prune.sample

prune.missing

Prune a phylogenetic tree to include only species present in a community data set or with non-missing trait data

manip

Functions for phylocom integration, community analyses, null-models, traits and evolution. Implements numerous ecophylogenetic approaches including measures of community phylogenetic and trait diversity, phylogenetic signal, estimation of trait values for unobserved taxa, null models for community and phylogeny randomizations, and utility functions for data input/output and phylogeny plotting. A full description of package functionality and methods are provided by Kembel et al. (2010) <doi:10.1093/bioinformatics/btq166>.

Steven W Kembel

picante

Integrating Phylogenies and Ecology

Helene Morlon

prune.sample function

<dl> <dt>phylo</dt>
<dd>phylo object</dd> <dt>samp</dt>
<dd>Community data matrix</dd> <dt>x</dt>
<dd>Vector of trait data</dd></dl>

Arguments

Steven Kembel &lt;steve.kembel@gmail.com&gt;

Author

Prune tree to match community data or trait data — prune.sample

<dl>

 <dt>phylo</dt>
<dd>phylo object</dd>

 <dt>samp</dt>
<dd>Community data matrix</dd>

 <dt>x</dt>
<dd>Vector of trait data</dd>

</dl>

prune.sample: Prune tree to match community data or trait data

Description

Usage

Value

Arguments

Author