I have done differential expression analysis with
goseq I can see there are pathways of interest differentially expressed- that makes sense to our biological observations. What I would like to do next is self-contained gene set testing with molecular pathway signature from MSigDB. Many answers here seem to suggest that,
roast is best suited to follow
limma DGE analysis.
My question is: is there a reasonable method to do the similar self-contained test with DESeq DE genes or do I have to do the whole analysis again in