[BioRuby] how to set up a local BLAST and run it

[Krzysztof B. Wicher]

Hi,

I am not sure at which point you are but that what I have done:
- download blast executable
- download database in fasta format
- format database using formatdb
When you are done you are ready to run the blast locally.

What I do next I simply execute blast program from within Ruby script
and parse the output file.

If you need more detials. I can send you the example script.

Cheers

K

On Mon, Jul 6, 2009 at 5:00 PM, <bioruby-request at lists.open-bio.org> wrote:
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> Message: 1
> Date: Sun, 5 Jul 2009 11:39:43 -0700 (PDT)
> From: chen li <chen_li3 at yahoo.com>
> Subject: [BioRuby] how to set up a local BLAST and run it
> To: bioruby at lists.open-bio.org
> Message-ID: <336766.99689.qm at web36808.mail.mud.yahoo.com>
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>
> Hi all,
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> I want to run a local BLAST against an EST database from NCBI. I can't find the tutorial on Bioruby for it. I wonder if anyone out there how to set up within BioRuby.
>
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> Thank you very much,
>
> Li
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