I want to get all GO terms for a particular organism. Additionally, I want to get all of the ENTREZIDs
My problem is that (for example) GOID GO:0032501 does not appear in the list from the query below:
go_list <- mapIds(org.Hs.eg.db, keys(org.Hs.eg.db, "GO"), "ENTREZID", "GO", multiVals = "list")
Furthermore, using a different query (shown below), GOID GO:0032501 does appear in the list but there are no ENTREZIDs associated with it:
go_list <- as.list(org.Hs.egGO2ALLEGS)
Whereas when I run this query, GOID GO:0032501 does appear in the list and there are ENTREZIDs associated with it:
egGO2ALLEGS <- getFromNamespace("org.Hs.egGO2ALLEGS", "org.Hs.eg.db") GeneID.PathID <- AnnotationDbi::toTable(egGO2ALLEGS)
Does anyone know why this is?