On Fri, Jan 14, 2011 at 11:10 AM, Peevi Ijkl <ipeevi@yahoo.com> wrote: > > > Am sorry I dont understand your question > > Hi, Peevi. Please READ the posting guide here: http://www.bioconductor.org/help/mailing-list/posting-guide/ sessionInfo() is an R function. When you are writing to the list, as per the posting guide, you must include the output of sessionInfo() and, when reporting an error, the output of traceback(). Sean > > ________________________________ > From: Vincent Carey <stvjc@channing.harvard.edu> > > Cc: bioconductor@stat.math.ethz.ch > Sent: Fri, January 14, 2011 2:34:41 AM > Subject: Re: [BioC] expression set objects > > what is your sessionInfo() result? > > > > Hi list.. > > I am trying to create an expression set object..here is what i did so > far.. > > > > pd <- read.AnnotatedDataFrame( "target.txt", header=T, row.names=1, > sep=";" ) > > pData(pd) > > expression_data <- ReadAffy( filenames = rownames (pData(pd)) ) > > expression_data > > rma_expression_data <-rma(expression_data) > > rma_data <- exprs(rma_expression_data) > > > > now i want to create an expression set object from the above using the > > following: > > ALLSet <- new("ExpressionSet", exprs =rma_data, phenoData = pd, > > + annotation = "hgu95av2") > > but I am getting the following error when i use the above > > > > Error in validObject(.Object) : > > invalid class "ExpressionSet" object: 1: row numbers differ for > assayData > > members > > invalid class "ExpressionSet" object: 2: sample numbers differ for > assayData > > members > > > > while if i use rma_expression_data at the highlighted area am getting the > > following error: > > Error in function (classes, fdef, mtable) : > > unable to find an inherited method for function > "annotatedDataFrameFrom", for > > signature "ExpressionSet" > > > > any help would be appreciated. > > > > thanks > > peevi > > > > > > > > > > [[alternative HTML version deleted]] > > > > _______________________________________________ > > Bioconductor mailing list > > Bioconductor@r-project.org > > https://stat.ethz.ch/mailman/listinfo/bioconductor > > Search the archives: > >http://news.gmane.org/gmane.science.biology.informatics.conductor > > > > > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@r-project.org > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]