[BioC] AffyRNAdeg simple question

James W. MacDonald jmacdon at med.umich.edu
Thu Dec 2 16:13:57 CET 2004

Remo Sanges wrote:
> Are the whole set of probes in a chip used
> in order to compute  the AffyRNAdeg function?

No. Although affy says that e.g., the HG-U133A has probesets of 11 
probes each, this is not quite true. There are numerous probesets that 
have more or less probes. One of the first things that is done in 
AffyRNAdeg() is to remove all 'non-standard' probesets, so you only end 
up using the 'normal' probesets.

> Remo
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James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109

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