Martin,

	Thanks!
	That will get me started!

Best wishes,
Rich


On Aug 16, 2012, at 1:34 PM, Martin Morgan wrote:

> 
> Not so much an already worked out protocol but an elaboration of Steve's bet
> 
> An AnnotateSeq package would be a useful addition; the info in annaffy is in the org packages, discoverable with 'cols', 'keytypes' (often synonymous with 'cols'), and accessible via 'select'. The plans for the next release are OrganismDb objects that make the merge that one would do across, say, org*, TxDb*, and GO.db packages transparent.
> 
> > library(org.Dm.eg.db)
> > cols(org.Dm.eg.db)
> [1] "ENTREZID"     "ACCNUM"       "ALIAS"        "CHR" "CHRLOC"
> [6] "CHRLOCEND"    "ENZYME"       "MAP"          "PATH"         "PMID" 
> [11] "REFSEQ"       "SYMBOL"       "UNIGENE"      "ENSEMBL" "ENSEMBLPROT"
> [16] "ENSEMBLTRANS" "GENENAME"     "UNIPROT"      "GO" "EVIDENCE"
> [21] "ONTOLOGY"     "FLYBASE"      "FLYBASECG"    "FLYBASEPROT"
> > select(org.Dm.eg.db, "FBtr0005009", c("GENENAME", "SYMBOL"), "ENSEMBLTRANS")
>  ENSEMBLTRANS          GENENAME SYMBOL
> 1  FBtr0005009 Muscle protein 20   Mp20
> 
> Martin
> 


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