[Biojava-l] blast parser

[Ewan Birney]

> 
> We've also weighed up the pros and cons of generic vs specific systems
> for parsing different programs. We decided to go for a generic solution.
> That is, we have objects (both Java value objects, and XML-based
> representations) that capture all aspects of information associated with
> the following pieces of software:
> 
> o Blast (NCBI)
> o Wu-Blast (Wash. U.)
> o Hmmer (Wash. U.)
> o DBA (Sanger)
> 

Sounds like you guys are really moving along (plus I love it when 
someone is using my program...)

This really should play well with sequence features somehow. I happen to
know that michele clamp wants to propose somewhat different sequence
features for biojava that draws on our experience of these beasts, in
particular in ensembl, so - I guess - now is the time to speak up
michele before these guys write too much ;)


> Hopefully this will do for starters.  More detailed info (along the
> lines I gave in a previous post) when we actually load the system into
> the cvs.
> 
> S.
> --
> Simon M. Brocklehurst, Ph.D.
> Head of Bioinformatics
> Cambridge Antibody Technology
> The Science Park, Melbourn, Cambridgeshire, UK
> http://www.CambridgeAntibody.com/
> mailto:simon.brocklehurst@CambridgeAntibody.com
> 
> 
> 
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