[BioC] Li Wong PM-only "background" correction
Ann Hess
hess at stat.colostate.edu
Sat Sep 18 22:09:03 CEST 2004
I was wondering if there was a way to obtain background (or non-specific
binding) corrected values for the Li Wong PMonly method. Li and Wong
state their model as PM_ij = v_j + Theta_i*phi_j + e. Is it possible to
find the value PM_ij - v_j?
Is the command:
expresso(affybatch.example,normalize.method="invariantset",
bg.correct=FALSE,pmcorrect.method="pmonly",summary.method="liwong")
making this "background correction"?
The background term cancels for the PM-MM model, but not for the PM only
model.
Thanks
Ann
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