I have two lists of cancer genes, the genes of list-1 belong to category A, while the genes in list-2 belong to category B. I would like to perform an enrichment analysis to check whether or not category A has a enrichment of cancer genes.
Some genes are present in both categories A & B, so I think Fisher's exact test does not work in this case.
Any suggestions of other possible methods? any way to do this in R?
So I want to do enrichment of category A, and have a set of genes that are enriched.