rquartet {treestats}

Rquartet index.

Description

The rquartet index counts the number of potential fully balanced rooted subtrees of 4 tips in the tree. The function in treestats assumes a bifurcating tree. For trees with polytomies, we refer the user to treebalance::rquartedI, which can also take polytomies into account.

Usage

rquartet(phy, normalization = "none")

Arguments

phy

phylo object or ltable

normalization

The index can be normalized by the expectation under the Yule ("yule") or PDA model ("pda").

Value

rquartet index

References

T. M. Coronado, A. Mir, F. Rosselló, and G. Valiente. A balance index for phylogenetic trees based on rooted quartets. Journal of Mathematical Biology, 79(3):1105-1148, 2019. doi: 10.1007/s00285-019-01377-w.