71 citations · 183 across the 34 of their papers we have counts for
5 papers · 1 filter
Circular genome rearrangement models: applying representation theory to evolutionary distance calculations
Venta Terauds, Jeremy Sumner
We investigate the symmetry of circular genome rearrangement models, discuss the implementation of a new representation-theoretic method of calculating evolutionary distances betwe…
Exploring the consequences of lack of closure in codon models
Michael D. Woodhams, Jeremy G. Sumner, David A. Liberles +2
Models of codon evolution are commonly used to identify positive selection. Positive selection is typically a heterogeneous process, i.e., it acts on some branches of the evolution…
Distinguishing between convergent evolution and violation of the molecular clock
Jonathan D. Mitchell, Jeremy G. Sumner, Barbara R. Holland
We give a non-technical introduction to convergence-divergence models, a new modeling approach for phylogenetic data that allows for the usual divergence of species post speciation…
Lie-Markov models derived from finite semigroups
Jeremy G. Sumner, Michael D. Woodhams
We present and explore a general method for deriving a Lie-Markov model from a finite semigroup. If the degree of the semigroup is , the resulting model is a continuous-time Mar…
Multiplicatively closed Markov models must form Lie algebras
Jeremy G Sumner
We prove that the probability substitution matrices obtained from a continuous-time Markov chain form a multiplicatively closed set if and only if the rate matrices associated to t…