[BioC] cummerbund

[i b]

Hi, I am new to R and recently I have been using the package CummeRbund.
Having some outputs from Cuffdiff, What command do I need to write if
I want to analyse a subset if the significant differential expression
testing data?
E.g: transcript differential expression testing output: 400
significnat transcripts, then of these I want to substract a set which
I want to analyse with cummerbund.

any help is appreciated!
ib