[Biopython-dev] Building Gene Ontology support into Biopython

[Kyle Ellrott]

Any notes on the progress?
I had to get some GO information for a project, so I checked out your git
fork.  Looks like a skeleton of the project has been outlined, but no real
code yet.  I added some code to the oboparser to get what I needed, only
basic term parsing, and no network support.

Can't speak to it's performance, but NetworkX has a very simple install
(easy_install on mac, and part of the standard package set on Fedora).

Kyle

On Sun, Oct 18, 2009 at 7:22 AM, Chris Lasher <chris.lasher at gmail.com>wrote:

> I'm going to go ahead and make the executive decision to use NetworkX.
> I think BioPerl's Ontology framework has both third-party
> dependency-based (Graph.pm) and non-dependency-based solutions. Maybe
> we can figure out something similar, but NetworkX is such an easy
> dependency to satisfy that I'm going with it.
>
> Looks like this is going to be a busy week.
>
> Chris
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