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Source: beast-mcmc
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>,
Olivier Sallou <osallou@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper (>= 11~),
javahelper,
ant,
ant-optional,
default-jdk,
libjebl2-java,
libjam-java (>= 0.1.20140824),
figtree,
liboptions-java,
libhmsbeagle-java (>= 3.1.2~),
libcolt-free-java,
libmpj-java,
r-cran-rjava,
libcommons-math-java,
libjdom1-java,
junit4,
libmtj-java,
libitext1-java,
libejml-java,
libjlapack-java
Standards-Version: 4.2.1
Vcs-Browser: https://salsa.debian.org/med-team/beast-mcmc
Vcs-Git: https://salsa.debian.org/med-team/beast-mcmc.git
Homepage: http://beast.bio.ed.ac.uk/
Package: beast-mcmc
Architecture: all
Depends: ${shlibs:Depends},
${misc:Depends},
libhmsbeagle-java (>= 3.1.2~),
${java:Depends},
default-jre | java6-runtime,
libnucleotidelikelihoodcore0 (>= ${source:Version}),
libnucleotidelikelihoodcore0 (<< ${source:Version}.1~),
libnetlib-java
Description: Bayesian MCMC phylogenetic inference
BEAST is a cross-platform program for Bayesian MCMC analysis of molecular
sequences. It is entirely orientated towards rooted, time-measured
phylogenies inferred using strict or relaxed molecular clock models. It
can be used as a method of reconstructing phylogenies but is also a
framework for testing evolutionary hypotheses without conditioning on a
single tree topology. BEAST uses MCMC to average over tree space, so that
each tree is weighted proportional to its posterior probability. Included
is a simple to use user-interface program for setting up standard
analyses and a suit of programs for analysing the results.
Package: libnucleotidelikelihoodcore0
Architecture: any
Section: libs
Depends: ${shlibs:Depends},
${misc:Depends}
Conflicts: beast-mcmc-lib
Provides: beast-mcmc-lib
Replaces: beast-mcmc-lib
Description: implementation of LikelihoodCore for nucleotides used by beast-mcmc
BEAST is a cross-platform program for Bayesian MCMC analysis of molecular
sequences. It is entirely orientated towards rooted, time-measured
phylogenies inferred using strict or relaxed molecular clock models. It
can be used as a method of reconstructing phylogenies but is also a
framework for testing evolutionary hypotheses without conditioning on a
single tree topology. BEAST uses MCMC to average over tree space, so that
each tree is weighted proportional to its posterior probability. Included
is a simple to use user-interface program for setting up standard
analyses and a suit of programs for analysing the results.
.
This package provides an implementation of LikelihoodCore for nucleotides
that calls native methods for maximum speed.
Package: beast-mcmc-examples
Architecture: all
Section: doc
Depends: ${shlibs:Depends},
${misc:Depends}
Enhances: beast-mcmc
Description: Bayesian MCMC phylogenetic inference - example data
BEAST is a cross-platform program for Bayesian MCMC analysis of molecular
sequences. It is entirely orientated towards rooted, time-measured
phylogenies inferred using strict or relaxed molecular clock models. It
can be used as a method of reconstructing phylogenies but is also a
framework for testing evolutionary hypotheses without conditioning on a
single tree topology. BEAST uses MCMC to average over tree space, so that
each tree is weighted proportional to its posterior probability. Included
is a simple to use user-interface program for setting up standard
analyses and a suit of programs for analysing the results.
.
This package contains the example data.
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