[BioC] SAM: siggenes and samr

[claudio.is at libero.it]

Dear BioC,

I want to perform a Significance Analysis for Microarray, SAM, and I wonder which package to use. I read the vignette from "siggenes" package, but there is no way to implement fold change, FC, in the analysis as defaut. I subindexed the eset, according to fold change,  of gens, but of course in this way I will affect the results of the permutation test. Is this the correct way to perform SAM, or I shold move to "samr"? is it package able to handle FC analysis in a different way?


Thank you

--
Claudio Isella


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