maples | R Documentation |
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.
tithonia
is a list containing the 2 following objects : -
tre: a character string giving the phylogenetic tree in Newick format.
-
tab: a data frame with 17 species and 31 traits.
This dataset replaces the former version in ade4.
Ackerly, D. D. and Donoghue, M.J. (1998) Leaf size, sappling allometry, and Corner's rules: phylogeny and correlated evolution in Maples (Acer). American Naturalist, 152, 767–791.
## Not run: if(require(ape) && require(phylobase)){ data(maples) ## see the tree tre <- read.tree(text=maples$tre) plot(tre) axisPhylo() ## look at two variables dom <- maples$tab$Dom bif <- maples$tab$Bif plot(bif,dom,pch = 20) abline(lm(dom~bif)) # a strong negative correlation ? summary(lm(dom~bif)) cor.test(bif,dom) ## look at the two variables onto the phylogeny temp <- phylo4d(tre, data.frame(dom,bif, row.names=tre$tip.label)) table.phylo4d(temp) # correlation is strongly linked to phylogeny ## use ape's PIC (phylogenetic independent contrasts) pic.bif <- pic(bif, tre) pic.dom <- pic(dom, tre) cor.test(pic.bif, pic.dom) # correlation is no longer significant } ## End(Not run)
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