RootTree

A tree of class <code><a rd-options="" href="/link/phylo?package=TreeSearch&version=0.3.2" data-mini-rdoc="TreeSearch::phylo">phylo</a></code>.

tree

Character vector specifying the names of the tips to
include in the outgroup.

outgroupTips

Roots a tree on the smallest clade containing the specified tips.

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

RootTree function

A tree of class <code><a rd-options='' href='phylo'>phylo</a></code>.

RootTree: Root Tree on specified tips

Description

Usage

Arguments

Value