[Blends-commit] r2660 - /projects/med/trunk/debian-med/tasks/bio

[tille at users.alioth.debian.org]

Author: tille
Date: Mon Feb  7 15:34:03 2011
New Revision: 2660

URL: http://svn.debian.org/wsvn/blends/?sc=1&rev=2660
Log:
Added fsa

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=2660&op=diff
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio (original)
+++ projects/med/trunk/debian-med/tasks/bio Mon Feb  7 15:34:03 2011
@@ -3407,6 +3407,23 @@
  Check with authors about licensing, they adopted code from clustalw which is now
  free.  Thus a change might be possible
 
+Depends: fas
+Homepage: http://fsa.sourceforge.net/
+License: GPL v3
+Enhances: t-coffee
+Pkg-Description: Fast Statistical Alignment
+ FSA is a probabilistic multiple sequence alignment algorithm which uses
+ a "distance-based" approach to aligning homologous protein, RNA or DNA
+ sequences. Much as distance-based phylogenetic reconstruction methods
+ like Neighbor-Joining build a phylogeny using only pairwise divergence
+ estimates, FSA builds a multiple alignment using only pairwise
+ estimations of homology. This is made possible by the sequence annealing
+ technique for constructing a multiple alignment from pairwise
+ comparisons, developed by Ariel Schwartz in  "Posterior Decoding Methods
+ for Optimization and Control of Multiple Alignments." 
+Remark: Precondition for T-Coffee
+ see http://wiki.debian.org/DebianMed/TCoffee
+
 
 Comment: Several related R packages are listed at CRAN:
          http://cran.r-project.org/web/views/Genetics.html