[BioC] Manual creation of Affybatch object to study highthrouput qPCR experiments.

[James W. MacDonald]

Hi Ali,

On 10/20/2011 2:49 AM, Ali Mo [guest] wrote:
> Hi every one.
>
> I am using 384 well qPCR array for miRNA study. I wanted to normalize my results using affy. How can I create an affybatch wich contains my Cq values? Thanks a lot.

You don't want to do this. Trying to stuff qPCR data into an AffyBatch 
is asking for trouble. Quantile normalizing qPCR data is asking for 
trouble as well, IMO, but they are your data.

If you want to quantile normalize these data, use normalizeQuantiles() 
from the limma package.

Best.

Jim


>
> PS. I am new to R/bioconductor.
>
>   -- output of sessionInfo():
>
> No R command!
>
> --
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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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