Consensus

List of trees, optionally of class <code>multiPhylo</code>.

trees

Proportion of trees that must contain a split for it to be reported
in the consensus. <code>p = 0.5</code> gives the majority-rule consensus; <code>p = 1</code> (the
default) gives the strict consensus.

Logical specifying whether to check that all trees have
identical labels. Defaults to <code>TRUE</code>, which is slower.

check.labels

<code>Consensus()</code> calculates the consensus of a set of trees, using the
algorithm of Day1985TreeTools.

Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2021) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013) <doi:10.1016/j.mbs.2012.10.005>;
artificial extinction (Asher & Smith, 2021) <doi:10.1093/sysbio/syab072>;
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 splits and cladistic information.

Consensus: Construct consensus trees

Description

Usage

Arguments

Value

References

See Also

Examples