Dear List

I want to do a hypergeometric testing of GO, KEGG and PFAM terms. I'm using
the GOstats package and the method described in the vignette: "How to use
GOstas and Category to do hypergeometric testing with unsupported model
organisms" by M. Carlson, Oct. 31. 2011, because my organism is a non-model
organisms.

I have obtained the annotation for my gene sets from other sources and the
method described in the vignette is working perfect for GO and KEGG. But
now I would like to do the same for PFAM domains, but I'm having trouble
figuring out how to do this.

It seems that there is no function for creating a PFAMFrame object similar
to the GOFrame and KEGGFrame functions, but I guess such an object could be
constructed by other means, but I'm unsure how this is done?

Many thanks for your time and help

best,
Henrik Licht

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