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I have a problem when I run DESeq2 with one variable with 8 levels, I can't find the contrast for any comparison with level 8
Contrast
factors
levels
2.5 years ago
Edgar
• 0
5
votes
4
replies
1.1k
views
DESeq2 with multiple variable give me different results
Factor
Levels
Dispersionestimates
DESeq2
3.4 years ago
rafaelsolersanblas
▴ 50
2
votes
2
replies
2.0k
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How to extract factor levels of coldata from deseq object?
deseq2
levels
factor
colData
updated 6.1 years ago by
Michael Love
43k • written 6.1 years ago by
ariel
▴ 20
3 results • Page
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Comment: DiffBind can't find a DAR
by
ATpoint
★ 4.8k
"My cake does not look as advertised in the recipe", with this sloppy sentence I hope you understand that you need to give people details, …
Comment: DESeq - help with pair wise comparisons
by
bd2000
▴ 30
Follow up question, is this the correct way to extract results? ```r results <- results(ddsObj, list(c("GroupControl.Followup", "GroupTrea…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ktz
• 0
Thank you for your reply! I would love to know your thoughts on the plots I've included above. > 'Are the differences between groups lar…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin
by
ktz
• 0
I also realised that the other gene I pointed out that was flagged as DE but had similar count differences also shows that rep1 is lower th…
Comment: DESeq - help with pair wise comparisons
by
bd2000
▴ 30
Thanks that's great!! I've followed the instructions from the link you sent, is my code correct? By correct I mean, is my code comparing fo…
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Comment: DESeq - help with pair wise comparisons
Answer: Is random access by row index possible for an indexed VCF file?
Answer: Is random access by row index possible for an indexed VCF file?
Answer: SingleR with multiple single cell references
Answer: SingleR with multiple single cell references
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