Dear All, I have been trying to generate expression measures from the mu6500 chip. I have downloaded the four subchip cdf files, however when I import the cel file data as a whole, it stalls on certain chips, for example, it stalled on the subB cel file and said it was not of subA type. When I carry out these chips individually they work. Is there a certain sequence in which the process has to be carried out or am I missing something quite trivial. Many thanks for any help you can give me. Cheers Steve. Dr. Stephen Moore Senior Scientist Arragen Ltd. Almac House Charlestown Road Craigavon BT63 5UA E-mail: Stephen.Moore@Arragen.com Phone: +44 2838395751 Mobile: +44 7719989348

Hi Stephen, are you trying to read in the CEL files from different (sub)chips into one AffyBatch? The design of the affy package is such that these belong into different AffyBatches, and only after normalization/expression measure calculation you are supposed to merge ('rbind') them together. Best wishes ------------------------------------- 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/abt0840/whuber ------------------------------------- On Tue, 28 Oct 2003, Stephen Moore wrote: > Dear All, > > I have been trying to generate expression measures from the mu6500 chip. > I have downloaded the four subchip cdf files, however when I import the > cel file data as a whole, it stalls on certain chips, for example, it > stalled on the subB cel file and said it was not of subA type. When I > carry out these chips individually they work. Is there a certain > sequence in which the process has to be carried out or am I missing > something quite trivial. Many thanks for any help you can give me. > > Cheers >