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Question: GOstats
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gravatar for Yuan Jian
8.4 years ago by
Yuan Jian250
Yuan Jian250 wrote:
Hello bioconductor experts: now I am using GOstats package to get enriched pathway: > paramsKEGG <- new("KEGGHyperGParams", geneIds = geneCluster,            universeGeneIds = geneUniverse, annotation = "org.Hs.eg.db",            pvalueCutoff = 0.1, testDirection = "over") >output <- summary(hgKEGG_Over) I can get enriched geneSymbol as below. my question is how to correspond these geneSymbol to the entries (enclosed by square) in KEGG pathway figure? >overlap_EGs <- geneCluster[geneCluster %in% unlist(mget(output$KEGGID[1], revmap(org.Hs.egPATH),ifnotfound=NA))] >overlap_symbols <- mget(overlap_EGs, org.Hs.egSYMBOL) thanks Yu [[alternative HTML version deleted]]
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