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Phylogenetic estimation with partial likelihood tensors


Sumner, JG and Charleston, M, Phylogenetic estimation with partial likelihood tensors, Journal of Theoretical Biology: An International Multidisciplinary Journal, 262, (3) pp. 413-424. ISSN 0022-5193 (2010) [Refereed Article]

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DOI: doi:10.1016/j.jtbi.2009.09.037


We present an alternative method for calculating likelihoods in molecular phylogenetics. Our method is based on partial likelihood tensors, which are generalizations of partial likelihood vectors, as used in Felsenstein's approach. Exploiting a lexicographic sorting and partial likelihood tensors, it is possible to obtain significant computational savings. We show this on a range of simulated data by enumerating all numerical calculations that are required by our method and the standard approach

Item Details

Item Type:Refereed Article
Keywords:Phylogenetics; Maximum likelihood; Computational complexity; Tensors
Research Division:Mathematical Sciences
Research Group:Applied mathematics
Research Field:Biological mathematics
Objective Division:Expanding Knowledge
Objective Group:Expanding knowledge
Objective Field:Expanding knowledge in the mathematical sciences
UTAS Author:Sumner, JG (Associate Professor Jeremy Sumner)
ID Code:65026
Year Published:2010
Web of Science® Times Cited:6
Deposited By:Mathematics and Physics
Deposited On:2010-09-28
Last Modified:2012-01-20

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