Hi I just started using Bioconductor for array data analysis .I wanted to ask is there a way that I can extract the intensity values for a given set of probe ids (affy) from a set of .cel files and then save these intensity values corresponding to each probe ids as a file.Then I can run normalization on this saved file. I would greatly appreciate your help and suggestions. Best Regards Rinku _________________________________________________________________ Hotmail: Trusted email with Microsoft’s powerful SPAM protection. [[alternative HTML version deleted]]

See readCelUnits() in the affxparser package for a low-level interface. See the aroma.affymetrix package [http://www.aroma-project.org/] for a high-level interface. I let others comment on alternative Bioconductor solutions. FYI, I don't think there is such a thing as a "probe ID" - there are "probeset IDs" though. /Henrik On Mon, Mar 15, 2010 at 4:43 PM, Rinku Saha <rinkusaha at="" hotmail.com=""> wrote: > > Hi > ?I just started using Bioconductor for array data analysis .I wanted to ask is there a way that I can extract the ?intensity values for a given set of probe ids (affy) from a set of .cel files ?and then save these intensity values corresponding to each probe ids as a file.Then I can run normalization on this saved file. > I would greatly appreciate your help and suggestions. > Best Regards > Rinku > _________________________________________________________________ > Hotmail: Trusted email with Microsoft?s powerful SPAM protection. > > ? ? ? ?[[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 >