parse_beast2_output

Process the 'BEAST2' output dependent on 'BEAST2' package specifics

'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.
'BEAST2' is commonly accompanied by 'BEAUti 2', 'Tracer' and 'DensiTree'.
'babette' provides for an alternative workflow of using
all these tools separately. This allows doing complex Bayesian
phylogenetics easily and reproducibly from 'R'.

Richel Bilderbeek

babette

Control 'BEAST2'

Richèl J.C. Bilderbeek

Joëlle Barido-Sottani

David Winter

Jason Griffiths

Giovanni Laudanno

parse_beast2_output function

<dl><dt>out</dt>
<dd>a list with the complete babette output, with elements:<ul>
<li><code>output</code> textual output of a 'BEAST2' run</li>
</ul></dd>
<dt>inference_model</dt>
<dd>a Bayesian phylogenetic inference model,
as returned by create_inference_model</dd></dl>

Arguments

Author

Process the 'BEAST2' output dependent on 'BEAST2' package specifics — parse_beast2_output

<dl>

<dt>out</dt>
<dd>a list with the complete babette output, with elements:<ul>
<li><code>output</code> textual output of a 'BEAST2' run</li>
</ul></dd>


<dt>inference_model</dt>
<dd>a Bayesian phylogenetic inference model,
as returned by create_inference_model</dd>

</dl>

parse_beast2_output: Process the 'BEAST2' output dependent on 'BEAST2' package specifics

Description

Usage

Value

Arguments

Author