hi to BioC list, I have one question about gcRMA: if I run nor<-gcRMA(affy.data) after the background correction, then what methods does it use? to me it's not clear if it use the usual quantile, pm only, tukey.biweight from justRMA or something else. thanks in advance. Isella Claudio ____________________________________________________________ Navighi a 4 MEGA e i primi 3 mesi sono GRATIS.

claudio.is at libero.it wrote: > hi to BioC list, > > I have one question > about gcRMA: if I > run > > nor<-gcRMA(affy.data) > > after the background > correction, then > what methods does it > use? to me it's not > clear if it use the > usual quantile, pm > only, tukey.biweight > from justRMA or > something else. Yes, gcrma uses the normal rma model fit after background correction. Best, Jim > > thanks in advance. > > Isella Claudio > > > > ____________________________________________________________ > Navighi a 4 MEGA e i primi 3 mesi sono GRATIS. > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623