Hi fellow biostars,
I have RPKM for 20 samples(10 disease and 10 control). I'm trying to build a classification model, so I need to do between-sample normalization. I know that I could do deseq/TMM on raw read counts, but is it okay to do deseq/TMM on RPKM? Thanks a lot!
Update: I found that deseq doesn't support continuous data like RPKM. So I guess my question is: is there any between-sample normalization methods that I could use on RPKM data? Thanks!