[Blends-commit] r2238 - projects/med/trunk/debian-med/tasks

[Debian Pure Blends Subversion Commit]

Author: tille
Date: Mon Jun 28 07:07:21 2010
New Revision: 2238
URL: http://svn.debian.org/viewsvn/blends?rev=2238&view=rev

Log:
Added python-nast as prospective package


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

Modified: projects/med/trunk/debian-med/tasks/bio
URL: http://svn.debian.org/viewsvn/blends/projects/med/trunk/debian-med/tasks/bio?rev=2238&view=diff&r1=2238&r2=2237&p1=projects/med/trunk/debian-med/tasks/bio&p2=projects/med/trunk/debian-med/tasks/bio
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio	(original)
+++ projects/med/trunk/debian-med/tasks/bio	Mon Jun 28 07:07:21 2010
@@ -3247,6 +3247,38 @@
  PyCogent toolkit. It makes extensive use of unit tests, and is highly
  modular to facilitate custom analyses.
 
+Depends: python-nast
+WNPP: 587189
+Homepage:  http://pynast.sf.net
+License: GPL
+Language: Python
+Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/python-nast/trunk/?rev=0&sc=0
+Vcs-Svn: svn://svn.debian.org/svn/debian-med/trunk/packages/python-nast/trunk/
+Responsible: Steffen Moeller <steffen_moeller at gmx.de>
+Pkg-Description: alignment of short DNA sequences
+ The package provices a reimplementation of the Nearest Alignment 
+ Space Termination tool in python. It was prepared for next generation
+ sequencers.
+ .
+ Given a set of sequences and a template alignment, PyNAST will align the
+ input sequences against the template alignment, and return a multiple
+ sequence alignment which contains the same number of positions (or
+ columns) as the template alignment. This facilitates the analysis of new
+ sequences in the context of existing alignments, and additional data
+ derived from existing alignments such as phylogenetic trees. Because
+ any protein or nucleic acid sequences and template alignments can be
+ provided, PyNAST is not limited to the analysis of 16s rDNA sequences.
+ .
+ Since version 1.1, PyNAST no longer exactly matches the output
+ of the origianl NAST program. Instead it focuses on getting better
+ alignments. Users who wish to exactly match the results of NAST should
+ download PyNAST 1.0.
+Published-Title: PyNAST: a flexible tool for aligning sequences to a template alignment
+Published-Authors: J. Gregory Caporaso, Kyle Bittinger, Frederic D. Bushman, Todd Z. DeSantis, Gary L. Andersen, and Rob Knight
+Published-In: Bioinformatics 26: 266-267
+Published-Year: 2010
+Published-DOI: 10.1093/bioinformatics/btp636
+
 
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html