plot.equivalent_shifts

an object of class <code>equivalent_shifts</code>, result of
function <code><a rd-options="" href="/link/equivalent_shifts?package=PhylogeneticEM&version=1.0.0" data-mini-rdoc="PhylogeneticEM::equivalent_shifts">equivalent_shifts</a></code>

(integer) the trait to be plotted, if multivariate. Default to 1.

trait

wheter to number the solutions. Default to FALSE.

numbering

user-provided colors for the tips of the tree. A vector
vector with as many colors as there are tips. Will be automatically computed
if not provided.

colors_tips

the number of columns on which to display the plot.
Default to 3.

nbr_col

if TRUE, a gray scale is used instead of colors. Default to
FALSE.

gray_scale

further arguments to be passed to <code><a rd-options="ape" href="/link/plot.phylo?package=PhylogeneticEM&version=1.0.0&to=ape" data-mini-rdoc="ape::plot.phylo">plot.phylo</a></code>.


<code>plot.equivalent_shifts</code> plots a representation of all the equivalent
shifts allocations, with a representation of the shifts and their values,
and a coloration of the branches in term of 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.

Paul Bastide

PhylogeneticEM

Automatic Shift Detection using a Phylogenetic EM

plot.equivalent_shifts function

an object of class <code>equivalent_shifts</code>, result of
function <code><a rd-options='' href='equivalent_shifts'>equivalent_shifts</a></code>

further arguments to be passed to <code><a rd-options='ape' href='plot.phylo'>plot.phylo</a></code>.

plot.equivalent_shifts: Plot all the equivalent solutions.

Description

Usage

Arguments

Value

Details

See Also