[BioC] Dealing with artifacts on Affy chips.

Gareth Hughes HughesGP at Cardiff.ac.uk
Mon Apr 26 16:12:12 CEST 2004

Dear all, 

  Are there any common methods that deal with artifacts that appear on
affymetrix arrays?  Some of our HGU133A arrays have 'comet-like' high intensity
regions.  I've isolated the probes contained within these artifacts and was
wondering if a 'mask file' could be created in R and these chips re-integrated
back into the original dataset?  I'd like to include these chips in functions
such as rma and hclust etc.

Kind regards,


Gareth Hughes
Institute of Medical Genetics, UWCM.

Email : hughesgp at cf.ac.uk
Tel : 029-2074-4837

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