get_alignment_id

This is done in the same way as BEAST2 will do so.

'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

get_alignment_id function

<dl><dt>fasta_filename</dt>
<dd>a FASTA filename.
Use <code>get_fasta_filename</code> to obtain a testing FASTA filename.
Note that BEAST2 also supports missing data,
by using a dash (<code>-</code>) or question mark (<code>?</code>)
as a sequence.</dd>
<dt>capitalize_first_char_id</dt>
<dd>if TRUE, the first character will
be capitalized</dd></dl>

Arguments

Author

Conclude the ID from a FASTA filename. — get_alignment_id

<dl>

<dt>fasta_filename</dt>
<dd>a FASTA filename.
Use <code>get_fasta_filename</code> to obtain a testing FASTA filename.
Note that BEAST2 also supports missing data,
by using a dash (<code>-</code>) or question mark (<code>?</code>)
as a sequence.</dd>


<dt>capitalize_first_char_id</dt>
<dd>if TRUE, the first character will
be capitalized</dd>

</dl>

Conclude the ID from a FASTA filename.

get_alignment_id: Conclude the ID from a FASTA filename.

Description

Usage

Value

Arguments

Author

See Also

Examples