Lincoln D. Stein

NAME

Bio::Graphics::Browser2::Plugin::CreateBlastDB -- a plugin that creates a Blast-formatted database from a Bio::DB::GFF database

SYNOPSIS

 in 0X.organism.conf:
     
 [CreateBlastDB:plugin]
 formatdb_executable = /usr/local/BLAST/formatdb
 blast_db_folder = /home/username/my/blast_db/folder 
 blast_db_name = myname.fas

DESCRIPTION

This Gbrowse plugin will take a sequence database, extract all sequences in it, and create a Blast-formatted database in the folder configured in the 0X.organism.conf file

You must, of course, have the NCBI Blast suite of programs installed, you must have configured the plugin to be visible, and you must set two parameters in the 0X.organism.conf file: [CreateBlastDB:plugin] formatdb_executable = /usr/local/BLAST/formatdb blast_db_folder = /home/username/my/blast_db/folder blast_db_name = myname.fas