Hi Guido,

Thanks for your response. Yes, I should have used the 'pre-ranked'
descriptor. I am looking for a Bioconductor implementation. It seems
that in the places I've looked (gsealm, GSVA, Graphite), an expression
matrix must be provided (or I missed the other options).

Regards,

Juliet


On Wed, Aug 28, 2013 at 2:58 PM, Hooiveld, Guido <guido.hooiveld@wur.nl>wrote:

> Hi,
> Regarding GSEA; do you know about the so-called 'pre-ranked' analysis that
> will do exactly what you describe?
>
> http://www.broadinstitute.org/gsea/doc/GSEAUserGuideFrame.html?GSEA_Preranked_Page
>
> Guido
>
> -----Original Message-----
> From: bioconductor-bounces@r-project.org [mailto:
> bioconductor-bounces@r-project.org] On Behalf Of Juliet Hannah
> Sent: Wednesday, August 28, 2013 20:05
> To: Bioconductor mailing list
> Subject: [BioC] enrichment packages that accept t-stat (or related stat)
> as input
>
> 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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