[Bioperl-l] Re: blast2gff.pl

Brian Osborne brian_osborne at cognia.com
Wed Aug 18 09:26:12 EDT 2004



Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Lincoln Stein
Sent: Monday, August 16, 2004 5:40 PM
To: jtr4v at alumni.virginia.edu
Cc: bioperl-l at bioperl.org
Subject: [Bioperl-l] Re: blast2gff.pl

Hi Justin,

You know, I was absolutely sure that bioperl had a blast2gff script,
but I can't find it.  So please send me your script and I will add it
in.  Just make sure that the script has some POD documentation so
that I don't have to write it!


On Monday 16 August 2004 02:42 am, you wrote:
> Hi Lincoln,
> Don't know if you remember me, I interviewed up at
> CSHL last year.
> I've been helping out with the Honey Bee Genome
> Project, and found it necessary to write a perl hack
> to turn BLAST result files into .gff files. Not sure
> if bioperl already has such a script, but I thought I
> would pass along mine in case it might be useful to
> others who use GBROWSE. It's beta code, and probably
> has a bug or two lurking. If you think it might be
> useful, I could go through it more thoroughly and
> refine it.
> Best regards,
> Justin Reese
> __________________________________
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Lincoln D. Stein
Cold Spring Harbor Laboratory
1 Bungtown Road
Cold Spring Harbor, NY 11724
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