TipsAreNames

TipsAreColumns

a matrix or list containing symbols associated with each tip; for example,
a dataset of class <code>phyDat</code>

dataset

vector detailing the tips to be selected, whether as their
names or numbers corresponding to their rows/columns

tips

Specifies how characters are stored in a dataset object

internal

Searches for phylogenetic trees that are optimal using a user-defined criterion.
Implements Profile Parsimony (Faith and Trueman, 2001) <doi:10.1080/10635150118627>, and
Successive Approximations (Farris, 1969) <doi:10.2307/2412182>.
Handles inapplicable data using the algorithm of Brazeau, Guillerme and Smith
(2019) <doi:10.1093/sysbio/syy083>.

Martin R. Smith

TreeSearch

Phylogenetic Tree Search Using Custom Optimality Criteria

Emmanuel Paradis

Klaus Schliep

Martin Brazeau

TipsAreNames function

<ul>
<li><code>TipsAreColumns</code>: use if each column in a matrix corresponds to a tip</li>
</ul>

TipsAreNames: Extract character data from dataset

Description

Usage

Arguments

Value

Functions