calc_act_r

Calculate the auto-correlation time using only R. Consider using
calc_act instead, as it is orders of magnitude faster

'BEAST2' (<https://www.beast2.org>) is a widely used
Bayesian phylogenetic tool, that uses DNA/RNA/protein data
and many model priors to create a posterior of jointly estimated
phylogenies and parameters.
'Tracer' (<https://github.com/beast-dev/tracer/>) is a GUI tool
to parse and analyze the files generated by 'BEAST2'.
This package provides a way to parse and analyze 'BEAST2' input
files without active user input, but using
R function calls instead.

Richel Bilderbeek

tracerer

Tracer from R

Richèl J.C. Bilderbeek

Joëlle Barido-Sottani

David Winter

calc_act_r function

<dl><dt>trace</dt>
<dd>the values</dd>
<dt>sample_interval</dt>
<dd>the interval in timesteps between samples</dd></dl>

Arguments

The original Java version of the algorithm was from Remco Bouckaert,
 ported to R and adapted by Richèl J.C. Bilderbeek

Author

Calculate the auto-correlation time using only R. Consider using
calc_act instead, as it is orders of magnitude faster — calc_act_r

<dl>

<dt>trace</dt>
<dd>the values</dd>


<dt>sample_interval</dt>
<dd>the interval in timesteps between samples</dd>

</dl>

calc_act_r: Calculate the auto-correlation time using only R. Consider using calc_act instead, as it is orders of magnitude faster

Description

Usage

Value

Arguments

Author

See Also

Examples