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Comment: parameters of filterByExpr
by
caroline.zanchi
▴
10
It worked, I think I finally understand and accept that fact. Sorry and thank you again !
Comment: parameters of filterByExpr
by
Gordon Smyth
52k
You seem to be coming back to the same fixed (but incorrect) idea of what filterByExpr() should be doing. I have tried to explain that filt…
Answer: edgeR in DMR mode - replicates give batch effect - how to build design matrix wi
by
Gordon Smyth
52k
modelMatrixMeth() works correctly. The second replicate factor has not been lost.
Please do not make ad hoc manual modifications to the de…
Comment: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm
by
James W. MacDonald
68k
Probably not. Any given gene may be appended with many different GO terms, so you would end up with something that is not very useful.
``…
Comment: Heatmap of rnaseq data with z-score scale
by
James W. MacDonald
68k
`heatmap.2` is a CRAN package, and that's the relevant issue for this plot. It's got nothing to do with `DESeq2` or any other Bioconductor …
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