[BioC] GOTERM by itself

[Sean Davis]

Michael,

Does the function getGOTerm (from GOstats) do what you want?

Sean

On Oct 14, 2004, at 6:01 AM, Auer Michael wrote:

> I would like to present the results of GOHyperG in the form of a table
> with GO ID, Count, Pvalue and GOTERM. The problem lies within the 
> GOTERM
> ,because the output of the enviroment has changed!!!
>
>
>
> I am calling GOHyperG with a series of LOCUS IDS, ids1
>
> ids1MF<- GOHyperG(unique(unlist(ids1)),lib="hgu133a",what="MF")
>
> Then I am building a matrix with the call. The matrix has the columns 
> GO
> ID, Counts and pvalues. But I also want the GOTERM. The problem is that
> there is no function which reports the GOTERM by it self.
> For example mget("GO:0016407",GOTERM))
>
> $"GO:0016407"
> GOID = GO:0016407
> GO term = acetyltransferase activity
> Definition for GO term = Catalysis of the transfer of an acetyl group 
> to
> an acceptor molecule.
> Ontology = MF
> But I only want the GOTERM
>
> ids1matrMF<-cbind(names(ids1MF$intCounts), as.vector(ids1MF$intCounts),
> as.vector(ids1MF$pvalues))
> dimnames(ids1matrMF)[[2]]<-c(“GO ID”,”Counts”,”pvalues”)
>
>
>
> How can I retrieve only the GOTERM?????
>
> Thanx
>
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