activate_msms

The path of the java executable on your system.

java

The priority for this simulator. If multiple simulators
can simulate a model, the one with the highest priority will be used.

priority

This adds the simulator 'msms' to the list of available simulators. To add
msms, you need to download the jar file and have Java installed on your
system.

Coalescent simulators can rapidly simulate biological sequences
    evolving according to a given model of evolution.
    This package allows to specify such models, transparently calls a suitable
    simulator, parses the results and calculates additional summary statistics.
    It supports the simulators 'ms', 'msms' and 'scrm' and can simulate
    finite-sites mutation models by combining the simulators with the program
    'seq-gen'.

Paul Staab

coala

A Framework for Coalescent Simulation

activate_msms function

Gregory Ewing and Joachim Hermisson.
MSMS: a coalescent simulation program including recombination,
demographic structure and selection at a single locus.
Bioinformatics (2010) 26 (16): 2064-2065
doi:10.1093/bioinformatics/btq322

activate_msms: Use the simulator msms

Description

Usage

Arguments

Citation