bitr() doesn’t recognize the keys I’ve entered as valid gene symbols for my organism’s database (‘SYMBOL’).
Hello,
In trying to re-run my pathway analysis with a DEG set annotated with gene symbols.
I have encountered this error while wanting to retrieve Entrez IDs for clusterProfiler. This is a new error, as I have worked with the same script before.
up.genes.entrez <- clusterProfiler::bitr(up.genes,fromType = "SYMBOL",toType = "ENTREZID",OrgDb = org.Hs.eg.db)
Error in .testForValidKeys(x, keys, keytype, fks) :
None of the keys entered are valid keys for 'SYMBOL'. Please use the keys method to see a listing of valid arguments.
I can not figure out why keytype SYMBOL are not recognized as valid gene symbols anymore. I have tried reinstalling or updating the packages and I would be most grateful for additional suggestions.
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