keepTaxon

keepPopulation

keepCharacter

keepSample

These functions keep only selected taxa, populations, samples or morphological characters in <code>morphodata</code> object. The samples can be kept by names using <code>sampleName</code> argument, or by the threshold. Each sample holding less or equal portion of missing data than the desired threshold (<code>missingPercentage</code>) will be kept. Only one parameter can be specified in one run.

Tools for multivariate analyses of morphological data, wrapped in one package, to make the workflow convenient and fast. Statistical and graphical tools provide a comprehensive framework for checking and manipulating input data, statistical analyses, and visualization of results. Several methods are provided for the analysis of raw data, to make the dataset ready for downstream analyses. Integrated statistical methods include hierarchical classification, principal component analysis, principal coordinates analysis, non-metric multidimensional scaling, and multiple discriminant analyses: canonical, stepwise, and classificatory (linear, quadratic, and the non-parametric k nearest neighbours). The philosophy of the package is described in Šlenker et al. 2022.

Marek Slenker

MorphoTools2

Multivariate Morphometric Analysis

Marek Šlenker

Petr Koutecký

Karol Marhold

keepTaxon function

<dl><dt>object</dt>
<dd>an object of class <code>morphodata</code>.</dd><dt>taxonName</dt>
<dd>vector of taxa to be kept.</dd><dt>populationName</dt>
<dd>vector of populations to be kept.</dd><dt>sampleName</dt>
<dd>vector of samples to be kept.</dd><dt>missingPercentage</dt>
<dd>a numeric, samples holding less or equal portion of missing data than specified by <code>missingPercentage</code> will be kept.</dd><dt>characterName</dt>
<dd>vector of characters to be kept.</dd></dl>

Arguments

Keep Items (Taxa, Populations, Samples, Morphological Characters) in an Morphodata Object (and Remove Others) — keepTaxon

<dl>

<dt>object</dt>
<dd>an object of class <code>morphodata</code>.</dd>

<dt>taxonName</dt>
<dd>vector of taxa to be kept.</dd>

<dt>populationName</dt>
<dd>vector of populations to be kept.</dd>

<dt>sampleName</dt>
<dd>vector of samples to be kept.</dd>

<dt>missingPercentage</dt>
<dd>a numeric, samples holding less or equal portion of missing data than specified by <code>missingPercentage</code> will be kept.</dd>

<dt>characterName</dt>
<dd>vector of characters to be kept.</dd>

</dl>

keepTaxon: Keep Items (Taxa, Populations, Samples, Morphological Characters) in an Morphodata Object (and Remove Others)

Description

Usage

Value

Arguments

Examples