[BioC] Biological duplicates

Wei Shi shi at wehi.EDU.AU
Mon Mar 30 00:29:57 CEST 2009

Hi Amelie:

    You can use gcRMA to normalize your raw data. Your duplicates can be 
"grouped" when you perform differential expression analysis using 
packages such as Limma which will fit linear models for each gene.

    Hope this helps.


ab19 at 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 !
> Amelie

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