176 ++++++++++++------------- man/ItargetE1.Rd | 210 +++++++++++++++--------------- man/Itarget_.Rd | 64 ++++----- man/Itargeteff_.Rd | 58 ++++---- man/LBSPR.Rd | 200 ++++++++++++++--------------- man/LBSPR_.Rd | 50 +++---- man/LBSPRgen.Rd | 130 +++++++++---------- man/Lratio_BHI.Rd | 198 ++++++++++++++--------------- man/LstepCC1.Rd | 306 ++++++++++++++++++++++---------------------- man/LstepCE1.Rd | 210 +++++++++++++++--------------- man/Ltarget1.Rd | 266 +++++++++++++++++++-------------------- man/LtargetE1.Rd | 180 +++++++++++++------------- man/MCD.Rd | 138 ++++++++++---------- man/MRreal.Rd | 122 ++++++++--------- man/Rcontrol.Rd | 216 +++++++++++++++---------------- man/SBT1.Rd | 238 +++++++++++++++++----------------- man/SPMSY.Rd | 150 +++++++++++----------- man/SPSRA.Rd | 168 ++++++++++++------------ man/SPSRA_.Rd | 84 ++++++------ man/SPmod.Rd | 162 +++++++++++------------ man/SPslope.Rd | 186 +++++++++++++-------------- man/YPR.Rd | 184 +++++++++++++-------------- man/YPR_.Rd | 96 +++++++------- man/curE.Rd | 122 ++++++++--------- man/demographic2.Rd | 86 ++++++------ man/figures |only man/getr.Rd | 62 ++++----- man/iVB.Rd | 42 +++--- man/matlenlim.Rd | 230 ++++++++++++++++----------------- 72 files changed, 4993 insertions(+), 4947 deletions(-)