R: Phylogeny and quantitative traits of flowers

maples {ade4} | R Documentation

## Phylogeny and quantitative traits of flowers

### Description

This data set describes the phylogeny of 17 flowers as reported by Ackerly and Donoghue (1998). It also gives 31 traits corresponding to these 17 species.

### Usage

    data(maples)

### Format

`tithonia` 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 17 species and 31 traits

### References

Ackerly, D. D. and Donoghue, M.J. (1998) Leaf size, sapling allometry, and Corner's rules: phylogeny and correlated evolution in Maples (Acer). American Naturalist, 152, 767–791.

### Examples

    data(maples)
    phy <- newick2phylog(maples$tre)
    dom <- maples$tab$Dom
    bif <- maples$tab$Bif
    if (requireNamespace("adephylo", quietly = TRUE) & requireNamespace("ape", quietly = TRUE)) {
      phylo <- ape::read.tree(text = maples$tre)
      adephylo::orthogram(dom, tre = phylo)
      adephylo::orthogram(bif, tre = phylo)
      par(mfrow = c(1, 2))
      dotchart.phylog(phy, dom)
      dotchart.phylog(phy, bif, clabel.nodes = 0.7)
      par(mfrow = c(1, 1))
      plot(bif, dom, pch = 20)
      abline(lm(dom~bif))
      summary(lm(dom~bif))
      cor.test(bif, dom)
      pic.bif <- ape::pic(bif, phylo)
      pic.dom <- ape::pic(dom, phylo)
      cor.test(pic.bif, pic.dom)
    }

[Package ade4 version 1.7-17 Index]