The FreeBSD Ports Archive

FreeBSD biology : blat

A fast tool for local sequence similarity searches

 BLAT is a bioinformatics software tool which performs rapid mRNA/DNA
and cross-species protein alignments. BLAT is more accurate and 500
times faster than popular existing tools for mRNA/DNA alignments and 50
times faster for protein alignments at sensitivity settings typically
used when comparing vertebrate sequences. (Source: Kent, W.J. 2002. BLAT
-- The BLAST-Like Alignment Tool. Genome Research 4: 656-664.
http://dx.doi.org/10.1101/gr.229202)

BLAT is not BLAST. DNA BLAT works by keeping an index of the entire
genome (but not the genome itself) in memory. Since the index takes up a
bit less than a gigabyte of RAM, BLAT can deliver high performance on a
reasonably priced Linux box. 

blat history

v. 1.4
date: 2007/12/04 23:08:55;  author: pav;  state: Exp;  lines: +4 -0
- Mark BROKEN outside i386: does not compile

Reported by:	pointyhat
Approved by:	portmgr (hat)

v. 1.3
date: 2007/10/02 09:10:48;  author: linimon;  state: Exp;  lines: +7 -1
Mark as broken on gcc4.2.

v. 1.2
date: 2007/05/02 07:15:18;  author: edwin;  state: Exp;  lines: +1 -7
[patch] cleanup non-supported FreeBSD versions

PR:		ports/111726
Submitted by:	Edwin Groothuis 
Approved by:	maintainer timeout

v. 1.1
date: 2006/03/15 10:26:11;  author: garga;  state: Exp;
Add blat 33, a fast tool for local sequence similarity searches.

PR:		ports/93060
Submitted by:	Fernan Aguero 
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