[BioC] making gene sets for geneSetTest of Limma

Srinivas Iyyer srini_iyyer_bio at yahoo.com
Wed May 28 00:09:37 CEST 2008

Dear group,

i want to convert all gene sets available from GSEA
(C1,C2,C3 and C4) into a 4 different gene sets, so
that I can use geneSetTest of limma on above 4
different gene sets. 

In one of the examples (classic estrogen example, only
one set is described).  

What kind of formats geneSetTest will read for gene
sets.  ( e.g. every set writting in a single line
format OR a list of lists for each gene set). 

Could anyone suggest some steps to make gene sets for


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