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Old 01-19-2008, 03:07 AM
Charles Plessy
Default Bug#461510: ITP: treevolve -- simulation of evolution of DNA sequences

Package: wnpp
Severity: wishlist
Owner: Charles Plessy <charles-debian-nospam@plessy.org>

Package name : treevolve
Version : 1.3.2
Upstream Author : Andrew Rambaut & Nick Grassly
URL : http://evolve.zoo.ox.ac.uk/software.html?id=Treevolve
License : Not found... will enquire.
Programming Lang: C
Description : simulation of evolution of DNA sequences

treevolve will simulate the evolution of DNA sequences under a
coalescent model, which allows exponential population growth,
population subdivision according to an island model, migration and
recombination. In addition different periods of population dynamics
can be enforced at different times. For example, a period of
exponential growth can be followed by a period of stasis where the
population is subdivided into demes. Multiple sets of such simulated
sequence data can then be compared to sequence data sampled from a
population of interest using suitable statistics, and various
evolutionary hypotheses concerning the evolution of this population
Citation: Population dynamics of HIV-1 inferred from gene sequences
Grassly NC, Harvey PH & Holmes EC (1999) Genetics 151, 427-438.

The package is already ready: it was prepared by Vincent Danjean, who
offered it to the Debian-Med packaging team.


Have a nice day,

Charles Plessy

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