simulator_scrm

activate_scrm

This function adds the simulator 'scrm' to the list of available simulators.
It is provided via the CRAN package scrm and should be always installed
alongside with coala. It should be activated automatically, and this
function is only needed to change it <code>priority</code>.

Coalescent simulators can rapidly simulate biological sequences
evolving according to a given model of evolution.
You can use this package to specify such models, to conduct the simulations
and to calculate additional statistics from the results (Staab, Metzler,
2016 <doi:10.1093/bioinformatics/btw098>).
It relies on existing simulators for doing the simulation, and currently
supports the programs 'ms', 'msms' and 'scrm'. It also supports finite-sites
mutation models by combining the simulators with the program 'seq-gen'.
Coala provides functions for calculating certain summary statistics, which
can also be applied to actual biological data.
One possibility to import data is through the 'PopGenome' package
(<https://github.com/pievos101/PopGenome>).

Dirk Metzler

coala

A Framework for Coalescent Simulation

Paul Staab

Jorge E. Amaya Romero

simulator_scrm function

<dl><dt>priority</dt>
<dd>The priority for this simulator. If multiple simulators
can simulate a model, the one with the highest priority will be used.</dd></dl>

Arguments

Simulator: scrm — simulator_scrm

<dl>

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

</dl>

simulator_scrm: Simulator: scrm

Description

Usage

Arguments

References

See Also

Examples