N1Spr

IC1Spr

<code>N1Spr()</code> calculates the number of trees one subtree prune-and-regraft
operation away from a binary input tree using the formula given by
Allen2001;textualTreeTools;
<code>IC1Spr()</code> calculates the information content of trees at this
distance: i.e. the entropy corresponding to the proportion of all possible
n-tip trees whose SPR distance is at most one from a specified tree.

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, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013, Lemant et al. 2022)
<doi:10.1016/j.mbs.2012.10.005>, <doi:10.1093/sysbio/syac027>;
artificial extinction (Asher & Smith, 2022) <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 <https://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.

Martin R. Smith

TreeTools

Create, Modify and Analyse Phylogenetic Trees

Emmanuel Paradis

Robert Noble

N1Spr function

<dl><dt>n</dt>
<dd>Integer vector specifying the number of tips in a tree.</dd></dl>

Arguments

Number of trees one SPR step away — N1Spr

<dl>

<dt>n</dt>
<dd>Integer vector specifying the number of tips in a tree.</dd>

</dl>

N1Spr: Number of trees one SPR step away

Description

Usage

Value

Arguments

References

Examples