Neighbor-Joining

Tree reconstruction method [1] using a distance matrix like that produced by ProtDist.

References

1. Saitou N and Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 1987 Jul;4(4):406-25.
2. Tateno Y, Takezaki N, and Nei M. Relative efficiencies of the maximum-likelihood, neighbor-joining, and maximum-parsimony methods when substitution rate varies with site. Mol Biol Evol. 1994 Mar;11(2):261-77.
3. Pearson WR, Robins G, and Zhang T. Generalized neighbor-joining: more reliable phylogenetic tree reconstruction. Mol Biol Evol. 1999 Jun;16(6):806-16.
4. Tamura K, Nei M, and Kumar S. Prospects for inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci U S A. 2004 Jul 27;101(30):11030-5. DOI:10.1073/pnas.0404206101 |
5. Gascuel O and Steel M. Neighbor-joining revealed. Mol Biol Evol. 2006 Nov;23(11):1997-2000. DOI:10.1093/molbev/msl072 |