Low degree equations for phylogenetic group-based models
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Publication:2345583
Abstract: Motivated by phylogenetics, our aim is to obtain a system of equations that define a phylogenetic variety on an open set containing the biologically meaningful points. In this paper we consider phylogenetic varieties defined via group-based models. For any finite abelian group , we provide an explicit construction of phylogenetic invariants (polynomial equations) of degree at most that define the variety on a Zariski open set . The set contains all biologically meaningful points when is the group of the Kimura 3-parameter model. In particular, our main result confirms a conjecture by the third author and, on the set , a couple of conjectures by Bernd Sturmfels and Seth Sullivant.
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Cited in
(16)- Distance to the stochastic part of phylogenetic varieties
- Hilbert polynomial of the Kimura 3-parameter model
- Local equations for equivariant evolutionary models
- Maximum likelihood estimation of symmetric group-based models via numerical algebraic geometry
- Computing algebraic degrees of phylogenetic varieties
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