So you say it is better to use RMA in any case? The literature I found is at best controversy :-D Andreas 2011/5/9 Michal Okoniewski <michal.okoniewski@fgcz.ethz.ch> > Affy scanner produces values on two bytes 0-2^16, so if you have after the > plier summarization values with whole-chip max around 13-15, then you have > log2 - and they are used in such way as it is easier to interpret fold > changes. > Anyway - I think even the creators of plier gave it up and use RMA now :) > Cheers, > Michal > > On 5/9/11 3:58 PM, "Andreas Heider" <aheider@trm.uni-leipzig.de> wrote: > > >Dear bioconductor, > >I just asked myself if the values returned by justPLIER are log- base 2 > >oder > >10? Can I change the base? What is the default? > > > >Thanks in advance, Andreas Heider > > > > [[alternative HTML version deleted]] > > > >_______________________________________________ > >Bioconductor mailing list > >Bioconductor@r-project.org > >https://stat.ethz.ch/mailman/listinfo/bioconductor > >Search the archives: > >http://news.gmane.org/gmane.science.biology.informatics.conductor > > [[alternative HTML version deleted]]