Hi Robert,

Thanks for your response. I will look into it.

Also is it correct GSVA always requires an expression matrix. It
seems that it integrates with limma, so if I have done an analysis in limma
does this mean that I should be
able to use GSVA for an enrichment analysis.

Thanks,

Juliet


On Thu, Aug 29, 2013 at 2:43 AM, Robert Castelo <robert.castelo@upf.edu>wrote:

> Juliet,
>
> i think the first 5 pages in the vignette entitled "Using Categories to
> Analyze Microarray Data" from the Category package:
>
> http://www.bioconductor.org/**packages/release/bioc/html/**Category.html<http://www.bioconductor.org/packages/release/bioc/html/Category.html>
>
> may be doing what you are looking for.
>
> cheers,
> robert.
>
>
> On 08/28/2013 08:04 PM, Juliet Hannah wrote:
>
>> All,
>>
>> I am looking for an Bioconductor enrichment package that does something
>> similar to GSEA for pre-computed test statistics. This method would not
>> rely on a cutoff. That is, rather than passing an expression matrix, one
>> can compute summarizes outside of the package (such as a limma t), and
>> then
>> pass these. Any suggestions?
>>
>> Thanks,
>>
>> Juliet
>>
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> --
> Robert Castelo, PhD
> Associate Professor
> Dept. of Experimental and Health Sciences
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