[Bioperl-l] StandAloneBlastPlus Question

[Veronica A.]

Phew....I'm glad I'm not the only one :)

I'll look into the blastdb_aliastool method and see if that will help in the mean time.

Thank you.

Veronica



> From: David.Messina at sbc.su.se
> Date: Fri, 1 Apr 2011 10:07:06 +0200
> To: armendarez77 at hotmail.com
> CC: bioperl-l at lists.open-bio.org; maj at fortinbras.us
> Subject: Re: [Bioperl-l] StandAloneBlastPlus Question
> 
> Hi Veronica,
> 
> I took a look and couldn't figure out how to do an update to an existing
> database, either. But I also couldn't find a clear example of how to do this
> with just the blast+ command-line tools (outside of Perl).
> 
> Well, it looks like you can create a new, virtual database using
> blastdb_aliastool. Is that what you mean? If not, could you provide an
> example command line of how to update an existing blast database using the
> blast+ command-line tools?
> 
> Also, Ccing Mark Jensen — he can probably answer this straight away.
> 
> 
> Dave
> 
> 
> 
> 
> 
> On Fri, Apr 1, 2011 at 02:45, Veronica A. <armendarez77 at hotmail.com> wrote:
> 
> >
> >
> >
> >
> > Hello,
> >
> > I'm trying to create a Perl script using StandAloneBlastPlus that can
> > either create a new database or update it with new FASTA sequences.
> >  However, I can only find information on the creation of a new database.
> >  I've checked the information on doc.bioperl.org but a lot of the Methods
> > don't have descriptions yet.
> >
> >
> > Is it possible to use StandAloneBlastPlus or is there another/a better way?
> >
> > Thank you,
> >
> > Veronica
> >
> >
> >
> >
> >
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at lists.open-bio.org
> > http://lists.open-bio.org/mailman/listinfo/bioperl-l
> >
> 
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