[BioC] normalization across sites

Sean Davis sdavis2 at mail.nih.gov
Fri Jun 22 02:32:55 CEST 2007

Weiwei Shi wrote:
> Hi,
> Suppose that I have two sets of arrays, both of which use the same
> platform. My question is, if I have datasets which have been
> preprocessed, what's the best way for me to normalize them. Currently
> I just scale them sample-wise; but not sure of it.
> Otherwise, should I go back to .CEL file? But how to proceed from there?
Start from raw data, yes.  You may need to use an ANOVA or linear model 
to deal with confounding variables.  Quality control is especially 


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