Re: [Cytoscape-discuss] GSEA import

[Ruth Isserlin]

Hi Chris,
There is a cytoscape plugin that will take Gsea output directly called enrichment map and build a network of all the enriched terms.
http://www.baderlab.org/Software/EnrichmentMap
http://www.baderlab.org/Software/EnrichmentMap/UserManual
If you don't have access to all the Gsea output files it will also take output from bingo and David.

Ruth

On 2012-09-26, at 5:42 PM, Chris Soendergaard <bath...@gmail.com> wrote:

> Dear members
>
> As I am quite new to Cytoscape, I sincerely hope that some experienced users could help me out a bit. I have tried the Bingo plugin for Cytoscape, which gives a beautiful graphical network of genes in a traditional GO analysis.
>
> As I own commercial software that can generate both GO and GSEA analysis but only txt or cvs files with p-values etc, I was hoping, that I could import these files into the graphical environment of Cytoscape. But how to do this in a BinGO manner?
>
> I guess, I need to somehow tell the software how human genes interact in a network prior to importing the genes list from e.g. GSEA for visualization.
>
> Hope for any help
>
> Bests
>
> Chris
>
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