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htseqtools
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HTSeq-count on several gff3/gtf files for use in DESeq2
htseqtools
deseq2
counts
cuffdiff
8.2 years ago
Jon Bråte
▴ 250
0
votes
0
replies
939
views
htSeqTools: using GRanges and GRangesList
convert
htSeqTools
convert
htSeqTools
12.3 years ago
Oscar Reina
▴ 20
0
votes
1
reply
786
views
htSeqTools - filtered reads > BED?
IRanges
htSeqTools
IRanges
htSeqTools
updated 12.2 years ago by
Michael Lawrence
★ 11k • written 12.2 years ago by
Ian Donaldson
▴ 70
0
votes
2
replies
1.2k
views
htSeqTools - naming RangedData objects?
htSeqTools
ASSIGN
htSeqTools
ASSIGN
updated 12.3 years ago by
Michael Lawrence
★ 11k • written 12.3 years ago by
Ian Donaldson
▴ 70
0
votes
4
replies
1.8k
views
htSeqTools errors
Coverage
htSeqTools
Coverage
htSeqTools
updated 12.2 years ago by
Valerie Obenchain
★ 6.8k • written 12.2 years ago by
Juan L. Mateo
▴ 80
0
votes
3
replies
1.0k
views
Which library now contains the ssdCoverage command that used to be found in the htseqtools package for R version 4.0.1 ?
Deprecation
chipseq
htseqtools
Bioconductor
updated 3.1 years ago by
Basti
▴ 770 • written 3.1 years ago by
Mick
• 0
0
votes
1
reply
1.6k
views
GenomicRanges requires a IRanges version not available in the repository
GenomicRanges
htSeqTools
GenomicRanges
htSeqTools
updated 12.2 years ago by
Vincent J. Carey, Jr.
6.7k • written 12.2 years ago by
Juan L. Mateo
▴ 80
7 results • Page
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Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param
by
russ.bainer
▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions
by
Chris
• 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Comment: How to retrieve detailed regression results from deseq2
by
Weiqian
▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
Comment: DESeq filtering specific to contrasts
by
Michael Love
41k
It will likely not filter it out, but really the per-dataset details would affect the results.
Comment: DESeq filtering specific to contrasts
by
Carlin95
• 0
Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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