ade4 (version 1.7-8)

palm: Phylogenetic and quantitative traits of amazonian palm trees

Description

This data set describes the phylogeny of 66 amazonian palm trees. It also gives 7 traits corresponding to these 66 species.

Usage

data(palm)

Format

palm is a list containing the 2 following objects:

tre

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

traits

is a data frame with 66 species (rows) and 7 traits (columns).

Details

Variables of palm$traits are the following ones: rord: specific richness with five ordered levels h: height in meter (squared transform) dqual: diameter at breast height in centimeter with five levels sout : subterranean, d1(0, 5 cm), d2(5, 15 cm), d3(15, 30 cm) and d4(30, 100 cm) vfruit: fruit volume in \(mm^{3}\) (logged transform) vgrain: seed volume in \(mm^{3}\) (logged transform) aire: spatial distribution area (\(km^{2}\)) alti: maximum altitude in meter (logged transform)

Examples

# NOT RUN {
data(palm)
palm.phy <- newick2phylog(palm$tre)
radial.phylog(palm.phy,clabel.l=1.25)

orthogram(palm$traits[,4],palm.phy$Bscores)
dotchart.phylog(palm.phy,palm$traits[,4], clabel.l = 1,
 labels.n = palm.phy$Blabels, clabel.n = 0.75)
w <- cbind.data.frame(palm.phy$Bscores[,c(3,4,6,13,21)],
 scalewt((palm$traits[,4])))
names(w)[6] <- names(palm$traits[4])
table.phylog(w, palm.phy, clabel.r = 0.75, f = 0.5)

gearymoran(palm.phy$Amat, palm$traits[,-c(1,3)])
# }