[Blends-commit] r2734 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Tue Apr  5 15:27:28 2011
New Revision: 2734

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2734
Log:
Added arachne

Modified:
    projects/med/trunk/debian-med/tasks/bio

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/wsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=2734&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Tue Apr  5 15:27:28 2011
@@ -3754,6 +3754,25 @@
  interface.
 Published-doi: 10.1089/cmb.2009.0238
 
+Depends: arachne
+Homepage http://www.broadinstitute.org/crd/wiki/index.php/Arachne
+License: free
+Pkg-Description: toolkit for Whole Genome Shotgun Assembly
+ Arachne is a toolkit developed for Whole Genome Shotgun Assembly.
+ Arachne consists of a comprehensive set of modules, including a central
+ pipeline (Assemblez) that can be run on almost any genome to produce a
+ draft assembly. Arachne's mandate explicitly includes accommodating
+ difficult genomes with complications such as extreme size, repeats, and
+ high polymorphism rates. In order to construct a reasonably
+ well-connected assembly from such tricky genomes, Arachne provides
+ further tools that can be used after the main module pipeline.
+ .
+ The Arachne code package has been under continuous development since
+ 2000. It began with the classic "overlap-layout-consensus" paradigm and
+ has since developed into a vast collection of tools, implemented in
+ numerous modules, to analyze, visualize and manipulate assemblies. New
+ and improved algorithms are becoming available on a regular basis. 
+
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html
 Comment: There is a Gentoo page featuring some projects we do not have mentioned here: