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 <[email protected]> +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 _______________________________________________ Blends-commit mailing list [email protected] http://lists.alioth.debian.org/mailman/listinfo/blends-commit
