I am working with my DEGs list from
edgeR with TMM normalization. I have seen in many publications that researches plot
log2(FPKM) values for individual DEGs to show the statistical significance. Regarding this, I would like to know if it is posible to plot the
log2(CPM) values of control and treatment samples for individual genes, as I have used
edgeR with TMM and not RPKM. Is there a function in
edgeR to obtain this values for control and treatment samples of each gene, instead of the total value of the final report? Or do I need to start with
featureCounts data and transform it somehow?
Can someone help me?
Thanks in advance!!