[BioC] Affymetrix Command Console CEL files

[Khan, Sohail]

Dear member,

I am unable to read an Affymetrix Command Console (new Affymetrix Software) generated .cel file by affy function ReadAffy().
I am getting the following error:
Error in read.affybatch(filenames = l$filenames, phenoData = l$phenoData,  : 
        Is M:/Sohail/AGCC_files/JSMK_S428C.CEL really a CEL file? tried reading as text, gzipped text and binary
Do these files have to be converted to GCOS format?
Or is there an upgrade for the affy package.

Thanks.




Sohail Khan
Scientific Programmer
COLD SPRING HARBOR LABORATORY
Genome Research Center
500 Sunnyside Boulevard
Woodbury, NY 11797
(516)422-4076