ICPerStep

A vector of integers listing the number of tips in each of a number of
tree splits (e.g. bipartitions). For example, <code>c(3, 5)</code> states that
a character divides a set of eight tips into a group of three and a group
of five.

splits

number of iterations to use when estimating concavity constant

maxIter

Boolean (<code>TRUE</code>/<code>FALSE</code>): display warnings when concavity
functions are generated by approximation.

warn

internal

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

Martin R. Smith

TreeSearch

Phylogenetic Tree Search Using Custom Optimality Criteria

Martin Brazeau

ICS function

<ul>
<li><code>ICS</code>: Memoized calculating function</li>
</ul>

ICS: Information content per step

Description

Usage

Arguments

Functions