I'm using edgeR perorming normalization on my raw count data. The problem is that I don't know how to export normalized data. I searched lots bbs, answers shows below:
These answers make me even more confused:
d$pseudo.ald, some say it's not appropriate.
- for cpm and rpkm. I think these are two normalized methods. Can I computed cpm or rpkm after TMM normalization? If so, it means I use two different normalization methods at same time?