Hi

If you have the entrez id for your differentially expressed genes you can
try GeneAnswer and ClusterProfiler. Once you have the idea (how to use
these packages for GSEA) of these packages, then you would be able to
utilize your go terms along with the differentailly expressed gene list for
further analysis.

Regards
Reema Singh

On Sun, Dec 2, 2012 at 5:57 AM, Alpesh Querer <alpeshq@gmail.com> wrote:

> Hello all,
>
> I have list of differentially expressed genes from an rna-seq analysis.
> Also, I  have a two-column annotation file for the organism with the
> columns being gene and goterm.
> please guide me towards a bioconductor package or any other tool that I
> could use my list and annotation file as
> input and do gene set enrichment analysis.
>
> Thanks,
> Al
>
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