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voom limma
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normalization of CHIP-seq samples (ChIP and INPUT)
edgeR
deseq2
voom limma
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
Bogdan
▴ 670
1
vote
3
replies
1.6k
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Interaction term analysis using ballgown
ballgown
stringtie
voom limma
differential gene expression
rnaseq
updated 8.2 years ago by
Alyssa Frazee
▴ 210 • written 8.2 years ago by
jcalis
▴ 10
2 results • Page
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Comment: Merge Replicates vs Mixed Model
by
gabriel.hoffman
▴ 160
It is almost always better to retain the full observed data, if the statistical software is able to model the repeated measures. This is a…
Comment: makeContrastsDream for Interaction
by
gabriel.hoffman
▴ 160
The simplest way to handle contrasts with an interaction term is to create a new variable. Lets consider a simpler case with variables `Se…
Answer: DESeq2 sizefactors counfounded with biological treatment
by
James W. MacDonald
67k
Your question is off-topic for this site, which is primarily intended to help people with technical issues with Bioconductor packages rathe…
Comment: Epic v2 Annotation CpG_maf source?
by
Meghan
• 0
Thank you, so much, for this reply!
Comment: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome
by
remi-xavier.coux
▴ 10
That indeed worked, thanks a lot for the help (and for karyoploteR)
Votes
Comment: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome
Answer: Epic v2 Annotation CpG_maf source?
Answer: bioconductor packages on bioconda
Filtering low variance genes for WGCNA
A: Filtering low variance genes for WGCNA
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