[BioC] how to adjust p-value in edgeR

James W. MacDonald jmacdon at uw.edu
Thu Sep 27 17:56:25 CEST 2012

You don't need topTags() to sort things for you - sorting a matrix or 
data.frame is a straightforward process. See ?order as well as An 
Introduction to R.



On 9/27/2012 11:46 AM, wang peter wrote:
> DEAR all:
>            i got the test result by such coding
> et<- exactTest(d, pair=c("c0h","t0h"), dispersion="tagwise")
> usually should use topTags to adjust the p value, but it canot sort.by
> gene id or names
> result<- topTags(et, n=dim(d)[1], adjust.method="BH", sort.by="p.value")
> i want to use et$table, but donot know how to adjust its p-value
> thank you very much

James W. MacDonald, M.S.
University of Washington
Environmental and Occupational Health Sciences
4225 Roosevelt Way NE, # 100
Seattle WA 98105-6099

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