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Custom model matrix for multi factordesign
deseq2 LRT geometric mean estimatesizefactors model.matrix
updated 4.5 years ago by 39k • written 4.5 years ago by • 0
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Normalization and DE test in EBseq and DESeq
Geometric mean library size factor
6.1 years ago hkang • 0
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Comment: how can I do gene differential analysis on data after vst by linouhao ▴ 20
Thanks a lot. so do you know when professor Gordon Smyth says 'Differential expression analysis of vst values can be performed by limma-t…
Comment: Help with Error in DiffBind by Rory Stark ★ 4.7k
Apologies. The first line should be result <- dba(sampleSheet=samples) I've gone back and edited previous replies to reflect this.
Answer: *** caught segfault *** , cause 'memory not mapped' by James W. MacDonald 62k
You are unfortunately running out of RAM. As you note, you could possibly use `frma`, after generating frozen vectors using the `frmaTools`…
Comment: Help with Error in DiffBind by Chris • 0
Thanks Rory! result <- dba(samples) Error in if ((length(callers) == 1) & (callers[1] == "counts")) { : argument is of len…
Answer: Help with Error in DiffBind by Rory Stark ★ 4.7k
In your case, with only two replicates in each sample group, you can not perform a default analysis using only `dba.analyze()`. I suggest t…
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Analyzing RNA-seq data by WGCNA
A: Analyzing RNA-seq data by WGCNA
Comment: Help with Error in DiffBind
WGCNA: Module preservation vs consensus analysis
WGCNA: Module preservation vs consensus analysis
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