Hello Arne, > yes, the final output from RMA are log2 transformed. thanks a lot for this reply. Best wishes, Heike > > Arne > > >>-----Original Message----- >>From: bioconductor-bounces@stat.math.ethz.ch >>[mailto:bioconductor-bounces@stat.math.ethz.ch]On Behalf Of Heike >>Pospisil >>Sent: 18 February 2005 09:29 >>To: bioconductor@stat.math.ethz.ch >>Subject: [BioC] justRMA => logarithmic data ? >> >> >>Dear list members, >> >>I have an additional question concerning my affymetrix analysis. >> >>I performed justRMA on 79 CEL-files. >> >>data<-justRMA() >> >>The resulting expression data range from ~3 to ~14. >> >>min(exprs(data)) >>max(exprs(data)) >> >>Now, only for clarifying, are these values already >>logarithmised? I have read >>about the thresholds for the golub data that are much larger >>(100 and 16,000), >>but log2(16000)is ~14 - and so I think, that I have already >>logarithmic data. Am >>I right? >> >>Thanks a lot for your help. >> >>Best wishes, >>Heike >>-- >>Dr. Heike Pospisil >>Center for Bioinformatics, University of Hamburg >>Bundesstrasse 43, 20146 Hamburg, Germany >>phone: +49-40-42838-7303 fax: +49-40-42838-7312 >> >>_______________________________________________ >>Bioconductor mailing list >>Bioconductor@stat.math.ethz.ch >>https://stat.ethz.ch/mailman/listinfo/bioconductor > > > -- Dr. Heike Pospisil Center for Bioinformatics, University of Hamburg Bundesstrasse 43, 20146 Hamburg, Germany phone: +49-40-42838-7303 fax: +49-40-42838-7312