ungulates: Phylogeny and quantitative traits of ungulates.

In ade4: Analysis of Ecological Data : Exploratory and Euclidean Methods in Environmental Sciences

Description

This data set describes the phylogeny of 18 ungulates as reported by Pélabon et al. (1995). It also gives 4 traits corresponding to these 18 species.

Usage

data(ungulates)

Format

fission is a list containing the 2 following objects :

tre

is a character string giving the phylogenetic tree in Newick format.

tab

is a data frame with 18 species and 4 traits

Details

Variables of ungulates$tab are the following ones :
afbw: is a numeric vector that describes the adult female body weight (g)
mnw: is a numeric vector that describes the male neonatal weight (g)
fnw: is a numeric vector that describes the female neonatal weight (g)
ls: is a numeric vector that describes the litter size

Source

Data were obtained from Pélabon, C., Gaillard, J.M., Loison, A. and Portier, A. (1995) Is sex-biased maternal care limited by total maternal expenditure in polygynous ungulates? Behavioral Ecology and Sociobiology, 37, 311–319.

Examples

data(ungulates)
ung.phy <- newick2phylog(ungulates$tre)
plot(ung.phy,clabel.l=1.25,clabel.n=0.75)
ung.x <- log(ungulates$tab[,1])
ung.y <- log((ungulates$tab[,2]+ungulates$tab[,3])/2)
names(ung.x) <- names(ung.phy$leaves)
names(ung.y) <- names(ung.x)
plot(ung.x,ung.y)
abline(lm(ung.y~ung.x))
symbols.phylog(ung.phy,ung.x-mean(ung.x))
dotchart.phylog(ung.phy,ung.x,cle=1.5,cno=1.5,cdot=1)
orthogram(ung.x,ung.phy$Bscores,nrep=9999)
ung.z <- residuals(lm(ung.y~ung.x))
names(ung.z) <- names(ung.phy$leaves)
dotchart.phylog(ung.phy,ung.z,cle=1.5,cno=1.5,cdot=1,ceti=0.75)
orthogram(ung.z,ung.phy$Bscores,nrep=9999)

ade4 documentation built on May 2, 2019, 5:50 p.m.