[BioC] gcrma and other normalizations

[Raffaele Calogero]

Hi,
if a don't mistake the present implementation of gcrma uses directly the 
quantile normalization.
Is there any command to switch off the quantile normalization, or how 
can I modify the gcrma function to eliminate the quantile normalization?

Since I would like to see  the effect of other normalization procedures 
on gcrma, is it a risonable procedure to normalize the data first  and 
subsequently applying the gcrma intensity calculation, after having 
modified the function in orther to remove the quantile normalization?
 
data<-ReadAffy()
data.invariant<-normalize(data, method="invariantset")
data.gcrma.inv<-gcrma(data) #

Raffaele

-- 
Prof. Raffaele A. Calogero
Genomics and Bioinformatics Unit
Dipartimento di Scienze Cliniche e Biologiche
c/o Az. Ospedaliera S. Luigi
Regione Gonzole 10, Orbassano
10043 Torino
tel.   ++39 0116705410
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email: raffaele.calogero at unito.it
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