[BioC] can can affyQAReport (package affyQCReport) be adapted for use with Affy Gene ST arrays that are not incorporated into an affyBatch?

[Robert Gentleman]

My efforts now are in support of Audrey Kauffmann's arrayQualityMetrics 
package, which provide much more comprehensive support for QA on 
microarrays. Have you tried it?

best wishes
   Robert


Mark Kimpel wrote:
> I've become quite fond of affyQAReport and have numerous examples of cases
> where I have used it to help identify problem arrays that my core facility,
> which uses only Affymetrix tools, have said are fine. I am now using the
> Affy Rat Gene 1.0 ST array and apparently cannot convert it into an
> affyBatch (required as input to affyQAReport) using the packages I have been
> steered to for analysis (oligo and pdInfoBuilder) . Is there another package
> or approach one can use to do QA on these newer chips? I did try hacking
> affyQAReport, but ran into my own limitations when I got to the function qc,
> which sets a cdf environment variable.
> 
> Mark
> ------------------------------------------------------------
> Mark W. Kimpel MD  ** Neuroinformatics ** Dept. of Psychiatry
> Indiana University School of Medicine
> 
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-- 
Robert Gentleman, PhD
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M2-B876
PO Box 19024
Seattle, Washington 98109-1024
206-667-7700
rgentlem at fhcrc.org