[Cdd-commits] r748 - projects/med/trunk/debian-med/tasks

[CDD Subversion Commit]

Author: tille
Date: Wed May 21 13:44:07 2008
New Revision: 748

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


Modified: projects/med/trunk/debian-med/tasks/bio
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio	(original)
+++ projects/med/trunk/debian-med/tasks/bio	Wed May 21 13:44:07 2008
@@ -856,6 +856,7 @@
  more difficult problems of biology.
  .
  See also: http://www.jcvi.org/cms/research/software/celera-assembler/overview/
+Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
 
 Depends: gbioseq
 Homepage: http://www.bioinformatics.org/project/?group_id=94
@@ -1436,3 +1437,21 @@
  .
  It is possible that mirbase will not be a package from the main archive, but
  will be autogenerated as part of a larger data packaging effort.
+
+Depends: elph
+Homepage: http://www.cbcb.umd.edu/software/ELPH/
+License: Artistic
+Pkg-Description: Estimated Locations of (DNA) Pattern Hits
+ ELPH is a general-purpose Gibbs sampler for finding motifs in a set
+ of DNA or protein sequences. The program takes as input a set
+ containing anywhere from a few dozen to thousands of sequences, and
+ searches through them for the most common motif, assuming that each
+ sequence contains one copy of the motif. We have used ELPH to find
+ patterns such as ribosome binding sites (RBSs) and exon splicing
+ enhancers (ESEs). See below for instructions on downloading the
+ complete system, including source code.
+ .
+ An online tool that uses ELPH output for identifying exon splicing
+ enhancers can be found at
+ http://www.cbcb.umd.edu/software/SeeEse/index.html .
+Note: Other sequence analysis tools (http://www.cbcb.umd.edu/software/)