On Fri, Mar 27, 2009 at 6:04 AM, <ab19@sanger.ac.uk> wrote:

> Hello,
>
> I am working with a set of Affymetrix arrays, all of the same type, among
> which there is for each sample a biological duplicate. I was wondering
> when I should "group" the duplicates : before normalizing ? After ? I
> can't either find how to do it properly, do you have suggestions ?
>
> Thanks a lot for the help you may provide !
>

Hi, Amelie.

You'll want to deal with the replicates only when you are dealing with
differential expression.  See, for example, the limma user guide which has
some examples of interest.

Sean

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