phangorn (version 2.12.1)

NJ: Neighbor-Joining

Description

This function performs the neighbor-joining tree estimation of Saitou and Nei (1987). UNJ is the unweighted version from Gascuel (1997).

Usage

NJ(x)
UNJ(x)

Value

an object of class "phylo".

Arguments

x

A distance matrix.

Author

Klaus P. Schliep

References

Saitou, N. and Nei, M. (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Molecular Biology and Evolution, 4, 406--425.

Studier, J. A and Keppler, K. J. (1988) A Note on the Neighbor-Joining Algorithm of Saitou and Nei. Molecular Biology and Evolution, 6, 729--731.

Gascuel, O. (1997) Concerning the NJ algorithm and its unweighted version, UNJ. in Birkin et. al. Mathematical Hierarchies and Biology, 149--170.

See Also

nj, dist.dna, dist.hamming, upgma, fastme

Examples

data(Laurasiatherian)
dm <- dist.ml(Laurasiatherian)
tree <- NJ(dm)
plot(tree)