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Hi Michael, Try section 4.8 "The Spot Types File" in the limma userguide.pdf in the library/limma/doc subdirectory of your R installation. Here is an example I have used: SpotType ID Name Color Gene * * black QC * QC* orange Control * Cntrl* brown Empty * empty purple NegCtrl * NC* pink which shows my Controls, whose ID begins with Cntrl, as brown etc. cheers, Keith ======================== Keith Satterley Bioinformatics Division The Walter and Eliza Hall Institute of Medical Research Parkville, Melbourne, Victoria, Australia ======================= yoo hoo wrote: > Hi All, > > when i deal with 2-color arrays, usually it requires to generate a spottype file. Where can i find those info to generate this file? i use Nimblegen and agilent arrays. Thanks. > > Michael > > [[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