add.color.bar

numerical value for the length of the legend.

cols

title

lims

digits

logical value indicating whether the location of the legend should be obtained interactively.

prompt

logical value indicated whether or not to outline the plotted color bar with a 1 pt line.

outline

optional arguments including: <code>x</code> x-coordinate of the legend (if <code>prompt=FALSE</code>); <code>y</code> y-coordinate of the legend; <code>subtitle</code> optional legend subtitle; <code>direction</code> direction of the color bar (i.e., increase from left to right or from right to left); and <code>fsize</code>, font size for the legend text.

This function adds a color bar to a plot created by <code><a rd-options="" href="/link/plotBranchbyTrait?package=phytools&version=0.7-20" data-mini-rdoc="phytools::plotBranchbyTrait">plotBranchbyTrait</a></code>. A color bar can be added by clicking on a location within the plot (when <code>prompt=TRUE</code>) or by setting <code>prompt=FALSE</code> and supplying x &amp; y coordinates for the object. This function is also used internally by S3 methods <code><a rd-options="" href="/link/plot.contMap?package=phytools&version=0.7-20" data-mini-rdoc="phytools::plot.contMap">plot.contMap</a></code> and <code><a rd-options="" href="/link/plot.densityMap?package=phytools&version=0.7-20" data-mini-rdoc="phytools::plot.densityMap">plot.densityMap</a></code>, as well as by <code><a rd-options="" href="/link/errorbar.contMap?package=phytools&version=0.7-20" data-mini-rdoc="phytools::errorbar.contMap">errorbar.contMap</a></code>.

phylogenetics

comparative method

plotting

A wide range of functions for phylogenetic analysis. Functionality is concentrated in phylogenetic comparative biology, but also includes a diverse array of methods for visualizing, manipulating, reading or writing, and even inferring phylogenetic trees and data. Included among the functions in phylogenetic comparative biology are various for ancestral state reconstruction, model-fitting, simulation of phylogenies and data, and multivariate analysis. There are a broad range of plotting methods for phylogenies and comparative data which include, but are not restricted to, methods for mapping trait evolution on trees, for projecting trees into phenotypic space or a geographic map, and for visualizing correlated speciation between trees. Finally, there are a number of functions for reading, writing, analyzing, inferring, simulating, and manipulating phylogenetic trees and comparative data not covered by other packages. For instance, there are functions for randomly or non-randomly attaching species or clades to a phylogeny, for estimating supertrees or consensus phylogenies from a set, for simulating trees and phylogenetic data under a range of models, and for a wide variety of other manipulations and analyses that phylogenetic biologists might find useful in their research.

Liam Revell

phytools

Phylogenetic Tools for Comparative Biology (and Other Things)

add.color.bar function

This function adds a color bar to a plot created by <code><a rd-options='' href='plotBranchbyTrait'>plotBranchbyTrait</a></code>. A color bar can be added by clicking on a location within the plot (when <code>prompt=TRUE</code>) or by setting <code>prompt=FALSE</code> and supplying x &amp; y coordinates for the object. This function is also used internally by S3 methods <code><a rd-options='' href='plot.contMap'>plot.contMap</a></code> and <code><a rd-options='' href='plot.densityMap'>plot.densityMap</a></code>, as well as by <code><a rd-options='' href='errorbar.contMap'>errorbar.contMap</a></code>.

add.color.bar: Add color bar to a plot

Description

Usage

Arguments

References

See Also