create_jaatha_model

This function can be used to create models for an analysis with Jaatha.
Models can be created using simulation function 
(see <code>create_jaatha_model.function</code>) or using a coala 
model (see <code>create_jaatha_model.coalmodel</code>).

An estimation method that can use computer simulations to
approximate maximum-likelihood estimates even when the likelihood function can not
be evaluated directly. It can be applied whenever it is feasible to conduct many
simulations, but works best when the data is approximately Poisson distributed.
It was originally designed for demographic inference in evolutionary
biology (Naduvilezhath et al., 2011 <doi:10.1111/j.1365-294X.2011.05131.x>,
Mathew et al., 2013 <doi:10.1002/ece3.722>).
It has optional support for conducting coalescent simulation using
the 'coala' package.

Dirk Metzler

jaatha

Simulation-Based Maximum Likelihood Parameter Estimation

Paul Staab

Lisha Mathew

create_jaatha_model function

<dl><dt>x</dt>
<dd>The primary argument. Can be a function used for simulations,
or a coala model.</dd>
<dt>...</dt>
<dd>Additional parameters passed on to the dispatch function.</dd>
<dt>scaling_factor</dt>
<dd>If your model is a down-scaled version of your data,
you can indicated this using this value. The estimated expectation values
are multiplied with this factor before the likelihood is calculated.</dd>
<dt>test</dt>
<dd>A logical indicating whether a simulation is performed to test
the model.</dd></dl>

Arguments

Specify a Model for a Jaatha Analysis — create_jaatha_model

<dl>

<dt>x</dt>
<dd>The primary argument. Can be a function used for simulations,
or a coala model.</dd>


<dt>...</dt>
<dd>Additional parameters passed on to the dispatch function.</dd>


<dt>scaling_factor</dt>
<dd>If your model is a down-scaled version of your data,
you can indicated this using this value. The estimated expectation values
are multiplied with this factor before the likelihood is calculated.</dd>


<dt>test</dt>
<dd>A logical indicating whether a simulation is performed to test
the model.</dd>

</dl>

create_jaatha_model: Specify a Model for a Jaatha Analysis

Description

Usage

Arguments