[Cdd-commits] r710 - projects/med/trunk/debian-med/tasks

[CDD Subversion Commit]

Author: tille
Date: Thu Apr 17 06:29:12 2008
New Revision: 710

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


Modified: projects/med/trunk/debian-med/tasks/bio
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio	(original)
+++ projects/med/trunk/debian-med/tasks/bio	Thu Apr 17 06:29:12 2008
@@ -1316,3 +1316,35 @@
  Note that currently Bambus is undergoing a transition in order to be
  integrated with the AMOS package (see http://amos.sourceforge.net/)
 Note: Genome assembly and large-scale genome alignment (http://www.cbcb.umd.edu/software/)
+
+Depends: hawkeye
+Homepage: http://amos.sourceforge.net/hawkeye/
+License: Artistic
+Pkg-Description: Interactive Visual Analytics Tool for Genome Assemblies
+ Genome assembly remains an inexact science. Even when accomplished
+ with the best software available, the assembly of a genome often
+ contains numerous errors, both small and large. Hawkeye is a visual
+ analytics tool for genome assembly analysis and validation, designed
+ to aid in identifying and correcting assembly errors. Hawkeye blends
+ the best practices from information and scientific visualization to
+ facilitate inspection of large-scale assembly data while minimizing
+ the time needed to detect mis-assemblies and make accurate judgments
+ of assembly quality.
+ .
+ All levels of the assembly data hierarchy are made accessible to
+ users, along with summary statistics and common assembly metrics. A
+ ranking component guides investigation towards likely mis-assemblies
+ or interesting features to support the task at hand. Wherever
+ possible, high-level overviews, dynamic filtering, and automated
+ clustering are leveraged to focus attention and highlight anomalies
+ in the data. Hawkeyes effectiveness has been proven on several genome
+ projects, where it has been used both to improve quality and to
+ validate the correctness of complex genomes.
+ .
+ Hawkeye is compatible with most widely used assemblers, including
+ Phrap, ARACHNE, Celera Assembler, Newbler, AMOS, and assemblies
+ deposited in the NCBI Assembly Archive.
+ .
+ Publication: Schatz, M.C., Phillippy, A.M., Shneiderman, B.,
+ Salzberg, S.L. (2007) Hawkeye: a visual analytics tool for genome
+ assemblies. Genome Biology 8:R34.