---
name: blat
version: 34
origin: biology/blat
comment: Fast tool for local sequence similarity searches
arch: freebsd:10:x86:64
www: http://www.genomeblat.com
maintainer: ports@FreeBSD.org
prefix: /usr/local
licenselogic: single
flatsize: 2283350
desc: |
  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.

  WWW: http://www.genomeblat.com
categories:
- biology
options: {DOCS: on}
files:
  /usr/local/bin/blat: a391bdaf6011f96ef732fd5cfddc1f2c1939a2243c18d71e692b7bb6502766fa
  /usr/local/bin/faToNib: ee037cb2d55aac4d313690bea8bf9af96bb513ba570d8d1d2c5cd651f7aa0cbe
  /usr/local/bin/faToTwoBit: fdbb2e9539e0191db87122ee0962e647270545f31831e07ee2447470fb77ed77
  /usr/local/bin/gfClient: 264e09232ffa5a11f257f1a02d31fd3eddd40099e0efda4102c4f24bce8683be
  /usr/local/bin/gfServer: 306f8abf980c511f0c39ad51bd402d1b3644ed5a6bf53f9dda0e405ae59b4f93
  /usr/local/bin/nibFrag: 81c940e9fd4371025c61748a14ec0e11f09b46e67a6f7eedf84f7c9226cd6bb0
  /usr/local/bin/pslPretty: e5347b98738b8bb1c8dd739131537556e6413ecaa38ff77e04c321240fdd944c
  /usr/local/bin/pslReps: 74935e13a9a6abe991bfe98b5929ec15d3ca5a881ce5f04b061b5444ec068719
  /usr/local/bin/pslSort: 6078b36d3adf09ffd51e28887ce09b67928edc041de65bb443210f92fe25931c
  /usr/local/bin/twoBitInfo: 56dc9e41ffe2d8c31333e489ca6fd832e0c7e22ea7357e7751e01f5db5c73196
  /usr/local/bin/twoBitToFa: 29ffc3d221c1952df03db1095da91e9d566d1589a05c2450d18ce482bc555334
  /usr/local/share/doc/blat/README: e9270f4283f284533ddcaee124a3873cf83c2b7a193b7ec08d24b0d4b6d8be88
  /usr/local/share/blat/webBlat/webBlat: 010e0f8278d47f03e82e5c8a03f8cd424a1b51745371ba059fb1f4add1b6bf37
  /usr/local/share/blat/webBlat/install.txt: 4f74e2e7df0c51d277677c4f64f94a7133deb57c632584b085daad1e415ad8ce
directories:
  /usr/local/share/doc/blat/: n
  /usr/local/share/blat/webBlat/: n
  /usr/local/share/blat/: n
scripts: {}
message: "===============================================================================\n\n
  A CGI script (webBlat) and instructions on how to set up a BLAT web server\n have
  been installed in \n \n /usr/local/share/blat\n\n===============================================================================\n"
