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htseqtools
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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
▴ 780 • written 3.2 years ago by
Mick
• 0
1
vote
3
replies
3.3k
views
HTSeq-count on several gff3/gtf files for use in DESeq2
htseqtools
deseq2
counts
cuffdiff
8.2 years ago
Jon Bråte
▴ 250
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
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
0
votes
1
reply
794
views
htSeqTools - filtered reads > BED?
IRanges
htSeqTools
IRanges
htSeqTools
updated 12.3 years ago by
Michael Lawrence
★ 11k • written 12.3 years ago by
Ian D.
▴ 70
0
votes
0
replies
945
views
htSeqTools: using GRanges and GRangesList
convert
htSeqTools
convert
htSeqTools
12.3 years ago
Oscar Reina
▴ 20
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 D.
▴ 70
7 results • Page
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Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Comment: Too many significant genes when integrating gtex and tcga
by
Michael Love
41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Answer: Too many significant genes when integrating gtex and tcga
by
James W. MacDonald
65k
See `?results`, in particular the lfcThreshold argument.
Comment: Once again a "Model matrix not full rank"
by
James W. MacDonald
65k
You already ran a temporal assay. Now you can compare each time point to the baseline. The interaction term is only applicable if you have…
Comment: Timecourse RNASeq analysis
by
Aurora
• 0
I managed to run ImpulseDE2 as I am interested in getting significant gene changes over time. Now I would like to run deseq as well and com…
Votes
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
stuck on unimplemented type 'list' in 'EncodeElement'
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