[Cdd-commits] r1068 - projects/med/trunk/debian-med/tasks

[CDD Subversion Commit]

Author: tille
Date: Mon Sep  8 12:55:21 2008
New Revision: 1068

Modified:
   projects/med/trunk/debian-med/tasks/bio
Log:
Added fasta


Modified: projects/med/trunk/debian-med/tasks/bio
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio	(original)
+++ projects/med/trunk/debian-med/tasks/bio	Mon Sep  8 12:55:21 2008
@@ -2289,3 +2289,26 @@
  .
  This package is included into BioLinux distribution
  http://envgen.nox.ac.uk/biolinux.html
+
+Depends: fasta
+Homepage: http://www.ebi.ac.uk/Tools/fasta/
+License: no inclusion into commercial product
+Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
+Pkg-URL: http://nebc.nox.ac.uk/bio-linux/dists/unstable/bio-linux/binary-i386/
+Pkg-Description: searching DNA and protein databases
+ FASTA (pronounced FAST-AYE) stands for FAST-ALL, reflecting the fact
+ that it can be used for a fast protein comparison or a fast
+ nucleotide comparison. This program achieves a high level of
+ sensitivity for similarity searching at high speed. This is achieved
+ by performing optimised searches for local alignments using a
+ substitution matrix. The high speed of this program is achieved by
+ using the observed pattern of word hits to identify potential matches
+ before attempting the more time consuming optimised search. The
+ trade-off between speed and sensitivity is controlled by the ktup
+ parameter, which specifies the size of the word. Increasing the ktup
+ decreases the number of background hits. Not every word hit is
+ investigated but instead initially looks for segment's containing
+ several nearby hits.
+ .
+ This package is included into BioLinux distribution
+ http://envgen.nox.ac.uk/biolinux.html