[BioPython] OBO format parser and genome databasing

[Sean Davis]

Leighton Pritchard wrote:
> Hi Sean,
> 
> On Thu, 2007-06-28 at 09:38 +0100, Peter wrote:
>> Sean Davis wrote:
>>> Does anyone know of an OBO format parser for python?
>> This is the replacement for the older GO flat file format, right?
> 
> I have been using the BioPerl load_ontology.pl script to load .obo files
> into BioSQL.  Unfortunately, there have been some issues with the
> GO .obo files and that script, and I've had to fall back on the flat
> files.  The Sequence Ontology/SOFA .obo files seem to work with it OK,
> though.
> 
>>> As a more general question, is anyone using the chado database schema
>>> with python?
>> I haven't.
> 
> Nor me - still sticking with BioSQL for now.

Thanks, Leighton.

Sean