I don't know of any celfile format that ReadAffy can't handle. Will you give us some more information such as the type of Affy chip and the error message you get (cutting and pasting your R session is always nice). Best, Jim 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 >>> "Soumyaroop Bhattacharya" <sbhattacharya@rics.bwh.harvard.edu> 12/22/04 11:52 AM >>> Hi, I have a set of .CEL files obtained using GCOS version of Affy software. ReadAffy() is unable to read these cel files. Can anyone provide me with some info on this. I am using R version 2.01 Any help will be appreciated. Thanks, - Soumyaroop -- Soumyaroop Bhattacharya, MS Analyst Pulmonary Medicine Brigham & Women's Hospital Harvard Medical School Thorn 908 75 Francis Street Boston MA 02115 Phone:(617)732-6265 Fax:(617)232-4623 sbhattacharya@rics.bwh.harvard.edu http://mysite.verizon.net/vzeo1xr3/ _______________________________________________ Bioconductor mailing list Bioconductor@stat.math.ethz.ch https://stat.ethz.ch/mailman/listinfo/bioconductor ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.

My guess is that they are binary .CEL files. I am not sure whether ReadAffy reads in binary format. Use the Affy SDK file parsers for conversion/check out the tool(!!!) which Affy may provide. Thanks, Hrishi --- James MacDonald <jmacdon@med.umich.edu> wrote: > I don't know of any celfile format that ReadAffy > can't handle. Will you > give us some more information such as the type of > Affy chip and the > error message you get (cutting and pasting your R > session is always > nice). > > Best, > > Jim > > > > 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 > >>> "Soumyaroop Bhattacharya" > <sbhattacharya@rics.bwh.harvard.edu> > 12/22/04 11:52 AM >>> > Hi, > I have a set of .CEL files obtained using GCOS > version of Affy software. > ReadAffy() is unable to read these cel files. > Can anyone provide me with some info on this. > I am using R version 2.01 > Any help will be appreciated. > > Thanks, > - Soumyaroop > > > -- > Soumyaroop Bhattacharya, MS > Analyst > Pulmonary Medicine > Brigham & Women's Hospital > Harvard Medical School > Thorn 908 > 75 Francis Street > Boston MA 02115 > Phone:(617)732-6265 > Fax:(617)232-4623 > sbhattacharya@rics.bwh.harvard.edu > http://mysite.verizon.net/vzeo1xr3/ > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > > > > ********************************************************** > Electronic Mail is not secure, may not be read every > day, and should not be used for urgent or sensitive > issues. > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor >