create_beast2_input_data

Creates the <code>data</code> section of a BEAST2 XML parameter file

'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.
'BEAUti 2' (which is part of 'BEAST2') is a GUI tool
that allows users to specify the many possible setups
and generates the XML file 'BEAST2' needs to run.
This package provides a way to create 'BEAST2' input
files without active user input, but using
R function calls instead.

Richèl J.C. Bilderbeek

beautier

'BEAUti' from R

Joëlle Barido-Sottani

David Winter

Paul Van Els

Raphael Scherrer

Yacine B. Chehida

Katharine S. Walter

Gary Napier

Jason Griffiths

Thijs Janzen

Pedro Taucce

Olivier Roy

Jana Riederer

create_beast2_input_data function

<dl><dt>input_filename</dt>
<dd>A FASTA filename.
Use <code>get_fasta_filename</code> to obtain a testing FASTA filename.</dd>
<dt>beauti_options</dt>
<dd>one BEAUti options object,
as returned by <code>create_beauti_options</code></dd></dl>

Arguments

Author

Creates the data section of a BEAST2 XML parameter file — create_beast2_input_data

<dl>

<dt>input_filename</dt>
<dd>A FASTA filename.
Use <code>get_fasta_filename</code> to obtain a testing FASTA filename.</dd>


<dt>beauti_options</dt>
<dd>one BEAUti options object,
as returned by <code>create_beauti_options</code></dd>

</dl>

Creates the <code>data</code> section of a BEAST2 XML parameter file

create_beast2_input_data: Creates the `data` section of a BEAST2 XML parameter file

Description

Usage

Value

Arguments

Author

Examples