3
votes
18
replies
2.9k
views
News: List of Deprecated Packages for Bioc3.18
Deprecation devel Bioconductor Devel
10 months ago • updated 15 days ago shepherl 3.9k
7
votes
28
replies
6.1k
views
Rsubread::featureCounts extremely slow on some annotations
rsubread featurecounts
updated 12 weeks ago by 50k • written 9.1 years ago by ★ 7.9k
0
votes
7
replies
682
views
News: List of Deprecated Packages for Bioc3.19
Release Devel ExperimentData Software
8 weeks ago • updated 9 days ago shepherl 3.9k
0
votes
21
replies
6.6k
views
BAM files to Genomic Ranges object
Alignment convert Repitools Alignment convert Repitools
updated 5 months ago by • 0 • written 11.3 years ago by ▴ 280
2
votes
6
replies
2.5k
views
Cn.mops error: Error in if (sum(rds.counts) == 0) { : missing value where TRUE/FALSE needed
software error cn.mops
updated 7 weeks ago by • 0 • written 6.3 years ago by ▴ 10
1
vote
8
replies
1.5k
views
News: Final List of Deprecated Package Bioc 3.9
deprecation release software experimentData News
written 5.1 years ago by 3.9k
0
votes
7
replies
429
views
DESeq2 filtering vs edgeR filtering
DESeq2
7 weeks ago • updated 5 weeks ago fr8712ca-s • 0
0
votes
6
replies
3.1k
views
limma, analysis on subset of data gives completely different results
limma limma
updated 4 weeks ago by 50k • written 9.8 years ago by ▴ 40
0
votes
5
replies
1.1k
views
pathway finding software
written 15.5 years ago by ▴ 250
3
votes
5
replies
1.7k
views
Error: 'IdClusters'
DECIPHER
updated 11 months ago by ▴ 10 • written 14 months ago by • 0
2
votes
11
replies
1.6k
views
Not able to download recount3 data
recount3
updated 12 months ago by ★ 1.0k • written 16 months ago by ▴ 20
1
vote
6
replies
2.7k
views
Can I use EdgeR log2(cpm) instead of voom log2(cpm) to be analyzed as microarray data?
limma edger timecourse without replicate voom
written 7.5 years ago by ▴ 10
0
votes
5
replies
5.8k
views
masigpro Error in terms.formula(formula, data = data) : '.' in formula and no 'data' argument
masigpro
updated 9 months ago by • 0 • written 8.9 years ago by ▴ 120
13
votes
22
replies
27k
views
DESEq2 Paired samples Before and after treatment
deseq2 paired samples
updated 10 weeks ago by 41k • written 7.9 years ago by ▴ 30
4
votes
16
replies
7.3k
views
Normalised counts from RUVg in RUVSeq
RUVg ruvseq rnaseq
updated 5 weeks ago by • 0 • written 9.0 years ago by ▴ 150
2
votes
9
replies
1.2k
views
object HPOGENE is not exported by namespace HPO.db
clusterProfiler HPO.db
updated 6 months ago by ▴ 50 • written 6 months ago by ▴ 30
1
vote
3
replies
3.1k
views
maftools: Error in validateMaf(maf = maf, isTCGA = isTCGA, rdup = removeDuplicatedVariants, : missing required fields from MAF: Chromosome
software error maftools tcgabiolinks
updated 6 weeks ago by ▴ 20 • written 6.6 years ago by ▴ 100
0
votes
11
replies
3.7k
views
bug in cpg.annotate() and DMR.plot: bad defaults for what and arraytype arguments
DMRcate minfi
updated 3 months ago by ▴ 170 • written 7.1 years ago by ★ 2.0k
0
votes
5
replies
2.0k
views
Normalizing Affy Almac Xcel Array Data from CEL files
Annotation affy oligo ffpe Annotation affy oligo ffpe
written 10.3 years ago by ★ 13k
1
vote
13
replies
11k
views
unable to access index for repository
Bioconductor ConsensusClusterPlus
updated 8 months ago by • 0 • written 16 months ago by • 0
0
votes
11
replies
1.3k
views
Unable to install DESeq2
DESeq2
updated 9 months ago by 65k • written 9 months ago by • 0
2
votes
3
replies
804
views
Import Salmon data with tximport and pool technical replicates
tximport edgeR
written 8 months ago by • 0
0
votes
6
replies
1.5k
views
mailman bugs
Website
21.2 years ago • updated 10 months ago Gordon Smyth 50k
1
vote
10
replies
2.0k
views
Interprteting the phylogenomic profiles plot
syntenet synteny Network
written 17 months ago by • 0
0
votes
6
replies
1.2k
views
LIMMA : design (1, 2, 3, 3 ) , I got EXCITING results, what could be the logic, since i have 2 replicates for 3rd group only ?
affy affy
updated 8 weeks ago by 50k • written 19.0 years ago by ★ 1.1k
0
votes
4
replies
740
views
problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
11 months ago sreeshmaraj72 • 0
1
vote
5
replies
1.7k
views
rowsum or similar for RleArray?
delayedarray rowsum
written 6.7 years ago by ▴ 180
4
votes
3
replies
915
views
WGCNA documentation not available
WGCNA
written 4 months ago by ▴ 10
0
votes
3
replies
1.7k
views
extract rsids of SNPs using their genomic positions
rsids SNPlocs.Hsapiens.dbSNP150.GRCh38
written 9 months ago by • 0
14
votes
5
replies
22k
views
Dealing with genes that have Padj=NA
deseq2
updated 9 months ago by • 0 • written 8.4 years ago by ▴ 60
1
vote
4
replies
2.5k
views
How to process Nimblegen microarray .pair files to get normalized expression matrix
Microarray Preprocessing NimbleGen Normalization
written 17 months ago by • 0
0
votes
7
replies
2.7k
views
LIMMA: plotMDS
updated 9 months ago by 50k • written 12.0 years ago by ▴ 180
5
votes
8
replies
3.9k
views
Problem about picking soft threshold power in WGCNA software
wgcna rnaseq
written 7.2 years ago by ▴ 40
2
votes
3
replies
1.1k
views
readVcf(remoteFile, "hg19", "region") works on macos, fails on linux and in docker
open.BcfFile VariantAnnotation
updated 3 months ago by • 0 • written 2.8 years ago by ▴ 470
6
votes
5
replies
1.1k
views
error message when I use the bsseq read.bismark command to read a genome wide cytosine report generated by bismark.
bsseq
updated 7 months ago by ▴ 740 • written 9 months ago by ▴ 20
4
votes
10
replies
1.8k
views
Archives prior to 3.15 gone
archive bioconductor
updated 6 months ago by 3.9k • written 19 months ago by ▴ 30
9
votes
11
replies
5.8k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl Rstudio ensembldb AnnotationHub ensdb
updated 7 weeks ago by 3.9k • written 2.3 years ago by ▴ 40
2
votes
3
replies
683
views
Rsubread: subjunc() loads index repeatedly
Rsubread
9 months ago • updated 8 months ago Gerhard Thallinger ▴ 180
2
votes
8
replies
518
views
Microarray Limma Model fitting and DEG
limma DGEanalysis
updated 5 weeks ago by 50k • written 5 weeks ago by • 0
3
votes
7
replies
5.4k
views
error with champ.load
champ
written 6.5 years ago by ▴ 10
2
votes
3
replies
1.6k
views
TPM from STAR mapped counts
GeneExpression GenomicFeatures RNA-Seq TPM
updated 7 months ago by 50k • written 7 months ago by • 0
0
votes
7
replies
1.6k
views
Unable to install RefPlus - R=4.3.1, BiocManager=3.18
Install instal
updated 6 months ago by 65k • written 6 months ago by • 0
7
votes
36
replies
5.6k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 28 days ago by • 0 • written 5.4 years ago by ★ 3.9k
1
vote
9
replies
5.3k
views
how to control age and gender effect in expression data using DESeq2
deseq2 rnaseq mirna-seq differential gene expression
written 6.2 years ago by • 0
1
vote
16
replies
3.3k
views
error in ChAMP loading file
ChAMP
updated 7 weeks ago by • 0 • written 17 months ago by • 0
2
votes
6
replies
1.3k
views
Unable to load data from duffel.rail
recount recountWorkflow recount3
updated 12 months ago by ★ 1.0k • written 17 months ago by • 0
5
votes
11
replies
4.2k
views
How to annotate gene names for genomic coordinates?
annotation
written 8.9 years ago by • 0
0
votes
11
replies
2.0k
views
globaltest question
Pathways probe affy Pathways probe affy
written 17.6 years ago by ▴ 30
6
votes
8
replies
1.2k
views
CAGEr bug report: wrong consensus cluster results
CAGEr
updated 9 months ago by ▴ 180 • written 17 months ago by ▴ 30
2
votes
7
replies
2.9k
views
EdgeR glmLRT vs glmQLFTest
edgeR DifferentialExpression
updated 8 months ago by • 0 • written 3.0 years ago by ▴ 20
1,743 results • Page 1 of 35
Recent ...
Replies
Answer: DESeq2 v1.35.0 by Michael Love 41k
That is not a release (odd 'y' digit). See Bioconductor help pages: https://contributions.bioconductor.org/description.html#description-ver…
Comment: Although I successfully installed the package "simpleaffy'' , I cannot library i by James W. MacDonald 65k
Please don't piggyback on posts from 2.3 years ago. If you have a question, post as a new question.
Answer: DESeq2 v1.35.0 by James W. MacDonald 65k
Odd release versions indicate a devel version, which upon release is incremented to the next even version, so you won't be able to find tha…
Comment: Although I successfully installed the package "simpleaffy'' , I cannot library i by fatinataly • 0
I tried also with oligo does not work, any other suggestion?
Comment: More regions in union when increasing DBA$config$mergeOverlap by Ian D. ▴ 70
Hello. Thanks for the reply. Sorry about this. My testing is telling me that 1 is the default (a gap), not -1 (1bp overlap). Negative …
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
Awards • All
Popular Question to gene_bioconductor ▴ 10
Popular Question to rohitsatyam102 ▴ 20
Popular Question to shepherl 3.9k
Popular Question to siajunren • 0
Scholar to Rory Stark ★ 5.2k
Locations • All
France, 4 minutes ago
European Union, 10 minutes ago
United States, 13 minutes ago
United States, 55 minutes ago
United States, 58 minutes ago
Traffic: 694 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6