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Hi Tarun: I think you need an annotation package in addition to the cdf package. Perhaps the annotation package for Vitis vinifera does not yet exist (but I am not sure). In addition, perhaps the command annot <- get.annotation(x, "vitisviniferacdf") should be replaced by annot <- get.annotation(x, "vitisvinifera") ? I tried the following: ---- library(hgu95aprobe) library(hgu95acdf) library(simpleaffy) hgu95aprobe[1,4] [1] "1000_at" get.annotation(hgu95aprobe[1,4], "hgu95a") gene name [1,] "MAPK3" accession [1,] "=HYPERLINK(\"http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=search &db=nucleotide&term=X60188\",\"X60188\")" unigene [1,] "=HYPERLINK(\"http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=search &db=unigene&term=Hs.861&dopt=unigene\",\"Hs.861\")" description [1,] "mitogen-activated protein kinase 3" library(vitisviniferaprobe) library(vitisviniferacdf) vitisviniferaprobe[1,4] [1] "1606449_at" get.annotation(vitisviniferaprobe[1,4], "vitisvinifera") Error in library(cdfname, character.only = T) : there is no package called 'vitisvinifera' ---- Best, Saroj Tarun Nayar wrote: > Hi, > > I'm trying to get annotations for the grape chip; Vitis Vinifera, using > the simpleaffy command get.annotation. The cdfName function returns the > wrong cdfname (VitisVinifera); when I enter the 'real' cdfname > (vitisviniferacdf), I get another error. > > >> cdfName(raw.data) >> > [1] "Vitis_Vinifera" > >> annot <- get.annotation(x, "Vitis_Vinifera") >> > Error in library(cdfname, character.only = T) : > there is no package called 'Vitis', version Vinifera > > >> annot <- get.annotation(x, "vitisviniferacdf") >> > Error in get(x, envir, mode, inherits) : variable > "vitisviniferacdfSYMBOL" was not found > > Any ideas? > > Tarun Nayar > Genome Sciences Centre > Vancouver, BC > > [[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 >