SpectrumLegend

Prints an annotated vertical bar coloured according to a continuous palette.

Efficient implementations of functions for the creation,
modification and analysis of phylogenetic trees.
Applications include:
generation of trees with specified shapes;
tree rearrangement;
analysis of tree shape;
rooting of trees and extraction of subtrees;
calculation and depiction of split support;
plotting the position of rogue taxa (Klopfstein & Spasojevic 2019)
<doi:10.1371/journal.pone.0212942>;
calculation of ancestor-descendant relationships,
of 'stemwardness' (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>,
and of tree balance (Mir et al. 2013) <doi:10.1016/j.mbs.2012.10.005>;
artificial extinction (Asher & Smith, 2022) <doi:10.1093/sysbio/syab072>;
import and export of trees from Newick, Nexus (Maddison et al. 1997)
<doi:10.1093/sysbio/46.4.590>,
and TNT <http://www.lillo.org.ar/phylogeny/tnt/> formats;
and analysis of splits and cladistic information.

Martin R. Smith

TreeTools

Create, Modify and Analyse Phylogenetic Trees

Emmanuel Paradis

SpectrumLegend function

<dl><dt>x0, y0, x1, y1</dt>
<dd>Coordinates of the bottom-left and top-right end of the
bar.</dd>
<dt>absolute</dt>
<dd>Logical specifying whether <code>x</code> and <code>y</code> values denote
coordinates (<code>TRUE</code>) or relative position, where (0, 0) denotes the
bottom-left of the plot area and (1, 1) the top right.</dd>
<dt>legend</dt>
<dd>Character vector with which to label points on <code>palette</code>.</dd>
<dt>palette</dt>
<dd>Colour palette to depict.</dd>
<dt>lwd, lty, lend</dt>
<dd>Additional parameters to <code><a href="/link/segments()?package=TreeTools&version=1.7.3" data-mini-rdoc="TreeTools::segments()">segments()</a></code>,
controlling line style.</dd>
<dt>pos, ...</dt>
<dd>Additional parameters to <code><a href="/link/text()?package=TreeTools&version=1.7.3" data-mini-rdoc="TreeTools::text()">text()</a></code>.</dd></dl>

Arguments

Martin R. Smith (<a href="/link/martin.smith%40durham.ac.uk?package=TreeTools&version=1.7.3" data-mini-rdoc="TreeTools::martin.smith@durham.ac.uk">martin.smith@durham.ac.uk</a>)

Author

Produce a legend for continuous gradient scales — SpectrumLegend

<dl>

<dt>x0, y0, x1, y1</dt>
<dd>Coordinates of the bottom-left and top-right end of the
bar.</dd>


<dt>absolute</dt>
<dd>Logical specifying whether <code>x</code> and <code>y</code> values denote
coordinates (<code>TRUE</code>) or relative position, where (0, 0) denotes the
bottom-left of the plot area and (1, 1) the top right.</dd>


<dt>legend</dt>
<dd>Character vector with which to label points on <code>palette</code>.</dd>


<dt>palette</dt>
<dd>Colour palette to depict.</dd>


<dt>lwd, lty, lend</dt>
<dd>Additional parameters to <code><a href='https://rdrr.io/r/graphics/segments.html'>segments()</a></code>,
controlling line style.</dd>


<dt>pos, ...</dt>
<dd>Additional parameters to <code><a href='https://rdrr.io/r/graphics/text.html'>text()</a></code>.</dd>

</dl>

Martin R. Smith (<a href='mailto:martin.smith@durham.ac.uk'>martin.smith@durham.ac.uk</a>)

SpectrumLegend: Produce a legend for continuous gradient scales

Description

Usage

Arguments

Author

Details

Examples