[BioC] running MBEI (PM-MM) using expresso

[James W. MacDonald]

Hi Javier,

Javier Pérez Florido wrote:
> Hi all,
> 
> The MBEI method has two versions: PM-only and PM-MM.
> PM-only model performs no background correction, Invariant Set for 
> normalization, PM only for PM correction and the Multiplicative Model 
> for summarization. Using expresso:
> eset<-expresso(affyBatch,bgcorrect.method="none",normalize.method="invariantset", 
> pmcorrect.method="pmonly",summary.method="liwong")
> 
> But, what is the expresso command for the PM-MM model?

pmcorrect.method = "subtractmm"

 > pmcorrect.methods()
[1] "mas"            "methods"        "pmonly"         "subtractmm"
[5] "orrect.methods"


Best,

Jim


> 
> Thanks in advance,
> Javier
> 
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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