update.parsimonyNumber

<code>update.parsimonyNumber</code> compute the line vector of a parent node, given
the vectors of its daughters.

internal

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

update.parsimonyNumber function

<dl><dt>daughters</dt>
<dd>the identifiers of the daughters nodes.</dd>
<dt>daughtersParams</dt>
<dd>a ndaughters x (nclus) matrix with the line vectors of the number of
solutions for the daughters nodes.</dd>
<dt>cost</dt>
<dd>the (ntaxa + Nnode) x nclus matrix of costs (computed by <code>parsimonyCost</code>).</dd></dl>

Arguments

Actualization for parsimonyNumber. — update.parsimonyNumber

<dl>

<dt>daughters</dt>
<dd>the identifiers of the daughters nodes.</dd>


<dt>daughtersParams</dt>
<dd>a ndaughters x (nclus) matrix with the line vectors of the number of
solutions for the daughters nodes.</dd>


<dt>cost</dt>
<dd>the (ntaxa + Nnode) x nclus matrix of costs (computed by <code>parsimonyCost</code>).</dd>

</dl>

update.parsimonyNumber: Actualization for parsimonyNumber.

Description

Usage

Value

Arguments

Details