[BiO BB] Search a Profile against a sequence database
Rajkumar.Bondugula at gmail.com
Thu Sep 9 10:25:41 EDT 2004
I need a gapless alignment. PSIBLAST does not have a gapless
alignment option. Thanks for the answer though.
On Wed, 8 Sep 2004 17:27:43 -0400, Ryan Golhar <ryangolhar at hotmail.com> wrote:
> You can use PSI-BLAST. Generate your sequence database using formatdb
> from the NCBI toolkit, and then use PSI-BLAST to search your custom
> database using your profile...
> Ryan Golhar
> Computational Biologist
> The Informatics Institute at
> The University of Medicine & Dentistry of NJ
> Phone: 973-972-5034
> Fax: 973-972-7412
> Email: golharam at umdnj.edu
> Hi all,
> I am looking for some tool that enables me to search a (custom)
> sequence database using the 'profile' (BLAST generated) of the query
> sequence rather than a query sequence itself. If anyone is aware of any
> such tool, please let me know.
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