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Rsubread
•
reset
0
votes
0
replies
82
views
Exon-exon Junction Analysis for Variable-length Exons
Rsubread
11 days ago
Dario Strbenac
★ 1.5k
0
votes
2
replies
255
views
Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts
Rsubread
5 weeks ago • updated 16 days ago
isaac.vock
• 0
2
votes
2
replies
1.6k
views
Running featureCounts() in 'IntersectionStrict' mode
rsubread
featurecounts
summarizeoverlaps
updated 5 weeks ago by
isaac.vock
• 0 • written 7.9 years ago by
Jon Manning
▴ 90
2
votes
3
replies
257
views
Rsubread crashes Rstudio while alignment
Rsubjunc
Rsubread
updated 5 weeks ago by
Wei Shi
★ 3.6k • written 5 weeks ago by
thomas.heigl.ibk
• 0
0
votes
1
reply
185
views
Rsubread: buildindex() should support multiple reference files
Rsubread
updated 7 weeks ago by
Gordon Smyth
50k • written 7 weeks ago by
Gerhard Thallinger
▴ 180
0
votes
0
replies
145
views
Feature Counts -R XS Read Assignment Tag
FeatureCounts
Rsubread
8 weeks ago
chris2.a.white
• 0
1
vote
1
reply
268
views
featureCounts unable to assign long reads to one specific isoform
featureCounts
Rsubread
updated 9 weeks ago by
Wei Shi
★ 3.6k • written 12 weeks ago by
Alex
• 0
1
vote
1
reply
393
views
RSubread cellCounts - memory mapping error with NovoSeq but not NextSeq output
Rsubread
updated 9 weeks ago by
Yang Liao
▴ 380 • written 3 months ago by
Joe Marturano
▴ 10
0
votes
0
replies
160
views
Unclear exon-exon connection after RSubjunc() usage
IGV
Rsubjunc
Rsubread
9 weeks ago
thomas.heigl.ibk
• 0
7
votes
28
replies
6.2k
views
Rsubread::featureCounts extremely slow on some annotations
rsubread
featurecounts
updated 3 months ago by
Gordon Smyth
50k • written 9.2 years ago by
Ryan C. Thompson
★ 7.9k
4
votes
6
replies
753
views
[BUG] Rsubread::featureCounts quirk in CORE files: different target list ordering for same target lists
featurecounts
Rsubread
3 months ago
isaac.vock
• 0
0
votes
4
replies
442
views
Adjusting featureCounts settings in Galaxy for miRNA overlaps
featureCounts
Rsubread
updated 3 months ago by
Gordon Smyth
50k • written 3 months ago by
tjgray4
• 0
1
vote
2
replies
269
views
Problems with Feature counting
Rsubread
BAMfiles
GTFfile
3 months ago
mirjanakessler
• 0
0
votes
1
reply
324
views
Strange behaviour in Rsubread when trimming sequences leading to a change inthe order of the reads
Rsubread
updated 5 months ago by
Gordon Smyth
50k • written 5 months ago by
glopez
• 0
2
votes
2
replies
594
views
Long-read mode in featureCounts
Rsubread
LongRead
6 months ago
mmisak
• 0
0
votes
2
replies
1.3k
views
using featureCounts (Subread) to count only spliced reads per gene - behavior of --splitOnly with PE data?
Rsubread
7 months ago
Gregory
• 0
0
votes
0
replies
293
views
Fatal error: Wrong thread calling 'RunFinalizers'
featureCount
Rsubread
HPC
7 months ago
kthapa
• 0
0
votes
2
replies
518
views
Rsubread: .bai file lacks data for `samtools idxstats`
Rsubread
7 months ago
Gerhard Thallinger
▴ 180
0
votes
0
replies
323
views
Rsubread subjunc reporting 255 kb introns with exon limits mapping to A-rich region
Rsubread
updated 8 months ago by
Gordon Smyth
50k • written 8 months ago by
Cosmin Saveanu
• 0
2
votes
3
replies
689
views
Rsubread: subjunc() loads index repeatedly
Rsubread
9 months ago • updated 8 months ago
Gerhard Thallinger
▴ 180
0
votes
2
replies
609
views
R session aborts after running align function on Rsubread
Rsubread
Alignment
updated 9 months ago by
Wei Shi
★ 3.6k • written 9 months ago by
amanda.gutierrez
• 0
0
votes
2
replies
1.0k
views
understanding differences in RSEM, STAR outputs and featureCounts
RNASeqData
Rsubread
mapping
featurecounts
updated 9 months ago by
James W. MacDonald
65k • written 9 months ago by
vitoriastavis
• 0
0
votes
1
reply
491
views
Relationship between gene_id and transcript_id genomic coordinates
Rsubread
ensembldb
updated 9 months ago by
James W. MacDonald
65k • written 9 months ago by
Ya
• 0
1
vote
6
replies
1.8k
views
Rsubread - Error on buildindex - big ref sequence
Rsubread
updated 9 months ago by
Yang Liao
▴ 380 • written 4.2 years ago by
bryan.penning
• 0
1
vote
1
reply
664
views
featureCounts bug with unpaired reads
Rsubread
featureCounts
updated 9 months ago by
Yang Liao
▴ 380 • written 9 months ago by
StevenE.Strong
• 0
0
votes
2
replies
586
views
'Killed' error during RNAseq alignment
subjunc
data.frame
myExons
Rsubread
updated 10 months ago by
ATpoint
★ 4.1k • written 10 months ago by
Sukeerthi
• 0
3
votes
16
replies
18k
views
featureCounts - paired-end data
featurecounts
rsubread
updated 10 months ago by
Robert
• 0 • written 9.0 years ago by
samuel collombet
▴ 140
0
votes
1
reply
869
views
Potential segfault bug in featureCounts using long read data
Bioconductor
Rsubread
featureCounts
updated 12 months ago by
Wei Shi
★ 3.6k • written 12 months ago by
Carlos
• 0
28 results • Page
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Answer: Method to find pathways different between 2 groups
by
Gordon Smyth
50k
> When I search camera limma on pubmed, I found 2 papers I am unclear what point you are trying to make. limma's camera method has been fo…
Comment: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 for all platforms without any issues. It has not had any period of …
Comment: package goseq seems to be not available on the latest version of R
by
Patrycja
▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…
Comment: DNAString: Standard checksum function?
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Henrik Bengtsson
★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
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