Quantile normalization is already one step in the gcrRMA( ) ou rma( ) function. I am using library(gcrma) or rma. I' m in doubt Thank you for response, Wait Leandro Mattos -- output of sessionInfo(): library(gcrma) eset_gcrma <- gcrma(mydata) -- Sent via the guest posting facility at bioconductor.org.

Hi, On Sat, Jan 26, 2013 at 9:51 PM, Leandro [guest] <guest at="" bioconductor.org=""> wrote: > > Quantile normalization is already one step in the gcrRMA( ) ou rma( ) function. I am using library(gcrma) or rma. I' m in doubt I'm not sure what your question is. Are you asking if quantile normalization is part of the `rma` or `gcrma` procedure? If so, then please read through the documentation using ?rma and ?gcrma. You'll find that both function take a `normalize` parameter which defaults to TRUE and is related to what I think you are asking. HTH, -steve -- Steve Lianoglou Graduate Student: Computational Systems Biology | Memorial Sloan-Kettering Cancer Center | Weill Medical College of Cornell University Contact Info: http://cbio.mskcc.org/~lianos/contact