Publication:1024193

DOI10.1007/S00208-008-0320-6zbMATH Open1398.62338arXiv0712.3230OpenAlexW2114093317MaRDI QIDQ1024193FDOQ1024193

Jochen Kuttler, Jan Draisma

Publication date: 16 June 2009

Published in: Mathematische Annalen (Search for Journal in Brave)

Abstract: We introduce equivariant tree models in algebraic statistics, which unify and generalise existing tree models such as the general Markov model, the strand symmetric model, and group based models. We focus on the ideals of such models. We show how the ideals for general trees can be determined from the ideals for stars. The main novelty is our proof that this procedure yields the entire ideal, not just an ideal defining the model set-theoretically. A corollary of theoretical importance is that the ideal for a general tree is generated by the ideals of its flattenings at vertices.

Full work available at URL: https://arxiv.org/abs/0712.3230

Mathematics Subject Classification ID

Applications of Markov chains and discrete-time Markov processes on general state spaces (social mobility, learning theory, industrial processes, etc.) (60J20) Applications of statistics to biology and medical sciences; meta analysis (62P10) Geometric probability and stochastic geometry (60D05)

Cites Work

• Title not available (Why is that?)
• Title not available (Why is that?)
• Title not available (Why is that?)
• Title not available (Why is that?)
• Algebraic Statistics for Computational Biology
• Algebraic algorithms for sampling from conditional distributions
• Invariants of some probability models used in phylogenetic inference
• Phylogenetic ideals and varieties for the general Markov model
• The Strand Symmetric Model
• Toric Ideals of Phylogenetic Invariants
• On geometry of binary symmetric models of phylogenetic trees
• On the ideals of secant varieties of Segre varieties
• Algebraic geometry of Bayesian networks
• On the ideals and singularities of secant varieties of Segre varieties
• Geometry of the Kimura 3-parameter model

Cited In (34)

• MULTIPLICATIVELY CLOSED MARKOV MODELS MUST FORM LIE ALGEBRAS
• Gorenstein property for phylogenetic trivalent trees
• Distance to the stochastic part of phylogenetic varieties
• Local equations for equivariant evolutionary models
• Lie-Markov models derived from finite semigroups
• When is a polynomial ideal binomial after an ambient automorphism?
• Gröbner bases for staged trees
• Systematics and symmetry in molecular phylogenetic modelling: perspectives from physics
• Rank conditions on phylogenetic networks
• Matrix group structure and Markov invariants in the strand symmetric phylogenetic substitution model
• A novel algebraic approach to time-reversible evolutionary models
• Uniformization Stable Markov Models and Their Jordan Algebraic Structure
• Invariants for level-1 phylogenetic networks under the Cavendar-Farris-Neyman model
• Embeddability of Kimura 3ST Markov matrices
• Relevant phylogenetic invariants of evolutionary models
• Finite phylogenetic complexity of \(\mathbb{Z}_p\) and invariants for \(\mathbb{Z}_3\)
• Phylogenetic invariants for \(\mathbb{Z}_3\) scheme-theoretically
• Newton trees for ideals in two variables and applications
• Symmetric polynomials and nonfinitely generated \(\mathrm{Sym}(\mathbb{N})\)-invariant ideals
• Bounded-rank tensors are defined in bounded degree
• Normality of the Kimura 3-Parameter Model
• Geometry of phylogenetic group-based models
• Phylogenetic reconstruction based on algebra
• Generating Markov evolutionary matrices for a given branch length
• Lie Markov models
• Developing a statistically powerful measure for quartet tree inference using phylogenetic identities and Markov invariants
• Dimensional reduction for the general Markov model on phylogenetic trees
• Brownian motion tree models are toric
• Lie Markov models with purine/pyrimidine symmetry
• Tensors of nonnegative rank two
• Arrangements, matroids and logarithmic vector fields. Abstracts from the workshop held June 16--21, 2024
• Phylogenetic complexity of the Kimura 3-parameter model
• Finiteness results for abelian tree models
• Low degree equations for phylogenetic group-based models

This page was built for publication: On the ideals of equivariant tree models

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q1024193)