Hi,

I am thinking about switching from GoStats to GoSeq. Is there a built in possibility to use the ENSEMBL transcript annotation or can I only use ENSEMBL genes? Do I have to annotate myself the transcripts with the gene go category + length?

> subset(supportedGenomes(), species == "Human" & db == "hg19")
    db species      date                               name
2 hg19   Human Feb. 2009 Genome Reference Consortium GRCh37
                                                              AvailableGeneIDs

2 ccdsGene,ensGene,exoniphy,geneSymbol,knownGene,nscanGene,refGene,xenoRefGene

Hi,

Only the gene level information is supported, so you would have to specify the go terms and lengths manually if you want to use transcripts instead. 

Cheers, 

Nadia.