[Cdd-commits] r1069 - projects/med/trunk/debian-med/tasks

[CDD Subversion Commit]

Author: tille
Date: Tue Sep  9 06:58:43 2008
New Revision: 1069

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


Modified: projects/med/trunk/debian-med/tasks/bio
==============================================================================
--- projects/med/trunk/debian-med/tasks/bio	(original)
+++ projects/med/trunk/debian-med/tasks/bio	Tue Sep  9 06:58:43 2008
@@ -2312,3 +2312,38 @@
  .
  This package is included into BioLinux distribution
  http://envgen.nox.ac.uk/biolinux.html
+
+Depends: fluctuate
+Homepage: http://evolution.gs.washington.edu/lamarc/fluctuate.html
+License: not specified
+Responsible: BioLinux - Nathan S Haigh <n.haigh at sheffield.ac.uk>
+Pkg-URL: http://nebc.nox.ac.uk/bio-linux/dists/unstable/bio-linux/binary-i386/
+Pkg-Description: outdated program to model a single population
+ FLUCTUATE fits the model which has a single population which has been
+ growing (or shrinking) according to an exponential growth law. It
+ estimates 4Nu and g, where N is the effective population size, u is
+ the neutral mutation rate per site, and g is the growth rate of the
+ population.
+ .
+ The homepage contains the explicite link: "We are no longer
+ supporting FLUCTUATE as its functions can be done just as well by
+ LAMARC and it's easier for us to support just one program. You may
+ still want the paper, however."  So this is actually no target for
+ the Debian Med distribution but just a hint for users about the
+ existence of this program and the even better alternative even if
+ BioLinux distribution http://envgen.nox.ac.uk/biolinux.html contains
+ a package.
+
+Depends: forester
+Homepage: http://sourceforge.net/projects/forester-atv/
+License: LGPL
+Responsible: BioLinux - Stewart Houten <shou at ceh.ac.uk>
+Pkg-URL: http://nebc.nox.ac.uk/bio-linux/dists/unstable/bio-linux/binary-i386/
+Pkg-Description: visualization of annotated phylogenetic trees
+ FORESTER is a Java/Perl based software package for phylogenomic
+ analyses. Currently, it includes the phylogenetic tree visualization
+ and manipulation tool ATV and implementations of the SDI algorithm
+ and the RIO method (http://www.phylosoft.org/).
+ .
+ This package is included into BioLinux distribution
+ http://envgen.nox.ac.uk/biolinux.html