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irizary
2011 Oct 16
0
background normalization in rma() in the affy package
Hi,
i was looking into the documentation for the rma() function in affy()
package, and was trying to figure out how exactly the background
normalization is done. I read all three papers cited in the rma()
documentation, but the most detailed explanation i could find was in Irizary
et al., 2003, where they state that they compute
B(PM_{ijn}) = E[s_{ijn} | PM_{ijn}]
where s_{ijn} is assumed to