[BioC] Affymetrix microarray normalization based on hybridization spikes

[James W. MacDonald]

Hi Federico,

On 3/2/2011 12:28 PM, federico.comoglio wrote:
> Hi,
>
> I'm performing Affymetrix GeneChip microarray analysis. I I was
> wondering if the normalization procedure that exploits the
> hybridization spike intensities is already implemented in one of the
> Bioconductor packages. If yes, can you kindly indicate me where? I
> have tried to figure out that by myself looking at the many package
> guides but it seems it is no part of the current releases.

It hasn't been implemented in the affy package, but the functionality 
exists to add your own normalization methods.

See ?upDate.normalize.AffyBatch.methods and the custom processing 
methods vignette.

Best,

Jim


>
> Many Thanks for your time,
>
> Federico Comoglio _______________________________________________
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-- 
James W. MacDonald, M.S.
Biostatistician
Douglas Lab
University of Michigan
Department of Human Genetics
5912 Buhl
1241 E. Catherine St.
Ann Arbor MI 48109-5618
734-615-7826
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