[BioC] GOstats and uniprot ids

[Marc Carlson]

Hi Paul,

We don't presently have that capability built into our Category testing
functionality.  We can test, GO, KEGG and I believe even PFAM, but there
is nothing presently there for Uniprot.  But I must also admit that your
request surprised me a bit because Uniprots are accessions and do not
(as I understand them) represent "families" or "categories" that genes
could be grouped into.  So I am a little bit perplexed about how they
would be used to represent categories of genes?  Is there possibly some
other information inside of a more complete uniprot record that can be
used in this way and which I am overlooking?  If so, then that
represents another challenge that will have to be overcome in order for
what you ask to become possible.


  Marc



On 02/08/2011 04:24 PM, Paul Rigor wrote:
> Hello,
>
> How would I configure a hypergeom object to use uniprot ids for both the
> universe of genes and the list of interesting genes?
>
> Thanks!
> Paul
>
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