Question

affymetrix chip type

0

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Edoardo Saccenti ▴ 130

@edoardo-saccenti-1054

Last seen 10.2 years ago

Loading some .cel files via R affy package I get the following warning: ------> Cel file "filename" does not seem to be of HG-U133A type I konw that this file is of HG-U133B type and not of A one. In such a way can I make it recognised? What is the right library to download? I'm working under Suse 9.1 Linux distrib. Greets Edoardo -- "Raffiniert ist der Herr Gott, aber boshaft ist Er nicht." --- Dr. Edoardo Saccenti FiorGen Pharmacogenomics Foundation CERM Nuclear Magnetic Resonace Research Center Scientific Pole - University of Florence Via Luigi Sacconi n? 6 50019 Sesto Fiorentino (FI) tel: +39 055 4574193 fax: +39 055 4574253 saccenti@cerm.unifi.it www.cerm.unifi.it

Pharmacogenomics affy Pharmacogenomics affy • 1.2k views

ADD COMMENT • link updated 19.9 years ago by James W. MacDonald 67k • written 19.9 years ago by Edoardo Saccenti ▴ 130

score 0 · Answer 1 · 2005-01-12

This message would occur when you try to read a mixture of HG-U133A and HG-U133B cel files into a single AffyBatch. You need to read the two chip types into separate AffyBatches. Ben On Wed, 2005-01-12 at 18:41 +0100, Edoardo Saccenti wrote: > Loading some .cel files via R affy package I get the following warning: > > ------> Cel file "filename" does not seem to be of HG-U133A type > > I konw that this file is of HG-U133B type and not of A one. > In such a way can I make it recognised? What is the right library > to download? > > I'm working under Suse 9.1 Linux distrib. > > Greets > Edoardo >

score 0 · Answer 2 · 2005-01-12

Edoardo Saccenti wrote: > Loading some .cel files via R affy package I get the following warning: > > ------> Cel file "filename" does not seem to be of HG-U133A type Usually a message like this indicates that you are trying to read both U133A and U133B chips into the same AffyBatch, which is not going to work. You need to read the two chip types into two separate AffyBatches and then go from there. Best, Jim > > I konw that this file is of HG-U133B type and not of A one. > In such a way can I make it recognised? What is the right library > to download? > > I'm working under Suse 9.1 Linux distrib. > > Greets > Edoardo > -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109