Phylogenetic estimation with partial likelihood tensors

Details Phylogenetic estimation with partial likelihood tensors Phylogenetic estimation with partial likelihood tensors

2008-07-22

arxiv.org/abs/0807.3387v1

Biology

Quantitative Biology

Quantitative Methods

20 pages, 7 figures, 3 tables

Scientific paper

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.

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