DiversityIndex-class

.DiversityIndex

An S4 class to represent a diversity measure.

internal

An easy way to examine archaeological count data. This
package provides several tests and measures of diversity:
heterogeneity and evenness (Brillouin, Shannon, Simpson, etc.),
richness and rarefaction (Chao1, Chao2, ACE, ICE, etc.), turnover and
similarity (Brainerd-Robinson, etc.). It allows to easily visualize
count data and statistical thresholds: rank vs abundance plots,
heatmaps, Ford (1962) and Bertin (1977) diagrams, etc.

Nicolas Frerebeau

tabula

Analysis and Visualization of Archaeological Count Data

Brice Lebrun

Matthew Peeples

Ben Marwick

Anne Philippe

Jean-Baptiste Fourvel

Université Bordeaux Montaigne 

CNRS 

DiversityIndex-class function

<dl>
<dt><code>.Data</code></dt>
<dd>A <code><a href="/link/numeric?package=tabula&version=3.1.1" data-mini-rdoc="tabula::numeric">numeric</a></code> vector of diversity measures.</dd></dl>
<dt><code>labels</code></dt>
<dd>A <code><a href="/link/character?package=tabula&version=3.1.1" data-mini-rdoc="tabula::character">character</a></code> vector giving the sample names.</dd>
<dt><code>size</code></dt>
<dd>An <code><a href="/link/integer?package=tabula&version=3.1.1" data-mini-rdoc="tabula::integer">integer</a></code> vector giving the sample sizes.</dd>
<dt><code>data</code></dt>
<dd>A <code><a href="/link/numeric?package=tabula&version=3.1.1" data-mini-rdoc="tabula::numeric">numeric</a></code> matrix of count data.</dd>
<dt><code>method</code></dt>
<dd>A <code><a href="/link/character?package=tabula&version=3.1.1" data-mini-rdoc="tabula::character">character</a></code> string specifying the method used.</dd>
<dt><code>simulation</code></dt>
<dd>A four columns <code><a href="/link/numeric?package=tabula&version=3.1.1" data-mini-rdoc="tabula::numeric">numeric</a></code> matrix giving the diversity
measures for the simulated assemblage (sample <code>size</code>, <code>mean</code> estimate,
<code>lower</code> and <code>upper</code> boundaries of the confidence interval).</dd>

Slots

In the code snippets below, <code>x</code> is an <code>DiversityIndex</code> object.<dl>
<dt><code>as.data.frame(x)</code></dt>
<dd>Coerces to a <code><a href="/link/data.frame?package=tabula&version=3.1.1" data-mini-rdoc="tabula::data.frame">data.frame</a></code>.</dd>
</dl>

Coerce

Author

Diversity Index — DiversityIndex-class

<dl>
<dt><code>.Data</code></dt>
<dd>A <code><a href='https://rdrr.io/r/base/numeric.html'>numeric</a></code> vector of diversity measures.</dd>


<dt><code>labels</code></dt>
<dd>A <code><a href='https://rdrr.io/r/base/character.html'>character</a></code> vector giving the sample names.</dd>


<dt><code>size</code></dt>
<dd>An <code><a href='https://rdrr.io/r/base/integer.html'>integer</a></code> vector giving the sample sizes.</dd>


<dt><code>data</code></dt>
<dd>A <code><a href='https://rdrr.io/r/base/numeric.html'>numeric</a></code> matrix of count data.</dd>


<dt><code>method</code></dt>
<dd>A <code><a href='https://rdrr.io/r/base/character.html'>character</a></code> string specifying the method used.</dd>


<dt><code>simulation</code></dt>
<dd>A four columns <code><a href='https://rdrr.io/r/base/numeric.html'>numeric</a></code> matrix giving the diversity
measures for the simulated assemblage (sample <code>size</code>, <code>mean</code> estimate,
<code>lower</code> and <code>upper</code> boundaries of the confidence interval).</dd>


</dl>

In the code snippets below, <code>x</code> is an <code>DiversityIndex</code> object.<dl>
<dt><code>as.data.frame(x)</code></dt>
<dd>Coerces to a <code><a href='https://rdrr.io/r/base/data.frame.html'>data.frame</a></code>.</dd>


</dl>

DiversityIndex-class: Diversity Index

Description

Arguments

Slots

Coerce

Author

See Also