On 10/13/2011 01:52 AM, Tim Triche, Jr. wrote: > rownames(myexprsunique) = make.unique(rownames(myexprsunique)) > myExpressionSet<- new("ExpressionSet", exprs = myexprsunique, phenoData = > myphenoData, annotation = myannotation) > > This is more of an R question than a BioC question, and don't forget to make > the phenoData row names unique too. actually, Nuria was sent here from R-help ;) ExpressionSet row names are meant to be unique identifiers; store other identifiers in featureData, e.g., fData(myExpressionSet)[["MyIds"]] <- 'whatever' or create a featureData instance (it's an AnnotatedDataFrame, like phenoData) in new("ExpressionSet", featureData=featureData) Hope that helps, Martin > > > On Wed, Oct 12, 2011 at 11:59 PM,<nqueralt at="" clinic.ub.es=""> wrote: > >> Dear all, >> >> >> >> I am facing the problem that comes up when an ExpressionSet object is >> intended to be created parsing a matrix expression data with duplicate row >> names: >> >> >> >>> try(myExpressionSet<- new("ExpressionSet", exprs = myexprsunique, >> phenoData = myphenoData, annotation = myannotation, check.names=FALSE)) >> >> Error in data.frame(numeric(n), row.names = nms) : >> >> duplicate row.names: blu >> >> >> >> I was wondering if there exists a way to create this ExpressionSet object >> although duplicate row names exist in the expression matrix data parsed? >> Many thanks in advance. >> >> >> >> Kind regards, >> >> >> >> N?ria >> >> >> >> >> [[alternative HTML version deleted]] >> >> >> _______________________________________________ >> Bioconductor mailing list >> Bioconductor at r-project.org >> https://stat.ethz.ch/mailman/listinfo/bioconductor >> Search the archives: >> http://news.gmane.org/gmane.science.biology.informatics.conductor >> >> > > > > > _______________________________________________ > Bioconductor mailing list > Bioconductor at r-project.org > 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