calcDstRF: Calculate the Robinson-Foulds distance between two trees

In treeman: Phylogenetic Tree Manipulation Class and Methods

Description

Returns the Robinson-Foulds distance between two trees.

Usage

calcDstRF(tree_1, tree_2, nrmlsd = FALSE)

Arguments

tree_1	TreeMan object
tree_2	TreeMan object
nrmlsd	Boolean, should returned value be between 0 and 1? Default, FALSE.

Details

RF distance is calculated as the sum of partitions in one tree that are not shared by the other. The maximum number of split differences is the total number of nodes in both trees (excluding the roots). Trees are assumed to be bifurcating, this is not tested. The metric is calculated as if trees are unrooted. Parallelizable.

References

Robinson, D. R.; Foulds, L. R. (1981). "Comparison of phylogenetic trees". Mathematical Biosciences 53: 131-147.

See Also

calcDstBLD, calcDstTrp https://github.com/DomBennett/treeman/wiki/calc-methods

Examples

library(treeman)
tree_1 <- randTree(10)
tree_2 <- randTree(10)
calcDstRF(tree_1, tree_2)

Example output

[1] 16

treeman documentation built on July 8, 2020, 7:28 p.m.