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Source: indelible
Section: science
Priority: optional
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Fabian Klötzl <kloetzl@evolbio.mpg.de>
Build-Depends: debhelper (>= 9), dh-autoreconf
Standards-Version: 3.9.6
Vcs-Browser: http://anonscm.debian.org/cgit/debian-med/indelible.git/tree/
Vcs-Git: git://anonscm.debian.org/debian-med/indelible.git
Homepage: http://abacus.gene.ucl.ac.uk/software/indelible/
Package: indelible
Architecture: any
Depends: ${shlibs:Depends}, ${misc:Depends}
Description: powerful and flexible simulator of biological evolution
INDELible is a new, portable, and flexible application for biological
sequence simulation that combines many features in the same place for
the first time. Using a length-dependent model of indel formation it
can simulate evolution of multi-partitioned nucleotide, amino-acid,
or codon data sets through the processes of insertion, deletion, and
substitution in continuous time.
.
Nucleotide simulations may use the general unrestricted model or the
general time reversible model and its derivatives, and amino-acid
simulations can be conducted using fifteen different empirical rate
matrices. Substitution rate heterogeneity can be modelled via the
continuous and discrete gamma distributions, with or without a proportion
of invariant sites. INDELible can also simulate under non-homogenous
and non-stationary conditions where evolutionary models are permitted
to change across a phylogeny.
.
Unique among indel simulation programs, INDELible offers the ability
to simulate using codon models that exhibit nonsynonymous/synonymous
rate ratio heterogeneity among sites and/or lineages.
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