[BioC] RMA question

[Laurent Gautier]

If you want a data.frame,
there is a generic method to cast 'exprSet' objects into data.frames
(with the gene names and the covariate information in 'phenoData').
(note: it could require a 'devel' version of Biobase to work)

Just do (in your example):
tab <- as.data.frame(data2)



Hopin' it helps,



L.




On Wed, Aug 27, 2003 at 01:49:16PM -0400, Phguardiol at aol.com wrote:
> Hi,
> a simple question I guess:
> I have 8 CEL files from U133A
> I run:
> library(affy)
> data<-ReadAffy()
> data2<-rma(data)
> data3<-exprs(data2)
> 
> then:
> colnames(data3)
> and it start with the name of the first sample not with the probesetID
> 
> If I run:
> dim(data3) 
> I get:
> [1] 22283  8 
> 
> Can I add this probeset column by doing this :
> 
> tab <- data.frame(Name=geneNames(data2), data3)
> 
> in this case dim(tab) gives me [1] 22283 9 which I like more...but am I right ?
> will it be the same with gcrma ?
> thanks
> Philippe
> 
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