Thank you for the convenient tool. However, when I run mcf <- getGenesets(org = "mcf", db = "kegg", gene.id.type = "SYMBOL",cache = TRUE, return.type="list"), it returns
Error in .org2pkg(anno): unrecognized organism ID 'mcf'
Traceback:
1. getGenesets(org = "mcf", db = "kegg", gene.id.type = "SYMBOL",
. cache = TRUE, return.type = "list")
2. .getKEGG(org, gene.id.type, cache, return.type)
3. .dwnldAllKeggGS(pwys, gene.id.type, cache, return.type)
4. suppressMessages(gs <- idMap(gs, org, from = "ENTREZID", to = gene.id.type))
5. withCallingHandlers(expr, message = function(c) if (inherits(c,
. classes)) tryInvokeRestart("muffleMessage"))
6. idMap(gs, org, from = "ENTREZID", to = gene.id.type)
7. .idMapGS(obj, org, from, to, multi.to)
8. .mapStats(sgenes, org, from, to, multi.to)
9. .getAnnoPkg(org)
10. .org2pkg(anno)
11. stop(paste0("unrecognized organism ID '", org, "'"))
Thank you for the convenient tool. However, when I run
mcf <- getGenesets(org = "mcf", db = "kegg", gene.id.type = "SYMBOL",cache = TRUE, return.type="list"), it returnsI had checked the org three-letter code in KEGG (https://www.genome.jp/kegg/catalog/org_list.html), "mcf" means Macaca fascicularis (crab-eating macaque).