residuals.PhyloEM

an object of class <code><a rd-options="" href="/link/params_process?package=PhylogeneticEM&version=1.2.1" data-mini-rdoc="PhylogeneticEM::params_process">params_process</a></code> or <code><a rd-options="" href="/link/PhyloEM?package=PhylogeneticEM&version=1.2.1" data-mini-rdoc="PhylogeneticEM::PhyloEM">PhyloEM</a></code>.
trait, and each column is a tip. The column names are checked against the
tip names of the tree.
<code><a rd-options="" href="/link/incidence.matrix.full?package=PhylogeneticEM&version=1.2.1" data-mini-rdoc="PhylogeneticEM::incidence.matrix.full">incidence.matrix.full</a></code>. Can be specified to avoid extra computations.

object

for a <code>PhyloEM</code> object, further arguments to be passed on to
<code><a rd-options="" href="/link/params_process.PhyloEM?package=PhylogeneticEM&version=1.2.1" data-mini-rdoc="PhylogeneticEM::params_process.PhyloEM">params_process.PhyloEM</a></code> (to choose which parameters to extract from
the results, see documentation of this function).

<code>residuals</code> computes the residuals of some parameters.

Implementation of the automatic shift detection method for
Brownian Motion (BM) or Ornstein<e2><80><93>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

residuals.PhyloEM function

an object of class <code><a rd-options='' href='params_process'>params_process</a></code> or <code><a rd-options='' href='PhyloEM'>PhyloEM</a></code>.
trait, and each column is a tip. The column names are checked against the
tip names of the tree.
<code><a rd-options='' href='incidence.matrix.full'>incidence.matrix.full</a></code>. Can be specified to avoid extra computations.

for a <code>PhyloEM</code> object, further arguments to be passed on to
<code><a rd-options='' href='params_process.PhyloEM'>params_process.PhyloEM</a></code> (to choose which parameters to extract from
the results, see documentation of this function).

residuals.PhyloEM: Residuals of a fitted object

Description

Usage

Arguments

Value

See Also