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freebsd-ports/biology
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Martin Wilke 565d0310d5 MrBayes is a program for the Bayesian estimation of phylogeny. 
Bayesian inference of phylogeny is based upon a quantity called the
posterior probability distribution of trees, which is the probability of a
tree conditioned on the observations. The conditioning is accomplished
using Bayes's theorem. The posterior probability distribution of trees is
impossible to calculate analytically; instead, MrBayes uses a simulation
technique called Markov chain Monte Carlo (or MCMC) to approximate the
posterior probabilities of trees.

WWW: http://mrbayes.csit.fsu.edu/

PR:		ports/118542
Submitted by:	mzaki at biol.s.u-tokyo.ac.jp
2007-12-15 15:13:41 +00:00
..
adun - cleanup after gnustep-make-2.0.1 2007-07-22 20:50:58 +00:00
ariadne
artemis - Update to version 9 2007-07-08 11:47:58 +00:00
avida [patch] cleanup non-supported FreeBSD versions 2007-05-02 07:13:53 +00:00
babel
belvu - Release distfile was renamed. 2007-03-08 13:17:26 +00:00
biococoa - update for gnustep-make-2.0.0 2007-05-25 05:55:36 +00:00
biojava - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
blast Remove always-false/true conditions based on OSVERSION 500000 2007-10-04 00:15:01 +00:00
blat - Mark BROKEN outside i386: does not compile 2007-12-04 23:08:55 +00:00
boinc-simap - Runs on 7.0-CURRENT with compat6x 2007-07-08 11:56:59 +00:00
chemeq Migration from bison 1.x to 2.x 2007-10-17 10:13:01 +00:00
clustalw Reset dbader@eece.unm.edu due to maintainer-timeout. While here, fix fetch. 2007-03-11 03:20:27 +00:00
crimap - Fix the build with GCC 4.2 2007-06-18 21:35:50 +00:00
distribfold - Remove unreachable OSVERSION code. 2007-04-16 11:57:17 +00:00
dna-qc Remove always-true condition due to OSVERSION 2007-04-16 11:58:10 +00:00
dotter Replace IGNORE with ONLY_FOR_ARCHS for this binary port. 2007-08-09 01:00:45 +00:00
embassy - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
emboss - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
fasta
fasta3 - Update to 34.26.2 2007-03-09 11:26:13 +00:00
fastdnaml
finchtv
fluctuate Fix master site and un-deprecate 2007-01-25 11:01:25 +00:00
garlic - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
genpak - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
gff2ps Reset chuynh@biolateral.com.au: address bounces. 2007-03-10 20:20:10 +00:00
gmap [patch] cleanup non-supported FreeBSD versions 2007-04-16 21:18:53 +00:00
gperiodic Fix pkg-plist 2007-08-02 20:25:01 +00:00
grappa
hmmer
jalview - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
kinemage - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
L-Breeder dyeske at yahoo dot com -> dyeske at gmail dot com 2007-07-05 23:39:06 +00:00
lagan
lamarc - Update to 2.1.2b 2007-10-23 23:07:19 +00:00
libgenome Use libtool port instead of included version to avoid objformat a.out botch 2007-02-01 02:42:05 +00:00
linux-foldingathome - Fix typo in WWW 2007-10-04 07:28:40 +00:00
lsysexp dyeske at yahoo dot com -> dyeske at gmail dot com 2007-07-05 23:39:06 +00:00
mafft
migrate - Update to version 2.3 2007-09-03 09:24:30 +00:00
molden Now we use USE_FORTRAN=yes to use FORTRAN compiler. 2007-07-12 06:33:38 +00:00
mopac
mrbayes MrBayes is a program for the Bayesian estimation of phylogeny. 2007-12-15 15:13:41 +00:00
mummer MUMmer is a modular system for the rapid whole genome alignment of finished 2007-12-14 20:54:47 +00:00
nab - Allow build with AMD64 2007-10-28 21:42:23 +00:00
ncbi-toolkit - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
ortep3 Now we use USE_FORTRAN=yes to use FORTRAN compiler. 2007-07-14 09:51:49 +00:00
p5-AcePerl Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+. 2007-09-08 01:12:10 +00:00
p5-Bio-ASN1-EntrezGene Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+. 2007-09-08 01:12:10 +00:00
p5-Bio-Das - Update to 1.06 2007-09-07 14:45:12 +00:00
p5-Bio-Phylo Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+. 2007-09-08 01:12:10 +00:00
p5-bioperl Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+. 2007-09-08 01:12:10 +00:00
p5-bioperl-devel Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+. 2007-09-08 01:12:10 +00:00
p5-bioperl-run Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+. 2007-09-08 01:12:10 +00:00
p5-bioperl-run-devel Welcome bsd.perl.mk. Add support for constructs such as USE_PERL5=5.8.0+. 2007-09-08 01:12:10 +00:00
paml Reset dbader@eece.unm.edu due to maintainer-timeouts. 2007-03-11 03:21:18 +00:00
phylip - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
platon Now we use USE_FORTRAN=yes to use FORTRAN compiler. 2007-07-12 06:41:22 +00:00
povchem - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
primer3
protomol Mark as broken with gcc4.2. 2007-10-02 09:08:37 +00:00
psi88 Now we use USE_FORTRAN=yes to use FORTRAN compiler. 2007-07-12 06:41:22 +00:00
py-biopython - Fix typos. 2007-05-31 03:49:14 +00:00
pymol - Chase x11-toolkits/pmw renamed to x11-toolkits/py-Pmw 2007-09-02 07:16:05 +00:00
rasmol - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
recombine Fix master sites, un-deprecate and update biology/recombine to 1.41. 2007-01-25 12:22:50 +00:00
ruby-bio - Update to 1.1.0 2007-10-24 01:38:51 +00:00
seaview - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
seqio
sim4
t_coffee [patch] cleanup non-supported FreeBSD versions 2007-05-02 07:15:46 +00:00
tinker Now we use USE_FORTRAN=yes to use FORTRAN compiler. 2007-07-12 06:49:37 +00:00
treepuzzle
treeviewx - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
tRNAscan-SE Reset chuynh@biolateral.com.au: address bounces. 2007-03-10 20:20:10 +00:00
wise
xdrawchem - Chase openbabel update 2007-05-24 22:21:26 +00:00
xmolwt - Welcome X.org 7.2 \o/. 2007-05-19 20:36:56 +00:00
Makefile MrBayes is a program for the Bayesian estimation of phylogeny. 2007-12-15 15:13:41 +00:00