.TH ncbi-blast+ 1  "April 29, 2011" "version 2.2.25" "USER COMMANDS"
.SH NAME
ncbi-blast+ \- NCBI command tools for BLAST+
.SH ONELINE DOCUMENTATION
.B BLAST+ documentation is available online at http://www.ncbi.nlm.nih.gov/books/NBK1763/
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.SH DESCRIPTION
The NCBI BLAST+ is a group of tools for basic alignment search. BLAST+
 is a rewrite of BLAST with new features and performance improvements.
BLAST+ commands differ from original BLAST. For BLAST users, one should read
 the BLAST USERS paragraph.
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.SH CONFIGURATION
BLAST+ uses the BLASTDB environment variable to get default db directory.
It is possible to update the file /etc/ncbi/.ncbirc to add the following:
.B [BLAST]
.B BLASTDB=/var/lib/ncbi-blast+/db
.SH BLAST USERS
The easiest way to get started using these command line applications is
 by means of the legacy_blast.pl PERL script which is bundled along with
 the BLAST+ applications.
To utilize this script, simply prefix it to the invocation of the C toolkit
 BLAST command line application and append the --path option pointing to the 
installation directory of the BLAST+ applications. For example, instead of using

.B blastall -i query -d nr -o blast.out 
use
.B legacy_blast.pl blastall -i query -d nr -o blast.out --path /usr/bin

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.SH AUTHOR
Olivier Sallou (olivier.sallou (at) irisa.fr) - Man page and packaging
NCBI - BLAST+