Related papers: Toric Multivariate Gaussian Models from Symmetries…
Felsenstein's classical model for Gaussian distributions on a phylogenetic tree is shown to be a toric variety in the space of concentration matrices. We present an exact semialgebraic characterization of this model, and we demonstrate how…
Conditional independence models in the Gaussian case are algebraic varieties in the cone of positive definite covariance matrices. We study these varieties in the case of Bayesian networks, with a view towards generalizing the recursive…
In this paper we study linear non-Gaussian graphical models from the perspective of algebraic statistics. These are acyclic causal models in which each variable is a linear combination of its direct causes and independent noise. The…
Statistical models of evolution are algebraic varieties in the space of joint probability distributions on the leaf colorations of a phylogenetic tree. The phylogenetic invariants of a model are the polynomials which vanish on the variety.…
A Brownian motion tree (BMT) model is a Gaussian model whose associated set of covariance matrices is linearly constrained according to common ancestry in a phylogenetic tree. We study the complexity of inferring the maximum likelihood (ML)…
Richardson varieties are obtained as intersections of Schubert and opposite Schubert varieties. We provide a new family of toric degenerations of Richardson varieties inside Grassmannians by studying Gr\"obner degenerations of their…
We show that the toric ideal of a lattice path polymatroid is generated by quadrics corresponding to symmetric exchanges, and give a monomial order under which these quadrics form a Gr\"obner basis. We then obtain an analogous result for…
We investigate Gauss maps of (not necessarily normal) projective toric varieties over an algebraically closed field of arbitrary characteristic. The main results are as follows: (1) The structure of the Gauss map of a toric variety is…
We address the problem of studying the toric ideals of phylogenetic invariants for a general group-based model on an arbitrary claw tree. We focus on the group $\mathbb Z_2$ and choose a natural recursive approach that extends to other…
Gaussian graphical models are semi-algebraic subsets of the cone of positive definite covariance matrices. They are widely used throughout natural sciences, computational biology and many other fields. Computing the vanishing ideal of the…
In 1998, B\"{o}cker and Dress gave a 1-to-1 correspondence between symbolically dated rooted trees and symbolic ultrametrics. We consider the corresponding problem for unrooted trees. More precisely, given a tree $T$ with leaf set $X$ and a…
Coloured probability tree models are statistical models coding conditional independence between events depicted in a tree graph. They are more general than the very important class of context-specific Bayesian networks. In this paper, we…
In this thesis we study toric degenerations of projective varieties. We compare different constructions to understand how and why they are related as s first step towards developing a global framework. In focus are toric degenerations…
Given a vertex-weighted oriented graph, we can associate to it a set of monomials. We consider the toric ideal whose defining map is given by these monomials. We find a generating set for the toric ideal for certain classes of graphs which…
We consider the phylogenetic tree model in which every node of the tree is observed and binary and the transitions are given by the same matrix on each edge of the tree. We are able to compute the Grobner basis and Markov basis of the toric…
We study the algebraic combinatorics of monomial degenerations of Pl\"ucker forms which is governed by matching fields in the sense of Sturmfels and Zelevinsky. We provide a necessary condition for a matching field to yield a Khovanskii…
We provide a complete description of possible covariance matrices consistent with a Gaussian latent tree model for any tree. We then present techniques for utilising these constraints to assess whether observed data is compatible with that…
Blasiak verified a conjecture of White for graphic matroids by showing that the toric ideal of a graphic matroid is generated by quadrics. In this paper, we extend this result to frame matroids satisfying a linearity condition. Such classes…
We show that the isolated invariant branches globalize to algebraic curves, when we consider weak toric type complex hyperbolic foliations on projective toric ambient surfaces. To do it, we pass through a characterization of weak toric type…
The classical matrix tree theorem relates the number of spanning trees of a connected graph with the product of the nonzero eigenvalues of its Laplacian matrix. The class of regular matroids generalizes that of graphical matroids, and a…