Hi,

I am doing some clustering on a set of yeast genes. To evaluate the quality of the clusters, I take the genes in a cluster and test them at SGD website:

http://db.yeastgenome.org/cgi-bin/GO/goTermFinder

Essentially, I upload the genes in the cluster (Step 1), and the set of background genes (Step 3). This then gives me a GO graph indicating whether the cluster is significant or not.

I would like to have some automated process that uploads the clusters and saves the webpages with the results, since I would like to test many clusters. The SGD website itself hits AMIGO.

Is there any package that will let me do this? Or any other possible ideas of how I may go about doing this? Preferably, I should be able to call this from inside R code.

many thanks!

 
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