shifts_to_simmap

<code>shifts_to_simmap</code> takes a vector of edges where the shifts occur, and return a
simmap formatted tree, mapped with corresponding regimes.

Implementation of the automatic shift detection method for
Brownian Motion (BM) or Ornstein–Uhlenbeck (OU) models of trait evolution on
phylogenies. Some tools to handle equivalent shifts configurations are also
available. See Bastide et al. (2017) <doi:10.1111/rssb.12206> and
Bastide et al. (2018) <doi:10.1093/sysbio/syy005>.

Paul Bastide

PhylogeneticEM

Automatic Shift Detection using a Phylogenetic EM

Mahendra Mariadassou

shifts_to_simmap function

<dl><dt>tree</dt>
<dd>input tree in <code>phylo</code> format</dd>
<dt>shifts_edges</dt>
<dd>shifts positions on the edges</dd></dl>

Arguments

Simmap format mapping from list of edges — shifts_to_simmap

<dl>

<dt>tree</dt>
<dd>input tree in <code>phylo</code> format</dd>


<dt>shifts_edges</dt>
<dd>shifts positions on the edges</dd>

</dl>

shifts_to_simmap: Simmap format mapping from list of edges

Description

Usage

Value

Arguments

Details