[BioC] Example from help on GOHyperG

[jeffrey rasmussen]

Hi Christina,

Are you using the latest version of GOstats? I had a similar problem 
sometime ago, but I believe the newer versions of GOstats (>1.6.5) have a 
workaround.

See this old thread:
http://files.protsuggest.org/biocond/html/6590.html

Good luck,
Jeff.

On Fri, 21 Jan 2005, Christina Kendziorski wrote:

>
> Hi,
>
> I'm getting an error (see below) when I run the example from the
> help page on GOHyperG in GOstats. I can't tell if
> the problem is internal to our setup, but I expect it
> might not be as I see this error on both our
> Stat. Dept. and Biostat. Dept. machines.
>
> Thanks for any help,
>
> Christina
>
>
>> library(GOstats)
>> library(hgu95av2)
>> library(GO)
>> w1<-as.list(hgu95av2LOCUSID)
>> w2<-unique(unlist(w1))
>> set.seed(123)
>> #pick a hundred interesting genes
>> myLL <- sample(w2, 100)
>> xx<-GOHyperG(myLL)
>
> Error in FUN(X[[48]], ...) : No direct or inherited method for function
> "Ontology" for this call
>
>
> Christina Kendziorski
> Assistant Professor
> Department of Biostatistics and Medical Informatics
> University of Wisconsin - Madison
> Medical Sciences Center (6729)
> 1300 University Avenue
> Madison, Wisconsin 53706
>
> Phone: (608) 262-3146
> Fax: (608) 265-7916
>
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