[BioC] [marrayNorm] Is it possible to obtain normalized intensityvalues ?

Rob Tempelman tempelma at msu.edu
Tue Nov 11 23:40:17 MET 2003


To backsolve those equations then for normalized R and G, the normalized
R = 0.5*(M-Mpred) + 1*A with normalized G = -0.5*(M-Mpred) + 1*A where
Mpred is the predicted M from the Loess fit. 

Robert J. Tempelman
Department of Animal Science
1205 Anthony Hall
Michigan State University
East Lansing, MI
48824-1225
Phone (517) 355-8445
Fax (517) 353-1699
email: tempelma at msu.edu
 
 


> -----Original Message-----
> From: bioconductor-bounces at stat.math.ethz.ch [mailto:bioconductor-
> bounces at stat.math.ethz.ch] On Behalf Of Jean Yee Hwa Yang
> Sent: Tuesday, November 11, 2003 4:41 PM
> To: Marcelo Luiz de Laia
> Cc: Bioconductor
> Subject: Re: [BioC] [marrayNorm] Is it possible to obtain normalized
> intensityvalues ?
> 
> Hi,
> 
> data is a marrayNorm object
> M <- maM(data) gives you the normlized log-ratios
> A <- maA(data) gives you the average log-intensity
> You can solve the equation
> 	M = R - G
> 	A = 1/2(R + G)
> 
> if you want to obtain the normalized log-intensity R and G.
> 
> Cheers
> 
> Jean
> 
> 
> On Tue, 11 Nov 2003, Marcelo Luiz de Laia wrote:
> 
> > Hi All,
> >
> > I would like to get normalized intensity values from a marrayNorm
> object.
> >
> > Is it possible?
> >
> > Regards
> >
> > Marcelo Luiz de Laia, M.Sc.
> > Dep. de Tecnologia, Lab. Bioquímica e de Biologia Molecular
> > Universidade Estadual Paulista - UNESP
> > Via de Acesso Prof. Paulo Donato Castelane, Km 05
> > 14.884-900 - Jaboticabal, SP, Brazil
> > PhoneFax: 16 3209-2675/2676/2677 R. 202/208/203 (trab.)
> > Phone res: 16 3203 2328 - www.lbm.fcav.unesp.br - mlaia at yahoo.com
> > ---
> >
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> > Bioconductor at stat.math.ethz.ch
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> >
> 
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