R: Phylogeny and quantitative traits of lizards

lizards {ade4} | R Documentation

## Phylogeny and quantitative traits of lizards

### Description

This data set describes the phylogeny of 18 lizards as reported by Bauwens and Díaz-Uriarte (1997). It also gives life-history traits corresponding to these 18 species.

### Usage

    data(lizards)

### Format

`lizards` is a list containing the 3 following objects :

traits

  is a data frame with 18 species and 8 traits.

hprA

  is a character string giving the phylogenetic tree (hypothesized phylogenetic relationships based on immunological distances) in Newick format.

hprB

  is a character string giving the phylogenetic tree (hypothesized phylogenetic relationships based on morphological characteristics) in Newick format.

### Details

Variables of `lizards$traits` are the following ones : mean.L (mean length (mm)), matur.L (length at maturity (mm)), max.L (maximum length (mm)), hatch.L (hatchling length (mm)), hatch.m (hatchling mass (g)), clutch.S (Clutch size), age.mat (age at maturity (number of months of activity)), clutch.F (clutch frequency).

### References

Bauwens, D., and Díaz-Uriarte, R. (1997) Covariation of life-history traits in lacertid lizards: a comparative study. American Naturalist, 149, 91–111.

See a data description at http://pbil.univ-lyon1.fr/R/pdf/pps063.pdf (in French).

### Examples

    data(lizards)
    w <- data.frame(scalewt(log(lizards$traits)))
    par(mfrow = c(1,2))
    wphy <- newick2phylog(lizards$hprA)
    table.phylog(w, wphy, csi = 3)
    wphy <- newick2phylog(lizards$hprB)
    table.phylog(w, wphy, csi = 3)
    par(mfrow = c(1,1))

[Package ade4 version 1.7-19 Index]