[Bioperl-l] Introducing SearchIOified HMMER v3 parser
cjfields at illinois.edu
Wed Mar 10 10:53:41 EST 2010
Wonderful! Tom, thanks for your hard work!
On Wed, 2010-03-10 at 07:30 -0800, Thomas Sharpton wrote:
> Hey everyone,
> Since HMMER version 3 went live in the middle of last month, I thought
> it a good time to update the SearchIO parser I've been working on for
> some time and submit the tool to the community (finally....). At the
> moment, the module seems capable of parsing hmmsearch and hmmscan
> outputs, both with and without the alignment option. Some aspects of
> functionality have yet to be flushed out, but this one should be
> capable of doing most of your day to day procedures (at least it
> appears to on my end).
> I'd love to have people play with it and I'm happy to hear feedback,
> criticism, development requests and bug reports. That said, this is
> the first code I've contributed to BioPerl, so please be gentle ;).
> You can find the bioperl-hmmer3 package in bioperl-dev. I've included
> a test script as well as sample hmmscan/hmmsearch report files and
> test data in the bioperl-hmmer3 root directory.
> As an aside, BioPerl has been a wonderful resource for me and I'm glad
> to be giving back, even if only a little. I hope this helps out at
> least a few of you.
> All the best,
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
More information about the Bioperl-l