Hi,

This may be a simple question but I've been stumped trying to find the right set of commands to do this, but is there a way to extract a RPM matrix from a dds object in DESeq2? I was able to make the dds object and did some preliminary PCA plotting of based on the rlog transform of the genes, but now I want to use the RPM to do some analysis of my samples that isn't strictly differential expression. Is there a command to do this or should I just take my original counts matrix and do the calculation myself? (Pretty new to R and this kind of analysis so any help is appreciated!)