MatrixToPhyDat

PhyDatToMatrix

matrix of tokens, probably created with <code><a rd-options="" href="/link/ReadCharacters?package=TreeTools&version=0.1.4" data-mini-rdoc="TreeTools::ReadCharacters">ReadCharacters</a></code>
or <code><a rd-options="" href="/link/ReadTntCharacters?package=TreeTools&version=0.1.4" data-mini-rdoc="TreeTools::ReadTntCharacters">ReadTntCharacters</a></code>. Row names should correspond to tip
labels; column names may optionally correspond to
character labels.

tokens

A dataset of class <code>phyDat</code>.

dataset

Converts a matrix of tokens to a <code>phyDat</code> object.

internal

Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include: generation of trees with specified shapes;
rooting of trees and extraction of subtrees;
calculation and depiction of node support;
calculation of ancestor-descendant relationships;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <http://www.lillo.org.ar/phylogeny/tnt/> formats;
and
analysis of partitions and partition information.

Martin R. Smith

TreeTools

Create, Modify and Analyse Phylogenetic Trees

Emmanuel Paradis

Klaus Schliep

MatrixToPhyDat function

<ul>
<li><code>PhyDatToMatrix</code>: Converts a <code>phyDat</code> object to a matrix of tokens.</li>
</ul>

Functions

matrix of tokens, probably created with <code><a rd-options='' href='ReadCharacters'>ReadCharacters</a></code>
or <code><a rd-options='' href='ReadTntCharacters'>ReadTntCharacters</a></code>. Row names should correspond to tip
labels; column names may optionally correspond to
character labels.

MatrixToPhyDat: Matrix to `phyDat`

Description

Usage

Arguments

Value

Functions