[BioC] ? bug in limma classifyTestsP

[Kimpel, Mark W]

I have noticed that I get exactly the same number of sig. t-tests when
using the limma function classifyTestsP when using both methods="none"
and methods="fdr". Delving a little deeper, I performed the function
p.adjust(fit2$p.value, method="fdr"). Output from this indicates that
the p values are indeed being properly adjusted with the fdr method.
 
Why are these adjusted p values not being passed to the classifyTestsP
function?
 
 
Thanks, 
 
Mark
 
Mark W. Kimpel MD
 
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