Related papers: From Modular Decomposition Trees to Rooted Median …
We study an abstract notion of tree structure which lies at the common core of various tree-like discrete structures commonly used in combinatorics: trees in graphs, order trees, nested subsets of a set, tree-decompositions of graphs and…
Trees have long been used as a graphical representation of species relationships. However complex evolutionary events, such as genetic reassortments or hybrid speciations which occur commonly in viruses, bacteria and plants, do not fit into…
We consider unimodular random rooted trees (URTs) and invariant forests in Cayley graphs. We show that URTs of bounded degree are the same as the law of the component of the root in an invariant percolation on a regular tree. We use this to…
In this paper we are interested in decomposing a dihypergraph $\mathcal{H} = (V, \mathcal{E})$ into simpler dihypergraphs, that can be handled more efficiently. We study the properties of dihypergraphs that can be hierarchically decomposed…
A multilabeled tree (or MUL-tree) is a rooted tree in which every leaf is labelled by an element from some set, but in which more than one leaf may be labelled by the same element of that set. In phylogenetics, such trees are used in…
Physical phenomena in science and engineering are frequently modeled using scalar fields. In scalar field topology, graph-based topological descriptors such as merge trees, contour trees, and Reeb graphs are commonly used to characterize…
For a graph G, the generating function of rooted forests, counted by the number of connected components, can be expressed in terms of the eigenvalues of the graph Laplacian. We generalize this result from graphs to cell complexes of…
In Chapter 1 we fully characterise pairs of finite graphs which form a gap in the full homomorphism order. This leads to a simple proof of the existence of generalised duality pairs. We also discuss how such results can be carried to…
We consider the class of graphs for which the edge connectivity is equal to the maximum number of edge-disjoint spanning trees, and the natural generalization to matroids, where the cogirth is equal to the number of disjoint bases. We…
Quasi-trees generalize trees in that the unique "path" between two nodes may be infinite and have any countable order type. They are used to define the rank-width of a countable graph in such a way that it is equal to the least upper-bound…
The algebraic approach to the construction of the reflexive polyhedra that yield Calabi-Yau spaces in three or more complex dimensions with K3 fibres reveals graphs that include and generalize the Dynkin diagrams associated with gauge…
Tree-based networks are a class of phylogenetic networks that attempt to formally capture what is meant by "tree-like" evolution. A given non-tree-based phylogenetic network, however, might appear to be very close to being tree-based, or…
Many multivariate data such as social and biological data exhibit complex dependencies that are best characterized by graphs. Unlike sequential data, graphs are, in general, unordered structures. This means we can no longer use classic,…
A topological mating is a map defined by gluing together the filled Julia sets of two quadratic polynomials. The identifications are visualized and understood by pinching ray-equivalence classes of the formal mating. For postcritically…
A permutation graph is a graph whose edges are given by inversions of a permutation. We study the Abelian sandpile model (ASM) on such graphs. We exhibit a bijection between recurrent configurations of the ASM on permutation graphs and the…
Graph decompositions are the natural generalisation of tree decompositions where the decomposition tree is replaced by a genuine graph. Recently they found theoretical applications in the theory of sparsity, topological graph theory,…
Split decomposition of graphs was introduced by Cunningham (under the name join decomposition) as a generalization of the modular decomposition. This paper undertakes an investigation into the algorithmic properties of split decomposition.…
One perspective on tree decompositions is that they display (low-order) separations of the underlying graph or matroid. The separations displayed by a tree decomposition are necessarily nested. In 2013, Clark and Whittle proved the…
A chief problem in phylogenetics and database theory is the computation of a maximum consistent tree from a set of rooted or unrooted trees. A standard input are triplets, rooted binary trees on three leaves, or quartets, unrooted binary…
We compare the phylogenetic tensors for various trees and networks for two, three and four taxa. If the probability spaces between one tree or network and another are not identical then there will be phylogenetic tensors that could have…