Hi Wen,

Thanks for the reply!

Do you know a bioconductor package that will do what the Broad GSEA tool does?

thanks!



________________________________
 From: wenhuo hu <huwenhuo@gmail.com>

Cc: bioc <bioconductor@stat.math.ethz.ch> 
Sent: Sunday, May 20, 2012 12:01 PM
Subject: Re: [BioC] GSEA with methylation data


Hi 

Would you check this?
http://www.broadinstitute.org/cancer/software/gsea/wiki/index.php/Data_formats#Ranked_Gene_Lists

On my way to outside, nice sun today.

Wen




Hi,
>
>I wanted to conduct GSEA analysis on methylation data (illumina 27k). After conducting a differential analysis, I have a list of genes along with their pvalues and t-statistics. Is there a way that I can conduct a GSEA analysis with this data? Which packages should I be looking at?
>
>
>I have looked at a few of the GSEA packages, but they all seem to be based on gene expression data (and chips/annotation packages etc.). 
>
>thanks!
>
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-- 

               
Wenhuo Hu
Park lab

Memorial Sloan Kettering Cancer Center
Zuckerman Research Building
408 East 69th Street
Room ZRC-527
New York, NY 10065
Phone 646-888-3220
huw@mskcc.org
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