Hi Qing.
I believe what you are referring to is:
p.adjust(..., BH)
The fdr option uses the method of Benjamini, Hochberg, and Yekutieli.
(Not the original Benjamini, Hochberg article)
It might be the method described here:
http://www.math.tau.ac.il/~ybenja/MyPapers/benjamini_yekutieli_ANNSTAT2001.pdf
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On Sun, Aug 8, 2010 at 11:06 PM, qing chen qingche...@gmail.com wrote:
Hello,
I am not sure about the p.adjust( , fdr). How do these adjusted p-values
get?
I have read papers of BH method. For independent case, we compare the
ordered p-values with the alfa*i/m, where m is the number of tests. But I
have checked that result based on the adjusted p-values is different with
that by using the independent case method.
Then how do the result of p.adjust( , fdr) come?
And how can we interpret them?
Thank you!
Your truly, Qing Chen
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