add_characters

Add character data to a nexml object

Provides access to phyloinformatic data in 'NeXML' format.  The
package should add new functionality to R such as the possibility to
manipulate 'NeXML' objects in more various and refined way and compatibility
with 'ape' objects.

Carl Boettiger

RNeXML

Semantically Rich I/O for the 'NeXML' Format

Scott Chamberlain

Hilmar Lapp

Kseniia Shumelchyk

Rutger Vos

add_characters function

<dl><dt>x</dt>
<dd>character data, in which character traits labels are column names
and taxon labels are row names. x can be in matrix or data.frame
format.</dd>
<dt>nexml</dt>
<dd>a nexml object, if appending character table to an existing
nexml object. If omitted will initiate a new nexml object.</dd>
<dt>append_to_existing_otus</dt>
<dd>logical. If TRUE, will add any new taxa
(taxa not matching any existing otus block) to the existing (first)
otus block. Otherwise (default), a new otus block is created, even
though it may contain duplicate taxa to those already present. While
FALSE is the safe option, TRUE may be appropriate when building nexml
files from scratch with both characters and trees.</dd></dl>

Arguments

Add character data to a nexml object — add_characters

<dl>

<dt>x</dt>
<dd>character data, in which character traits labels are column names
and taxon labels are row names. x can be in matrix or data.frame
format.</dd>


<dt>nexml</dt>
<dd>a nexml object, if appending character table to an existing
nexml object. If omitted will initiate a new nexml object.</dd>


<dt>append_to_existing_otus</dt>
<dd>logical. If TRUE, will add any new taxa
(taxa not matching any existing otus block) to the existing (first)
otus block. Otherwise (default), a new otus block is created, even
though it may contain duplicate taxa to those already present. While
FALSE is the safe option, TRUE may be appropriate when building nexml
files from scratch with both characters and trees.</dd>

</dl>

add_characters: Add character data to a nexml object

Description

Usage

Arguments