[BioRuby] HMMER 3 parsers?

[Christian M Zmasek]

Hi, Daniel:

Sorry for the late reply, for some reasons my email reader suddenly 
sorts messages wrongly.

In any case, the parser for hmmer3 hmmscan and hmmsearch is basically 
finished.

So, if I could somehow get access to your test cases, that would be great!

Thank you!

Christian


Daniel Lundin wrote:
> Naohisa GOTO skrev:
>> Hi,
>>
>> Christian Zmasek are now working for the HMMER 3 support.
>> It will be great if you can help us.
>>
> Certainly. Since my alternative is writing a parser for myself, I might 
> as well put in my effort for the common good.
> 
> Christian, is there anything in particular I could help with? I have 
> started collecting some test cases for my own needs.
> 
> /Daniel
> 
>> http://github.com/cmzmasek/bioruby/blob/master/lib/bio/appl/hmmer/hmmer3report.rb
>> http://github.com/cmzmasek/bioruby/blob/master/lib/bio/appl/hmmer3.rb
>>
>> Naohisa Goto
>> ngoto at gen-info.osaka-u.ac.jp / ng at bioruby.org
>>
>> On Tue, 09 Mar 2010 20:48:11 +0100
>> Daniel Lundin <daniel.lundin at molbio.su.se> wrote:
>>
>>> Hi,
>>>
>>> HMMER 3 is currently available as a first release candidate. With it 
>>> comes several news both in the form of new tools and new kinds of data, 
>>> which means output formats are changed. Is anybody working on BioRuby 
>>> parsers for these?
>>>
>>> /D
>>>
>>> -- 
>>> Daniel Lundin
>>>
>>> Department of Molecular Biology & Functional Genomics
>>> Arrhenius Laboratories for Natural Sciences
>>> Stockholm University, SE-106 91 Stockholm, Sweden
>>>
>>> tel. +46 (0)8 16 41 95, mobile: +46 (0)708 123 922, fax. +46 (0)8 16 64 88
>>>
>>> Email: daniel.lundin at molbio.su.se
>>> _______________________________________________
>>> BioRuby Project - http://www.bioruby.org/
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> 
>