Dear list, I am trying to write a normalized ExpressionSetIllumina to a file (for GEO submission). I tried things like write.csv(exprs(BSData.normalised),file="NormalisedData.csv") and got Error in exprs(BSData.normalised) : error in evaluating the argument 'object' in selecting a method for function 'exprs' Please advise what I am doing wrong here! Many thanks, Moritz (Fellow, University of Bonn, Germany) R version 2.12.0 (2010-10-15) Platform: i386-pc-mingw32/i386 (32-bit) locale: [1] LC_COLLATE=German_Germany.1252 LC_CTYPE=German_Germany.1252 [3] LC_MONETARY=German_Germany.1252 LC_NUMERIC=C [5] LC_TIME=German_Germany.1252 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] illuminaHumanv3.db_1.8.0 org.Hs.eg.db_2.4.6 RSQLite_0.9-3 [4] DBI_0.2-5 AnnotationDbi_1.12.0 limma_3.6.6 [7] beadarray_2.0.2 Biobase_2.10.0 loaded via a namespace (and not attached): [1] tools_2.12.0 [[alternative HTML version deleted]]

Hi Moritz, That's not an error I've seen before. Can you give the output of the following command: class(BSData.normalised) We've made a lot of changes to beadarray recently, but as far as I know they shouldn't affect the ExpressionSetIllumina class. Did you generate BSData.normalised a while ago (with an older version of beadarray) and come back to it? Thanks -- Mike Smith PhD Student Computational Biology Group Cambridge University On Mon, Nov 22, 2010 at 2:00 PM, Moritz Kebschull <endothel@gmail.com>wrote: > Dear list, > > I am trying to write a normalized ExpressionSetIllumina to a file (for GEO > submission). > > I tried things like > > write.csv(exprs(BSData.normalised),file="NormalisedData.csv") > > and got > > Error in exprs(BSData.normalised) : > error in evaluating the argument 'object' in selecting a method for > function 'exprs' > > > Please advise what I am doing wrong here! > > Many thanks, > > Moritz (Fellow, University of Bonn, Germany) > > R version 2.12.0 (2010-10-15) > Platform: i386-pc-mingw32/i386 (32-bit) > > locale: > [1] LC_COLLATE=German_Germany.1252 LC_CTYPE=German_Germany.1252 > > [3] LC_MONETARY=German_Germany.1252 LC_NUMERIC=C > [5] LC_TIME=German_Germany.1252 > > attached base packages: > [1] stats graphics grDevices utils datasets methods base > > > other attached packages: > [1] illuminaHumanv3.db_1.8.0 org.Hs.eg.db_2.4.6 RSQLite_0.9-3 > [4] DBI_0.2-5 AnnotationDbi_1.12.0 limma_3.6.6 > [7] beadarray_2.0.2 Biobase_2.10.0 > > > loaded via a namespace (and not attached): > [1] tools_2.12.0 > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor > [[alternative HTML version deleted]]