minusLikelihoodRandomRoot

Gives the minus likelihood function, with random root.

internal

The Cauchy Process can model pulsed continuous trait evolution
on phylogenies. The likelihood is tractable, and is used for parameter
inference and ancestral trait reconstruction.
See Bastide and Didier (2023) <doi:10.1093/sysbio/syad053>.

Paul Bastide

cauphy

Trait Evolution on Phylogenies Using the Cauchy Process

Gilles Didier

minusLikelihoodRandomRoot function

<dl><dt>param</dt>
<dd>the parameters where to evaluate the function</dd>
<dt>param_names</dt>
<dd>the parameter names</dd>
<dt>Xdesign</dt>
<dd>the design matrix</dd>
<dt>model</dt>
<dd>a model for the trait evolution. One of <code>"cauchy"</code> or <code>"lambda"</code> (see Details).</dd></dl>

Arguments

Minus Likelihood function for a Cauchy model — minusLikelihoodRandomRoot

<dl>

<dt>param</dt>
<dd>the parameters where to evaluate the function</dd>


<dt>param_names</dt>
<dd>the parameter names</dd>


<dt>Xdesign</dt>
<dd>the design matrix</dd>


<dt>model</dt>
<dd>a model for the trait evolution. One of <code>"cauchy"</code> or <code>"lambda"</code> (see Details).</dd>

</dl>

minusLikelihoodRandomRoot: Minus Likelihood function for a Cauchy model

Description

Usage

Value

Arguments