Showing : featureCounts • reset
7
votes
28
replies
6.2k
views
Rsubread::featureCounts extremely slow on some annotations
rsubread featurecounts
updated 3 months ago by 50k • written 9.2 years ago by ★ 7.9k
3
votes
16
replies
18k
views
featureCounts - paired-end data
featurecounts rsubread
updated 11 months ago by • 0 • written 9.0 years ago by ▴ 140
4
votes
15
replies
4.2k
views
DESeq2 for mulitple tissues under 2 conditions and contrast options
deseq2 rnaseq featurecounts DESeqDataSetFromMatrix
updated 6.5 years ago by 42k • written 6.6 years ago by ▴ 10
2
votes
14
replies
7.6k
views
Calculating rpkm from counts data?
r featurecounts rpkm tpm edger
updated 15 months ago by ▴ 10 • written 6.8 years ago by ▴ 110
3
votes
13
replies
3.0k
views
Rsubread- feature counts
annotation Rsubread featureCounts
updated 5.3 years ago by 50k • written 5.3 years ago by • 0
5
votes
11
replies
3.9k
views
FeatureCounts counts wrongly when quantifying mixed paired and unpaired reads
rsubread featureCounts
updated 2.1 years ago by ▴ 10 • written 5.1 years ago by ▴ 120
3
votes
11
replies
3.6k
views
The low successful assignment ratio of FeatureCounts
FeatureCounts Rsubread Subread
2.1 years ago • updated 2.0 years ago Sarah_piggy ▴ 10
2
votes
9
replies
1.7k
views
featureCounts with NCBI T2T not capturing all genes
CHM13v2.0 featureCounts T2T Rsubread
14 months ago Hilary ▴ 30
0
votes
9
replies
2.9k
views
Featurecounts issue for counting exons: Not matching total counts mapped for specific gene
featurecounts Rsubread ggbio
updated 5.5 years ago by ★ 3.6k • written 5.5 years ago by ▴ 40
0
votes
8
replies
3.4k
views
featureCounts Returns 0.0% successfully assigned fragments
rsubread featurecounts
6.0 years ago connor.geraghty • 0
4
votes
8
replies
1.5k
views
When doing differential gene analysis, why measuring genes based on exons? Can we measure genes based on CDS?
rnaseq featurecounts edger deseq2
updated 6.6 years ago by 50k • written 6.6 years ago by • 0
3
votes
7
replies
1.9k
views
Rsubread inbuilt annotation
rsubread featureCounts
updated 5.1 years ago by 50k • written 5.1 years ago by • 0
0
votes
7
replies
2.5k
views
caught segfault when using featureCounts
rsubread featurecounts
6.4 years ago Ge Tan ▴ 20
4
votes
7
replies
2.6k
views
Differential ChIP-Seq Analysis with DESeq2
chipseq deseq2 featurecounts differential binding analysis
updated 6.0 years ago by 42k • written 6.0 years ago by ▴ 20
4
votes
7
replies
2.2k
views
RNAseq reads mapped to the gene
star featurecounts edgeR RNAseq
8.0 years ago myprogramming2016 • 0
1
vote
7
replies
5.4k
views
featureCounts creating fragments and high NoFeatures value
featurecounts bioconductor differential gene expression star
updated 7.3 years ago by ★ 3.6k • written 7.3 years ago by ▴ 10
3
votes
7
replies
6.3k
views
featureCounts simple (borderline stupid...) question
featurecounts
9.3 years ago Sylvain Foisy ▴ 80
3
votes
6
replies
5.4k
views
How featureCounts define the gene length
featurecounts rnaseq rsubread
updated 2.4 years ago by 50k • written 7.6 years ago by ▴ 20
4
votes
6
replies
783
views
[BUG] Rsubread::featureCounts quirk in CORE files: different target list ordering for same target lists
featurecounts Rsubread
3 months ago isaac.vock • 0
4
votes
6
replies
6.1k
views
strange results with featureCounts
RNA-seq featureCounts total RNA
updated 19 months ago by ▴ 20 • written 6.0 years ago by ▴ 10
0
votes
6
replies
1.9k
views
Rsubread featureCounts with byReadGroup
rsubread featurecounts
updated 6.6 years ago by ▴ 380 • written 6.6 years ago by ▴ 20
7
votes
6
replies
16k
views
featureCount - very less Successfully assigned reads
featurecounts rsubread
updated 9.4 years ago by 65k • written 9.4 years ago by ▴ 10
0
votes
6
replies
3.1k
views
Error in designAndArgChecker(object, betaPrior) : variables in the design formula cannot have NA values
deseq2 featurecounts error message
updated 5.7 years ago by 42k • written 5.7 years ago by • 0
2
votes
6
replies
1.9k
views
featurecounts Rsubread ERROR on exon_id
R error software error Rsubread featurecounts
updated 5.1 years ago by ★ 3.6k • written 5.1 years ago by • 0
0
votes
6
replies
1.6k
views
Options Request for FeatureCounts
featurecounts subread
updated 5.7 years ago by ★ 3.6k • written 5.7 years ago by • 0
0
votes
5
replies
1.9k
views
Rsubread, featureCounts misses some exons
annotation featurecounts rsubread
updated 8.7 years ago by 50k • written 8.7 years ago by ▴ 80
7
votes
5
replies
3.8k
views
featureCounts returning a matrix of counts full of 0...
featureCounts rnaseq Rsubread
updated 5.1 years ago by 50k • written 5.1 years ago by ▴ 60
0
votes
5
replies
2.2k
views
featureCounts error : SAM_pairer_iterate_tags
subread featureCounts
updated 5.3 years ago by 50k • written 5.3 years ago by • 0
1
vote
5
replies
2.0k
views
featureCounts parameter queries - minOverlap, fracOverlap, fracOverlapFeature
subread Rsubread featureCounts RNA-seq
2.3 years ago Lucy ▴ 60
3
votes
5
replies
1.7k
views
Can featurecounts count number of mapped reads rapidly in arbitrary regions?
featurecounts rsubread
7.9 years ago Hadi Gharibi • 0
4
votes
5
replies
2.2k
views
Rsubread issue with featurecounts :----------- FAILURE REPORT -------------- --- failure: length > 1 in coercion to logical --- --- srcref ---
Rsubread featurecounts coercion
3.0 years ago • updated 2.8 years ago Konstantinos Yeles ▴ 80
4
votes
5
replies
6.1k
views
Hisat2 vs featureCounts summary statistics
featurecounts hisat2 rna-seq mapping
updated 8.0 years ago by ★ 3.6k • written 8.0 years ago by ▴ 180
1
vote
5
replies
3.1k
views
using paired end and single end data in featurecounts
featurecounts rsubread
updated 6.8 years ago by 65k • written 6.8 years ago by • 0
1
vote
5
replies
4.8k
views
featureCounts (subread v2.0.2) ERROR: invalid parameter: '−−countReadPairs'
subread featureCounts
updated 10 months ago by ▴ 380 • written 2.9 years ago by ▴ 10
0
votes
5
replies
2.3k
views
FeatureCounts output to SAM like htseq-counts?
featurecounts SAM htseqcounts
updated 10 months ago by ▴ 380 • written 7.0 years ago by • 0
3
votes
5
replies
4.9k
views
Error with featureCounts
featurecounts rnaseq rsubread
updated 9.3 years ago by ▴ 380 • written 9.3 years ago by ▴ 20
4
votes
5
replies
1.4k
views
Perfectly aligning sequences not mapping to worm genome with Subread-align?
featurecounts rnaseq subread
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
1
vote
4
replies
1.5k
views
Annotated file with gene ID (instead of gene symbol)
Rsubread featureCounts
2.1 years ago Chise ▴ 10
2
votes
4
replies
1.5k
views
featureCounts to RangedSummarizedExperiment
windowcounts featurecounts
updated 7.8 years ago by ★ 28k • written 7.8 years ago by • 0
0
votes
4
replies
3.3k
views
featureCounts taking 4-10 hours per BAM file?
featurecounts r rnaseq
6.1 years ago octopuslegs11 • 0
7
votes
4
replies
7.0k
views
Low percentage of assigned fragments with FeatureCounts
rsubread featurecounts rnaseq
9.1 years ago beiting ▴ 30
0
votes
4
replies
1.8k
views
featureCounts: 0% successfully assigned fragments
featureCounts
2.0 years ago KMS ▴ 20
1
vote
4
replies
1.6k
views
Subread installation
subread featureCounts
2.1 years ago Lucy ▴ 60
1
vote
4
replies
1.7k
views
problem of getting count matrix in featurecounts of Rsubread package
rnaseq rsubread featurecounts
updated 6.2 years ago by ★ 3.6k • written 6.2 years ago by • 0
0
votes
4
replies
5.1k
views
summaries featureCounts output for egeR
featurecounts edger
updated 8.2 years ago by ★ 3.6k • written 8.2 years ago by • 0
2
votes
4
replies
5.1k
views
featureCounts (sourceforge) not returning any counts in count table, even though summary indicates reads were assigned?
featurecounts software error
8.3 years ago Darya Vanichkina ▴ 120
9
votes
4
replies
2.8k
views
News: Experimental data package 'seqc'
seqc rsubread featurecounts subjunc ercc News
9.5 years ago Wei Shi ★ 3.6k
6
votes
4
replies
1.3k
views
Aggregate read counts by non-uniform overlapping sliding windows
granges genomicranges featurecounts
updated 7.3 years ago by ★ 11k • written 7.3 years ago by ▴ 20
4
votes
4
replies
5.0k
views
FeatureCounts
counts subread RNASeq featurecounts
2.5 years ago k___ ▴ 30
0
votes
4
replies
474
views
Adjusting featureCounts settings in Galaxy for miRNA overlaps
featureCounts Rsubread
updated 3 months ago by 50k • written 3 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by jane • 0
Your material was totally correct, therefore I was able to learn what I needed to know. I'd want to convey my heartfelt gratitude for shari…
Comment: all variables in design formula must be columns in colData (Deseq2) error by Galina • 0
thank you!
Comment: all variables in design formula must be columns in colData (Deseq2) error by ATpoint ★ 4.1k
coldata_rat <- data.frame(conditions=..., batch=...)
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by robersy • 0
Thank you all for your comments. I will follow your suggestions.
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Hi Michael, thanks a lot for your prompt reply! Not sure if this is appropriate or if you are the right person to ask -- is there anything…
Votes
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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