Hello.

I finally got running gseDO() from the DOSE package but, I just realised I can't or I don't know how to change the organism from human to Mouse. You can see the following script and the error.

y <- gseDO(geneList, nPerm = 500, minGSSize = 15, pvalueCutoff = 0.5, pAdjustMethod = "BH", OrgDb="org.Mm.eg.db", verbose = FALSE)

Error in gseDO(geneList, nPerm = 500, minGSSize = 15, pvalueCutoff = 0.5, : unused argument (OrgDb = "org.Mm.eg.db")

No. We may extend it to support mouse in future. But currently Disease Ontology only supports human.