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Comment: Annotation for EPICv2 by nurkenber • 0
Thank you for your reply. I welcome any help I can get) I checked the first two are based on the same file, [Infinium MethylationEPIC v2.…
Answer: Mostly increased counts in differentially accessible peaks using DESeq2 by Michael Love 42k
The difference between tracks and DESeq2 (or any count method in Bioc) is that tracks use simple scaling that is not robust to large shifts…
Answer: How to set filtering standard for low-expression genes in ImpulseDE2 by Michael Love 42k
I think ImpulseDE2 is no longer part of Bioconductor (the package landing page doesn't exist). Maybe try here: https://github.com/YosefL…
Comment: Annotation for EPICv2 by nurkenber • 0
Thank you for your detailed reply Could you please help me understand something and I understand that it is a question best adressed to Il…
Comment: GSVA ssGSEA vs. Broad implementation of ssGSEA by Robert Castelo ★ 3.4k
Thanks for your analysis of the differences between ssGSEA 2.0 and ssGSEA 1.0, as I said in my previous message, please file an issue in th…
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Answer: Highly DE genes but small count difference within conditions
Answer: Highly DE genes but small count difference within conditions
Answer: Annotation for EPICv2
C: Vertical line at A=0, nothing else, on MA plot
Comment: RNASeq Time Course Question
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