[BioC] GO enrichment on an ordered list of genes

[Martin Morgan]

On 04/22/2013 03:59 AM, January Weiner wrote:
> Hello,
>
> I am aware of two tools that allow to test gene enrichment on an ordered
> list of genes (rather than comparing a set of differentially regulated
> genes with a background list): GOrilla (
> http://cbl-gorilla.cs.technion.ac.il/) and GOstat (
> http://gostat.wehi.edu.au/). Both seem to work pretty well for my purposes,
> but both are only implemented as services available through a web interface.
>
> Is there already any package like this available for R / Bioconductor?

The Category package

   http://bioconductor.org/packages/release/bioc/html/Category.html

vignette "Using Categories to Analyze Microarray Data" walks through one 
approach; I don't know if this qualifies as 'ordered' for your purposes.

Martin

>
> Kind regards,
>
> January
>


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