Hello BioC, I have a quick question about the proper way to normalize arrays using gcrma. Right now I have a time series array, basically 10 groups in total, each group has 2 replicates. The groups refer to time 0 (control), time 1,2,4,6,10,12...etc. When I normalize these cel files, should I normalize them together as one group, or should I perform separate normalizations on each of the groups (i.e. perform 10 separate normalizations on each of the 10 groups)? Thank you! Sincerely, Casper [[alternative HTML version deleted]]

Dear Caspyr, All as one group. Best wishes, Rich On Sep 20, 2010, at 3:50 PM, Casper Shyr wrote: > > Hello BioC, > > I have a quick question about the proper way to normalize arrays > using gcrma. Right now I have a time series array, basically 10 > groups in total, each group has 2 replicates. The groups refer to > time 0 (control), time 1,2,4,6,10,12...etc. > > When I normalize these cel files, should I normalize them together > as one group, or should I perform separate normalizations on each of > the groups (i.e. perform 10 separate normalizations on each of the > 10 groups)? > > > > Thank you! > > Sincerely, > > Casper > > [[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