[Blends-commit] r2767 - /projects/med/trunk/debian-med/tasks/bio

[project2501a-guest at users.alioth.debian.org]

Author: project2501a-guest
Date: Sat Apr 23 19:41:09 2011
New Revision: 2767

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2767
Log:
ADD: Apollo (of GMOD fame)

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=2767&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Sat Apr 23 19:41:09 2011
@@ -3796,3 +3796,26 @@
  of multi-FASTA files and does not require a reference genome. 
  To cite Mugsy, use:
  Angiuoli SV, Salzberg SL. Mugsy: fast multiple alignment of closely related whole genomes. Bioinformatics. 2011 27(3):334-42
+
+Depends: Apollo
+Homepage: http://gmod.org/wiki/Apollo
+License: 
+ Apollo is a genome annotation viewer and editor. It was developed as a 
+ collaboration between the Berkeley Drosophila Genome Project (part of 
+ the FlyBase consortium) and The Sanger Institute in Cambridge, UK. 
+ Apollo allows researchers to explore genomic annotations at many levels 
+ of detail, and to perform expert annotation curation, all in a graphical 
+ environment. It was used by the FlyBase biologists to construct the 
+ Release 3 annotations on the finished Drosophila melanogaster genome, 
+ and is also a primary vehicle for sharing these annotations with the 
+ community. The Generic Model Organism Database (GMOD) project, which 
+ aims to provide a complete ready-to-use toolkit for analyzing whole 
+ genomes, has adopted Apollo as its annotation workbench. Apollo is a 
+ Java application that can be downloaded and run on Windows, Mac OS X, 
+ or any Unix-type system (including Linux).
+ 
+ Cite:
+ Apollo: a sequence annotation editor. Lewis SE, Searle SMJ, Harris N, 
+ Gibson M, Iyer V, Ricter J, Wiel C, Bayraktaroglu L, Birney E, Crosby MA, 
+ Kaminker JS, Matthews B, Prochnik SE, Smith CD, Tupy JL, Rubin GM, 
+ Misra S, Mungall CJ, Clamp ME (2002). Genome Biology 2002, 3(12):research0082