<code>primates</code> is an object of class <code>"DNAbin"</code> containing nucleotide sequence data of mysterious origin for 12 species of primates. <code>chloroplast</code> is an object of class<code>"proseq"</code> containing a chloroplast alignment from the phangorn package (Schliep 2011). <code>primates.bin</code> is a an object of class <code>"phylip.data"</code> containing <code>"0"</code> and <code>"1"</code> character data for primates. <code>cotton</code> is a list with two parts: <code>cotton$tree</code> is an object of class <code>"phylo"</code>, containing a phylogenetic tree for 37 species of cotton (<em>Gossypium</em>); <code>cotton$data</code> is an object of class <code>"matrix"</code> containing traits for each species. Most trait values are real, but a few values were not available and so random values were used so there were no missing values in the dataset. <code>restriction.data</code> is an object of class <code>"rest.data"</code> containing an example dataset of restriction site data.

datasets

primates

Rphylip provides an R interface for the PHYLIP package. All users
    of Rphylip will thus first have to install the PHYLIP phylogeny methods
    program package (Felsenstein 2013). See
    http://evolution.genetics.washington.edu/phylip.html for more information
    about installing PHYLIP.

Liam Revell

Rphylip

Rphylip: An R interface for PHYLIP

primates function

The data are stored as an object of class <code>"DNAbin"</code>, <code>"proseq"</code>, <code>"phylip.data"</code>, or <code>"rest.data"</code>. <code>cotton</code> is a list containing an object <code>"phylo"</code> and a matrix of continuous trait data.

format

Chamberlain, S.A., & J.A. Rudgers. 2012. How do plants balance multiple mutualists? Correlations among traits for attracting protective bodyguards and pollinators in cotton (Gossypium). Evolutionary Ecology 26:65-77. DOI: 10.1007/s10682-011-9497-3.

primates: Example datasets

Description

Usage

Arguments

format

source