Hi List I performed qc on some data and then i did gcrma on the the raw data and converted into an expression set object(data.m).i then performed filtering using rowSds(data.f). Now I am trying to perform GeneSetCollection for KEGG but getting the following error. >gsc<-GeneSetCollection(data.f,setType= KEGGcollection) Error: could not find function "KEGGcollection" Error in GeneSetCollection(data.f, setType = KEGGcollection()) : error in evaluating the argument 'setType' in selecting a method for function 'GeneSetCollection' Please help peevi [[alternative HTML version deleted]]

On 11/21/2010 06:59 PM, Peevi Ijkl wrote: > Hi List > I performed qc on some data and then i did gcrma on the the raw data and > converted into an expression set object(data.m).i then performed filtering using > rowSds(data.f). Now I am trying to perform GeneSetCollection for KEGG but > getting the following error. > >> gsc<-GeneSetCollection(data.f,setType= KEGGcollection) > > Error: could not find function "KEGGcollection" > Error in GeneSetCollection(data.f, setType = KEGGcollection()) : > error in evaluating the argument 'setType' in selecting a method for function > 'GeneSetCollection' > > > Please help Hi peevi -- Capitalize 'Collection' in KEGGCollection, and use it as a function KEGGCollection() as in the vignette (for GOCollection()) and help page ?GeneSetCollection. But it might help to understand where you are going -- following an existing vignette (which?), or ?? martin > peevi > > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor -- Computational Biology Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: M1-B861 Telephone: 206 667-2793