[BioC] How to obtain summarized data without normalization

Li, Aiguo (NIH/NCI) [E] liai at mail.nih.gov
Mon Dec 13 23:55:40 CET 2010

Thanks, Jim.

One more question related to p value

I need to generate a fold changes based on only 2 arrays;  I like to get a p values associated with fold changes.  Which package in R allow me to do this?



On 12/13/10 1:39 PM, "James W. MacDonald" <jmacdon at med.umich.edu> wrote:

Hi AG,

On 12/10/2010 10:25 AM, Li, Aiguo (NIH/NCI) [E] wrote:
> Hi all,
> I want to get a probeset level data set without mas5 normalization and used the following script.  Could someone tell me this is right or not?




> affydata<- ReadAffy()
> ExprNonorm<-mas5(affydata,normalize=F)
> Does these script do the background correction? Or only summarize the probeset level data?
> Thanks,
> AG
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James W. MacDonald, M.S.
Douglas Lab
University of Michigan
Department of Human Genetics
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