[BioC] Error GOseq

[Matthew Young]

Hi Fernando,

I know we've already cleared this up privately, but it's a common  
question so I thought I'd reply on the mailing list.

As of the current version of goseq, it is no longer necessary to pass  
the DEgenes vector to both the nullp() function and goseq().  The  
standard workflow is now:

pwf = nullp(DEgenes,"bosTau4","ensGene")
GO.wall = goseq(pwf,"bosTau4","ensGene")

Cheers,

Matt


On 24/02/2011, at 3:20 AM, Biase, Fernando wrote:

> Hi ,
>
> I have tried to run GOseq on my differential expressed gene list,  
> but when I try to run the following command:
>
> GO.wall <-goseq(DEGgenes, pwf, "bosTau4", "ensGene", method=  
> "Wallenius")
>
> I get the following error:
>
> Error in pwf$DEgenes : $ operator is invalid for atomic vectors
>
> Does anyone has experience in solving this issue?
>
> Thanks,
> Fernando
>
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