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Bert Gunter Genentech Nonclinical Biostatistics (650) 467-7374 "Data is not information. Information is not knowledge. And knowledge is certainly not wisdom." Clifford Stoll On Fri, Feb 6, 2015 at 9:27 PM, Beverly Nguyen <beverly...@gmail.com> wrote: > I am working on a project, and have been given a list of instructions as to > how to analyze microarray data. I am to use the affy and affyPLM packages > from Bioconductor. > > I used ReadAffy() to read in my CEL files, then called rma() to normalize > the data. I now that this function returns an ExpressionSet. > > I was then told to use the affyPLM package to compute the RLE and NUSE > scores in order to compute the median RLE and NUSE scores for each sample. > However, I am unable to call any of the package's function (fitPLM(), > NUSE(), RLE()) on the normalized data because it is an ExpressionSet. > > My question is, how could I utilize the affyPLM package to compute RLE/NUSE > scores on an ExpressionSet, when the functions require the use of an > AffyBatch. > ᐧ > > [[alternative HTML version deleted]] > > ______________________________________________ > R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see > https://stat.ethz.ch/mailman/listinfo/r-help > PLEASE do read the posting guide http://www.R-project.org/posting-guide.html > and provide commented, minimal, self-contained, reproducible code. ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
