Compares sister groups
Calculates the comparison of some statistic between sister groups along a phylogeny
PhyloCompare(tree, node.data, ComparisonFunc = PCAsimilarity, ...)
tree |
phylogenetic tree |
node.data |
list of node data |
ComparisonFunc |
comparison function, default is PCAsimilarity |
... |
Aditional arguments passed to ComparisonFunc |
list with a data.frame of calculated comparisons for each node, using labels or numbers from tree; and a list of comparisons for plotting using phytools (see examples)
Phylogeny must be fully resolved
Diogo Melo
library(ape) data(bird.orders) tree <- bird.orders mat.list <- RandomMatrix(5, length(tree$tip.label)) names(mat.list) <- tree$tip.label sample.sizes <- runif(length(tree$tip.label), 15, 20) phylo.state <- PhyloW(tree, mat.list, sample.sizes) phylo.comparisons <- PhyloCompare(tree, phylo.state) # plotting results on a phylogeny: ## Not run: library(phytools) plotBranchbyTrait(tree, phylo.comparisons[[2]]) ## End(Not run)
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