[Bioperl-l] Parsing Blast Report

[shalabh sharma]

Thanks Mark and Scott,
                                    fastacmd solved my purpose.

-Shalabh


On Wed, Mar 25, 2009 at 3:20 PM, Scott Markel <SMarkel at accelrys.com> wrote:

> Shalabh,
>
> No.  The full-length hit sequences are not in the BLAST report.
> You need to use either NCBI's fastacmd (in same set of executables
> that has formatdb and blastall) or some database look-up.
>
> Scott
>
> Scott Markel, Ph.D.
> Principal Bioinformatics Architect  email:  smarkel at accelrys.com
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>
> > -----Original Message-----
> > From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
> > bounces at lists.open-bio.org] On Behalf Of shalabh sharma
> > Sent: Wednesday, 25 March 2009 12:05 PM
> > To: bioperl-l
> > Subject: [Bioperl-l] Parsing Blast Report
> >
> > Hi All,
> >         Is there any way i can get the hit sequence from the blast
> report?
> > I am using SearchIO module to parse the blast report.
> >
> > Thanks
> > Shalabh
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