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annotation
•
reset
0
votes
2
replies
7.9k
views
Bioconductor version cannot be validated
Bioconductor
Annotation
Ann
updated 5 weeks ago by
Hadi
• 0 • written 22 months ago by
Aytaç
• 0
0
votes
5
replies
2.3k
views
Aclust package: IlluminaHumanMethylation450kCHR37 not found
illuminahumanmethylation450k.db
aclust
methylation
annotation
illumina
written 8.9 years ago by
aagata.szymanek
• 0
1
vote
2
replies
997
views
Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
annotation
geneIDs
flatheadmullet
updated 3 months ago by
James W. MacDonald
68k • written 3 months ago by
andremicc
• 0
1
vote
1
reply
329
views
Merging annotation with differential expression output
annotation
RNASeqData
updated 3 months ago by
James W. MacDonald
68k • written 3 months ago by
AL
• 0
0
votes
2
replies
502
views
Annotation package for Manduca sexta
annotation
Manducasexta
AnnotationData
3 months ago
GA
▴ 10
1
vote
2
replies
1.8k
views
help documentation for keytypes in annotationdbi packages
annotation
updated 4 months ago by
Eric
▴ 10 • written 4.7 years ago by
kstachelek
• 0
0
votes
0
replies
226
views
Help with mouse cell type annotation
annotation
SingleR
mouse
SingleCellData
scRNAseq
5 months ago
Muhammad
• 0
0
votes
1
reply
273
views
affymetrix
genomes
Annotation
updated 5 months ago by
James W. MacDonald
68k • written 5 months ago by
aurel.popa2011
• 0
5
votes
13
replies
2.2k
views
Installing annotation package in locally
AnnotationDbi
AnnotationHub
Annotation
AnnotationForge
8 months ago
KABILAN
• 0
0
votes
1
reply
436
views
how do I convert an Ilumn IDREF to a CPG loci
AnnotationDbi
Annotation
annotation
BiologicalQuestion
updated 9 months ago by
James W. MacDonald
68k • written 9 months ago by
Olajumoke
• 0
0
votes
0
replies
531
views
Job:
Ensembl Job Vacancies
genomes
Annotation
GenomicVariation
ensembldb
10 months ago
Aleena_Ensembl
▴ 30
1
vote
2
replies
1.1k
views
Struggling to convert a large list of non-model genes into human orthologs, any suggestions?
annotation
12 months ago
ronin
• 0
2
votes
2
replies
991
views
Get gene symbols for a set of hg19 coordinates
annotation
hg19
14 months ago • updated 13 months ago
pcantalupo
▴ 10
1
vote
6
replies
1.4k
views
unable to access Annotationhub latest record
DNAMethylation
AnnotationHub
EPICv2manifest
annotation
updated 15 months ago by
Tim Peters
▴ 230 • written 15 months ago by
s.malik
• 0
2
votes
2
replies
1.3k
views
Only positive enrichment score in GSEA
clusterProfiler
annotation
gseGO
gsea
OrgDb
written 16 months ago by
enee
▴ 10
0
votes
0
replies
714
views
Best method for annotating distal peaks
ChIPSeq
annotation
ChIPpeakAnno
17 months ago
nilanjanamani88
• 0
0
votes
5
replies
2.5k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation
affy
oligo
ffpe
Annotation
affy
oligo
ffpe
written 11.5 years ago by
Guest User
★ 13k
5
votes
11
replies
5.1k
views
How to annotate gene names for genomic coordinates?
annotation
written 10.1 years ago by
seeker
• 0
0
votes
1
reply
991
views
Create design matrix for differential methylation analysis
Annotation
annotate
DifferentialMethylation
minfiDataEPIC
updated 21 months ago by
Basti
▴ 780 • written 22 months ago by
titangerd
• 0
1
vote
0
replies
1.4k
views
News:
Bioconductor 3.18 db0s, OrgDbs, and TxDbs now available
db0
release
Annotation
22 months ago
kayla.interdonato
▴ 160
3
votes
4
replies
1.2k
views
Questions Trying to Re-create MicroArray Data (GSE97562) (Fig. 2)
MicroRNAArrayData
GSE97562
pd.hugene.1.0.st.v1
Annotation
updated 24 months ago by
James W. MacDonald
68k • written 24 months ago by
rodj5201
• 0
2
votes
4
replies
1.8k
views
Use with_go along with other filters in getBM function
Annotation
biomaRt
2.1 years ago
RuBBiT0
▴ 10
0
votes
2
replies
1.6k
views
How to find probe enhancer annotation for Illumina EPIC array?
IlluminaHumanMethylationEPICmanifest
ChAMP
annotation
updated 2.2 years ago by
James W. MacDonald
68k • written 2.2 years ago by
Matilda
• 0
0
votes
4
replies
1.9k
views
BioCann repository index warning on Apple Silicon (Bioc 3.17 / R 4.3)
Annotation
2.2 years ago
Michael Steinbaugh
▴ 90
0
votes
0
replies
981
views
AnnotationDbi Error: PROSITE is defunct.
ChipDb
AnnotationDbi
Annotation
2.3 years ago
ahiser
• 0
0
votes
3
replies
1.2k
views
Annotated dendogram (tree) from tbl_graph
dendogram
ggtreeExtra
ggtree
annotation
Annotation
2.3 years ago
christian.dina
• 0
0
votes
0
replies
1.2k
views
News:
Bioconductor 3.17 db0s, OrgDbs, and TxDbs now available
release
db0
Annotation
2.3 years ago
kayla.interdonato
▴ 160
2
votes
1
reply
904
views
Doubts about manipulation and annotation of microarray files deposited at GEO
MicroarrayData
Annotation
GEOdata
updated 2.4 years ago by
James W. MacDonald
68k • written 2.4 years ago by
Michele Claire
• 0
0
votes
1
reply
1.4k
views
Create an Annotation DB file for a non-model organism
AnnotationDbi
annotation
ChIPseeker
updated 2.4 years ago by
James W. MacDonald
68k • written 2.4 years ago by
L
▴ 50
3
votes
3
replies
2.0k
views
Is ther an annotation package for sheep (Ovis aries)
sheep
database_package
Annotation
updated 2.4 years ago by
Guido Hooiveld
★ 4.1k • written 2.5 years ago by
priscilaramosibeas
▴ 10
0
votes
1
reply
874
views
Bioconductor tool for curating annotations?
Annotation
updated 2.5 years ago by
Lluís Revilla Sancho
▴ 760 • written 2.5 years ago by
Charles Plessy
▴ 180
3
votes
2
replies
3.4k
views
I cannot install annotables package in Rstudio (macOS)
DESeq2
PackageTypeData
package
Annotation
2.5 years ago
m-bihie
▴ 10
1
vote
9
replies
2.1k
views
Is it possible to annotate a GRanges Object that has scaffolding names and not chromosome numbers?
Annotation
updated 2.5 years ago by
James W. MacDonald
68k • written 2.5 years ago by
stacy.genovese
• 0
0
votes
3
replies
1.4k
views
A look inside annotation packages
Annotation
2.6 years ago
Ed Siefker
▴ 230
3
votes
2
replies
8.5k
views
How to convert Illumina HT_12_v4 annotation
convert
R
annotation
microarray
illumina human ht-12 v4
updated 2.6 years ago by
snijesh
▴ 200 • written 7.6 years ago by
p_donchev84
• 0
2
votes
3
replies
2.8k
views
Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
SingleCellMultiModal
ensembldb
rtracklayer
Annotation
updated 2.5 years ago by
rbj
• 0 • written 2.6 years ago by
Jake
▴ 10
0
votes
5
replies
3.3k
views
Error when annotating ENSEMBLE transcript IDs from chicken annotation DB
R
ensembldb
Annotation
updated 2.8 years ago by
Guido Hooiveld
★ 4.1k • written 2.8 years ago by
Mohamed
▴ 30
0
votes
0
replies
1.2k
views
News:
Bioconductor 3.16 db0s, OrgDbs and TxDbs now available
release
db0
annotation
2.8 years ago
kayla.interdonato
▴ 160
0
votes
1
reply
876
views
Annotation data packages for plant parasitic nematodes
AnnotationData
Annotation
updated 2.8 years ago by
James W. MacDonald
68k • written 2.8 years ago by
Hassanaly
• 0
1
vote
3
replies
3.0k
views
Trouble importing my own Gene Ontology Annotation into topGO
Annotation
GeneOntology
topGO
GO
updated 3.1 years ago by
James W. MacDonald
68k • written 3.1 years ago by
Raito92
▴ 60
0
votes
1
reply
1.4k
views
News:
Bioconductor 3.15 db0s, OrgDbs and TxDbs now available
annotation
release
db0
3.3 years ago • updated 3.2 years ago
kayla.interdonato
▴ 160
0
votes
0
replies
953
views
low mapping between annotated genome and transcriptome
transcriptome
Annotation
mapping
3.3 years ago
Ava
• 0
0
votes
1
reply
1.2k
views
peak annotation
ChIPpeakAnno
Annotation
updated 3.2 years ago by
Kai Hu
▴ 70 • written 3.3 years ago by
Bogdan
▴ 670
0
votes
0
replies
1.0k
views
using annotation data of an organism(eg. Oryza sativa) from AnnotationHub for mgoSim
AnnotationHubSoftware
GOSemSim
annotation
3.5 years ago
Amandeep
• 0
0
votes
1
reply
1.7k
views
SNP annotation
SNPRelate
SNP
GWASTools
Annotation
GWASdata
updated 3.5 years ago by
Stephanie M. Gogarten
▴ 890 • written 3.6 years ago by
Adrián
• 0
0
votes
1
reply
2.0k
views
How to download annotation package for oryza sativa Japonica and Oryza sativa indica for pathway analysis?
reactomePA
package
annotation
updated 3.5 years ago by
shepherl
4.2k • written 3.5 years ago by
mathavanbioinfo
▴ 20
0
votes
0
replies
997
views
Is it possible to output ensembl id for annotatr build_annotations basicgenes?
Annotation
annotatr
3.6 years ago
Ahdee
▴ 60
0
votes
2
replies
3.3k
views
getBM error in the biomaRt R package
Annotation
updated 2.9 years ago by
qiz218591
• 0 • written 3.6 years ago by
arungowda9738
• 0
0
votes
1
reply
1.4k
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation
biomaRt
ensembldb
written 3.7 years ago by
Lillian
• 0
0
votes
0
replies
1.2k
views
Error with getBM: 'The query to the BioMart webservice returned an invalid result.'
process
annotationTools
AnnotationFilter
Annotation
biomaRt
3.7 years ago
Shane
• 0
50 results • Page
1 of 1
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Replies
Comment: blockwiseModule crashes in the end and doesn't generate modules
by
quordle
• 0
your blockwiseModules crash reminds me of [quordle puzzles][1] looks fine until the last block throws a twist. the error seems tied to a fu…
Comment: Non-monotonic voomByGroup plot in Xenium data
by
richardallenfriedmanbrooklyn
▴ 30
Thank you. I willleave as is and proceed.
Answer: Non-monotonic voomByGroup plot in Xenium data
by
Gordon Smyth
52k
It doesn't look like a problem to me, because the increase in the trend at low expression levels is very slight. If you don't like it thoug…
Comment: competitive enrichment test yields too few significant results, self-contained t
by
bbao
▴ 10
Thanks ATpoint, I will keep this in mind!
Answer: cytolib uses outdated boost call
by
James W. MacDonald
68k
Your version of R is old, as is your Bioconductor install. We do not support old versions of packages, so please upgrade to R-4.5.1 and re-…
Votes
Answer: Non-monotonic voomByGroup plot in Xenium data
Comment: competitive enrichment test yields too few significant results, self-contained t
Comment: competitive enrichment test yields too few significant results, self-contained t
Answer: Should Xenium pseudobulk experiments be analysed like microarrays (limma) or lik
Comment: Should Xenium pseudobulk experiments be analysed like microarrays (limma) or lik
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