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It certainly affects differential expression analysis, so it is hard to imagine it will not affect clustering. --Naomi At 04:26 AM 2/20/2006, Talloen, Willem [PRDBE] wrote: >Dear BioC listers, > >I have a question regarding the preprocessing of the microarray data >(affymetrics HG-U133_Plus_2 chip) before sample classification. I was >wondering if summarization techniques might affect the performance of >classification methods. Has anyone experience with this? Or can someone give >suggestions whether (or when) to apply classification on the MAS 5.0, RMA, >GC-RMA or on the probe level data? > >I realize that this might be a difficult question with no definite answer, >but some clues would already be helpful as it is a fundamental issue. > >thanks in advance, >Willem Talloen > > > > > > [[alternative HTML version deleted]] > >_______________________________________________ >Bioconductor mailing list >Bioconductor at stat.math.ethz.ch >https://stat.ethz.ch/mailman/listinfo/bioconductor Naomi S. Altman 814-865-3791 (voice) Associate Professor Dept. of Statistics 814-863-7114 (fax) Penn State University 814-865-1348 (Statistics) University Park, PA 16802-2111