Hi,
I am hoping to get the source code for the ygs98
annotation package.
The link on the metadata page seems to be broken.
Thanks for any help,
Christina
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
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
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
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor@stat.math.ethz.ch
> https://stat.ethz.ch/mailman/listinfo/bioconductor
>
