Hi Anna, you can use the parameter "transfo" of the image function. If you set this parameter to be a function like "log" or "rank", this will tune up the lower-level signals correspondingly. See getMethods("image"). Best regards Wolfgang. ------------------------------------- Wolfgang Huber Division of Molecular Genome Analysis German Cancer Research Center Heidelberg, Germany Phone: +49 6221 424709 Fax: +49 6221 42524709 Http: www.dkfz.de/mga/whuber ------------------------------------- On Thu, 14 Aug 2003, Anna Gustafsson wrote: > Hi, > > I wonder if there is a function in the affy package that allows the raw signals from .cel files to be "tuned" up when making image() plots? > (As you probably know, some aberrations are not visible unless one turn up brightness of signals...MAS 5.0 software has this function - but I rather do everything in R.) > > Best regards! > Anna :o) > > ******************************************************************** *********************** > Anna Gustafsson > > Royal Institute of Technology > AlbaNova University Center > Stockholm Center for Physics, Astronomy and Biotechnology > Department of Molecular Biotechnology > 106 91 Stockholm, Sweden > > Phone (office): +46 8 553 783 41 > Fax: + 46 8 553 784 81 > Visiting adress: Roslagstullsbacken 21, Floor 3 > Delivery adress: Roslagsv?gen 30B > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >