[Biopython] Google Summer of Code 2012

[Mic]

Hi all,
would it be possible to put the following idea to Google Summer of Code
2012:
* http://www.biogems.info/ for Biopython with
http://pypi.python.org/pypi/pip . Could include pysam, GFF3, OBO/OWL (see
below) and so on.

Cheers,

On Tue, Dec 27, 2011 at 3:55 AM, Martin Mokrejs <mmokrejs at fold.natur.cuni.cz
> wrote:

> Hi,
>  I would like to parse some OBO/OWL files in python. I searched
> for some existing code and found http://biopython.org/wiki/Gene_Ontology
> pointing to some OWL parser from Ed Cannon (follow a link on the page
> listed above). Unfortunately, the code is gone? :((
>
>  I also discovered an OBO parser at http://hal.elte.hu/~nepusz/development
> ,
> the sources can be fetched from
>
> http://bazaar.launchpad.net/~ntamas/+junk/go-parser/tarball/7?start_revid=7
>
>  It can open the .obo files for me although I do not see much methods
> available.
>
>  Finally, I found
> https://github.com/gotgenes/biopython/tree/a4824ceb71f3a687b3eb5e1fefd0ad3c278bf185/Bio/GO so
> my question is when will this be available in released biopython
> and what are your opinions/suggestions now. Does it offer more than the
> go-parser from ~ntamas?
>
>  I want to cluster some sequences based on anatomical terms, so
> I think what I want is to be able to lookup easily all parents
> (probably except the very root node or so) and compare whether
> they overlap with any parent of another sequence.
>
> Thank you for your comments,
> Martin
> P.S.: I want to parse OBO from http://www.evocontology.org/
> _______________________________________________
> Biopython mailing list  -  Biopython at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/biopython
>