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    45 repositories

    • ultralytics

      Public
      Ultralytics YOLO11 🚀
      Python
      •
      GNU Affero General Public License v3.0
      •8.2k•0•0•0•Updated Dec 23, 2024Dec 23, 2024

    • bowtie2

      Public
      A fast and sensitive gapped read aligner
      C++
      •
      GNU General Public License v3.0
      •164•0•0•0•Updated Nov 15, 2024Nov 15, 2024

    • qiskit-machine-learning

      Public
      Quantum Machine Learning
      Python
      •
      Apache License 2.0
      •358•0•0•0•Updated Sep 19, 2024Sep 19, 2024

    • cromwell

      Public
      Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments
      Scala
      •
      BSD 3-Clause "New" or "Revised" License
      •368•0•0•0•Updated Aug 21, 2024Aug 21, 2024

    • MultiQC

      Public
      Aggregate results from bioinformatics analyses across many samples into a single report.
      JavaScript
      •
      GNU General Public License v3.0
      •621•0•0•0•Updated Aug 21, 2024Aug 21, 2024

    • samtools

      Public
      Tools (written in C using htslib) for manipulating next-generation sequencing data
      C
      •
      Other
      •594•0•0•0•Updated Aug 21, 2024Aug 21, 2024

    • ldsc

      Public
      LD Score Regression (LDSC)
      Python
      •
      GNU General Public License v3.0
      •355•0•0•0•Updated Aug 16, 2024Aug 16, 2024

    • PheMIME

      Public
      Multi-Institutional Disease Multimorbidity Explorer
      R
      •1•3•0•0•Updated May 11, 2024May 11, 2024

    • OptiType

      Public
      Precision HLA typing from next-generation sequencing data
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •79•0•0•0•Updated Mar 5, 2024Mar 5, 2024

    • associationsubgraphs

      Public
      Estimation of association networks using non-parametric entropy-based measures
      R
      •
      Other
      •3•2•0•0•Updated Feb 21, 2024Feb 21, 2024

    • LaTeXTools

      Public
      LaTeX plugin for Sublime Text
      Python
      •373•0•0•0•Updated Jan 24, 2024Jan 24, 2024

    • HLApers

      Public
      Shell
      •
      Other
      •5•0•0•0•Updated May 30, 2023May 30, 2023

    • phewasHelper

      Public
      A package with a few tiny helper functions to make life easier to work with phewas and phecodes.
      R
      •
      Other
      •2•0•0•0•Updated Nov 18, 2022Nov 18, 2022

    • fgsea

      Public
      Fast Gene Set Enrichment Analysis
      R
      •
      Other
      •72•0•0•0•Updated Nov 8, 2022Nov 8, 2022

    • hnscc_myeloid

      Public
      Scripts and input files used in HNSCC myeloid project
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 31, 2022Aug 31, 2022

    • edgebundleR

      Public
      Circle plot with bundled edges
      JavaScript
      •12•0•0•0•Updated Jul 17, 2022Jul 17, 2022

    • icd

      Public
      Fast ICD-10 and ICD-9 comorbidities, decoding and validation in R. NB use main instead of master for default branch.
      R
      •
      GNU General Public License v3.0
      •62•0•0•0•Updated Nov 20, 2021Nov 20, 2021

    • Plink-Based-GWAS

      Public
      This is plink based GWAS pipeline
      Python
      •0•3•0•0•Updated Jul 2, 2021Jul 2, 2021

    • d3heatmap

      Public
      A D3.js-based heatmap htmlwidget for R
      HTML
      •
      Other
      •92•0•0•0•Updated May 23, 2021May 23, 2021

    • MAGNN

      Public
      Metapath Aggregated Graph Neural Network for Heterogeneous Graph Embedding
      Python
      •72•0•0•0•Updated Nov 5, 2020Nov 5, 2020

    • IlluminaHumanMethylationEPICanno.ilm10b5.hg38

      Public
      Illumina Human Methylation EPIC annotation to use with IlluminaHumanMethylationEPICB5manifest and minfi
      R
      •
      Apache License 2.0
      •7•0•0•0•Updated Jul 28, 2020Jul 28, 2020

    • IlluminaHumanMethylationEPICmanifest

      Public
      Illumina Human Methylation Manifest based on 1.0 B5 for minfi
      R
      •
      Apache License 2.0
      •2•0•0•0•Updated Jul 28, 2020Jul 28, 2020

    • meToolkit

      Public
      A package of shiny modules and helper functions designed to help modularize the code for ME apps.
      R
      •
      GNU General Public License v3.0
      •1•7•2•0•Updated Jun 10, 2020Jun 10, 2020

    • sbmr

      Public
      An R-Native C++ implementation of the bipartite stochastic block model (biSBM) using rcpp
      C++
      •
      Other
      •2•17•4•0•Updated Apr 14, 2020Apr 14, 2020

    • sbmrcpp

      Public
      Experimental new version of sbmR package that forgoes the rcpp s4 class in favor of lightweight wrappers of the built in SEXP classes
      C++
      •1•0•0•0•Updated Mar 13, 2020Mar 13, 2020

    • BiSBMSim

      Public
      R package for simulating data using the Bipartite Stochastic Block Model
      R
      •
      Other
      •0•1•0•0•Updated Oct 28, 2019Oct 28, 2019

    • r2d3

      Public
      R Interface to D3 Visualizations
      R
      •
      Other
      •103•0•0•0•Updated Sep 4, 2019Sep 4, 2019

    • multimorbidity_explorer

      Public
      Web application for interactive exploration and visualization of PheWas results
      R
      •
      GNU General Public License v3.0
      •2•9•2•0•Updated Jul 9, 2019Jul 9, 2019

    • PrediXcan_pipeline

      Public
      This is pipeline for regulated gene expression estimation and gene-based association with traits.
      Python
      •1•0•0•0•Updated Jun 4, 2019Jun 4, 2019

    • manhattanPlotr

      Public
      A tiny package that just makes nice looking interactive manhattan plots for use in Shiny apps or publication.
      JavaScript
      •1•0•0•0•Updated May 17, 2019May 17, 2019
    0