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Old 01-27-2014, 10:05 AM   #15
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Join Date: Aug 2013
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Originally Posted by dpryan View Post
@rskr: Given that this is in the context of DESeq2 (I realize that the thread is titled with edgeR...), low-count genes are automatically dropped and power maximized (I have to admit that it's handy to not have to do this myself anymore). So, the low-coverage genes screwing the p-values critique doesn't apply.
Do you know how to do this in edgeR?

Originally Posted by dpryan View Post
3) Do you lack ethics and just want to make a nice, but likely false, story to publish in Science/Cell/Nature? Then just use raw p-values (or "better" yet, fold-changes!) and request reviewers who only understand Western blots.
Thanks for the tip, Ill go for this one.
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