NJTree: Generate a neighbour joining tree

In TreeTools: Create, Modify and Analyse Phylogenetic Trees

Generate a neighbour joining tree

Description

NJTree() generates a rooted neighbour joining tree from a phylogenetic dataset.

Usage

NJTree(dataset, edgeLengths = FALSE, ratio = TRUE, ambig = "mean")

Arguments

dataset	A phylogenetic data matrix of phangorn class phyDat, whose names correspond to the labels of any accompanying tree.
edgeLengths	Logical specifying whether to include edge lengths.
ambig, ratio	Settings of ambig and ratio to be used when computing Hamming() distances between sequences.

Value

NJTree returns an object of class phylo.

Author(s)

Martin R. Smith ([e-mail])

See Also

Other tree generation functions: ConstrainedNJ(), GenerateTree, TreeNumber, TrivialTree

Examples

data("Lobo")
NJTree(Lobo.phy)

TreeTools documentation built on June 22, 2024, 9:27 a.m.