d3.dist {treeClust}

D3-style dissimilarity for a single tree

Description

Compute the set of pairwise dissimilarities across all observations in a tree. Each dissimilarity measures the extent to which observations are "far apart" in the tree: the dissimilarity is 0 if the pair land in the same leaf, 1 if they land on leaves that have only the root as common ancestors, and otherwise something intermediate.

Usage

d3.dist(mytree, return.pd = FALSE)

Arguments

mytree

Output from "tree"

return.pd

If TRUE return the matrix of pairwise distances among leaves. Useful for debugging. Default FALSE.

Details

Two observations have distance 0 if they fall in the same leaf; otherwise, the distance measures the ratio of the deviance of a tree trimmed so that they do fall in the same leaf to the deviance of the original tree.

Value

Item of class "dist" giving inter-point distances.

Author(s)

Sam Buttrey

See Also

treeClust