[BioC] Problem with addGeneIDs and org.Sc.sgd.db

Susan Wilson smwilson at hpc.unm.edu
Fri Aug 17 19:14:48 CEST 2012


I'm following the chip-seq tutorial at 
and trying to do it in parallel with some actual data I have from yeast. 
When I try to run addGeneIDs using the org.Sc.sgd.db annotation 
database, I get the following:

 > tss_annotated_Peaks.symbol=addGeneIDs(tss_annotated_Peaks, 
"org.Sc.sgd.db", c("symbol", "genename"))
Error: Annotation database must be *.eg.db

I can't find any hits on google with anyone else trying to do this. Can 
anybody make any suggestions? I can see that the source for addGeneIDs 
does indeed require the name of the database to be *.eg.db. Is 
org.Sc.sgd.db simply not in a correct format, and therefore deliberately 
not named *.eg.db? Or is there a way to rename or alias the database so 
the addGeneIDs will process it?


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