Question: ygs98
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gravatar for Christina Kendziorski
14.8 years ago by
Christina Kendziorski60 wrote:
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
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ADD COMMENTlink modified 14.8 years ago • written 14.8 years ago by Christina Kendziorski60
Answer: ygs98
0
gravatar for Christina Kendziorski
14.8 years ago by
Christina Kendziorski60 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
ADD COMMENTlink written 14.8 years ago by Christina Kendziorski60
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 >
ADD REPLYlink written 14.8 years ago by Jeffrey Rasmussen100
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