[Biopython-dev] TAIR/AGI support

Kevin Murray k.d.murray.91 at gmail.com
Thu Sep 20 04:28:08 UTC 2012

Hi Brad,

My TAIR/AGI script is on github here:

I got it to work directly from TAIR's website, however it has not been
rigorously tested. I plan on implementing the process as i described in my
previous email, whereby it fetches the Genbank record from TOGOws or via
NCBI's Efetch (using biopython's interfaces of course). I will keep you all

To the list in general, I'm open to suggestions on what to work on next?

Kevin Murray

On 6 September 2012 10:45, Brad Chapman <chapmanb at 50mail.com> wrote:

> Kevin;
> Thanks for the e-mail and offers of code. Always happy to have other
> folks involved with the project.
> > What's the status of TAIR AGIs in BioPython (I can see no mention of
> them,
> > or support for them)? I've written a brief module which allows a user to
> > query NCBI with a TAIR AGI, returning a Seq object (via Efetch). Is there
> > any interest in including such functionality in BioPython?
> Is the code available on GitHub to get a better sense of all the
> functionality it supports? Do you have an idea where it would fit best?
> As a tair submodule inside of Bio.Entrez, or somewhere else?
> > More generally, are there any particular areas of BioPython development
> > which could use an extra pair of hands?
> Following the mailing list for discussions on current projects is the
> best way to get a sense of what different folks are working on. The
> issue tracker also has open issues and features that could use attention
> if anything there strikes your fancy:
> https://redmine.open-bio.org/projects/biopython
> Hope this helps,
> Brad

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