[BioC] question regarding MAS5 normalization with reduced probes

James W. MacDonald jmacdon at med.umich.edu
Fri Aug 27 16:04:21 CEST 2010

Hi James,

On 8/26/2010 1:05 PM, James Anderson wrote:
> Hi,
> I am trying to use MAS5 to normalize some cel files with reduced set
> of probes (some probes whose PM is not significantly higher than MM
> is filtered), does anyone know how to do this? Does that require
> creating a new CDF file?

Have you tried running mas5() from the affy package? Having never tried, 
I don't know, but it seems a simple enough test.

If you do need to create a new cdf, you will want to use the affxparser 



> thanks a bunch,
> -James
> [[alternative HTML version deleted]]
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James W. MacDonald, M.S.
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
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