check.chains

This function is automatically called by many other functions, but can be run manually as well.
It performs a number of tests of chain format, labels, lengths, etc.

phylogenetics

MCMC

convergence

rwty

awty

Implements various tests, visualizations, and metrics
for diagnosing convergence of MCMC chains in phylogenetics. It implements
and automates many of the functions of the AWTY package in the R
environment, as well as a host of other functions. Warren, Geneva, and Lanfear (2017), <doi:10.1093/molbev/msw279>.

Dan Warren

R We There Yet? Visualizing MCMC Convergence in Phylogenetics

Anthony Geneva

Rob Lanfear

Luke Harmon

April Wright

Diego Mallo

Klaus Schliep

Kelly Luke

Kendall Michelle

Smith Martin

check.chains function

<dl><dt>chains</dt>
<dd>A list of rwty.chain objects.</dd></dl>

Arguments

Function for checking suitability of chains for rwty analyses, auto-generating labels, etc — check.chains

<dl>

<dt>chains</dt>
<dd>A list of rwty.chain objects.</dd>

</dl>

Function for checking suitability of chains for rwty analyses, auto-generating labels, etc

check.chains: Function for checking suitability of chains for rwty analyses, auto-generating labels, etc

Description

Usage

Value

Arguments

Examples