Related papers: From Modular Decomposition Trees to Rooted Median …

We define a graph Laplacian with vertex weights in addition to the more classical edge weights, which unifies the combinatorial Laplacian and the normalised Laplacian. Moreover, we give a combinatorial interpretation for the coefficients of…

The displayed tree phylogenetic network model is shown to sit as a natural submodel of the graphical model associated to a directed acyclic graph (DAG). This representation allows to derive a number of results about the displayed tree…

We generalize the concept of ascending and descending runs from permutations to rooted labelled trees and mappings, i.e., functions from the set $\{1, \dots, n\}$ into itself. A combinatorial decomposition of the corresponding functional…

In mathematical phylogenetics, evolutionary relationships are often represented by trees and networks. The latter are typically used whenever the relationships cannot be adequately described by a tree, which happens when so-called…

Given a semistable degeneration with a simple normal crossings central fiber, Abramovich-Chen-Gross-Siebert [3] proved a degeneration formula that relates the moduli spaces of stable maps in smooth fibers to certain moduli spaces of…

A geophylogeny is a phylogenetic tree (or dendrogram) where each leaf (e.g. biological taxon) has an associated geographic location (site). To clearly visualize a geophylogeny, the tree is typically represented as a crossing-free drawing…

The canonical tree-decomposition theorem, given by Robertson and Seymour in their seminal graph minors series, turns out to be one of the most important tool in structural and algorithmic graph theory. In this paper, we provide the…

We characterize the compatibility of a collection of unrooted phylogenetic trees as a question of determining whether a graph derived from these trees --- the display graph --- has a specific kind of triangulation, which we call legal. Our…

We introduce and study "2-roots", which are symmetrized tensor products of orthogonal roots of Kac--Moody algebras. We concentrate on the case where $W$ is the Weyl group of a simply laced Y-shaped Dynkin diagram $Y_{a,b,c}$ having $n$…

Best match graphs (BMGs) are vertex-colored digraphs that naturally arise in mathematical phylogenetics to formalize the notion of evolutionary closest genes w.r.t. an a priori unknown phylogenetic tree. BMGs are explained by unique least…

We are interested in the problem of translating between two representations of closure systems, namely implicational bases and meet-irreducible elements. Albeit its importance, the problem is open. Motivated by this problem, we introduce…

We generalize the problem of reconstructing strings from their substring compositions first introduced by Acharya et al. in 2015 motivated by polymer-based advanced data storage systems utilizing mass spectrometry. Namely, we see strings as…

It is known for many algorithmic problems that if a tree decomposition of width $t$ is given in the input, then the problem can be solved with exponential dependence on $t$. A line of research by Lokshtanov, Marx, and Saurabh [SODA 2011]…

Forbidden characterizations may sometimes be the most natural way to describe families of graphs, and yet these characterizations are usually very hard to exploit for enumerative purposes. By building on the work of Gioan and Paul (2012)…

We extend to infinite graphs the matroidal characterization of finite graph duality, that two graphs are dual iff they have complementary spanning trees in some common edge set. The naive infinite analogue of this fails. The key in an…

A paradigm that was successfully applied in the study of both pure and algorithmic problems in graph theory can be colloquially summarized as stating that "any graph is close to being the disjoint union of expanders". Our goal in this paper…

We extend the notion of graph homomorphism to cellularly embedded graphs (maps) by designing operations on vertices and edges that respect the surface topology; we thus obtain the first definition of map homomorphism that preserves both the…

We introduce the notion of doubly rooted plane trees and give a decomposition of these trees, called the butterfly decomposition which turns out to have many applications. From the butterfly decomposition we obtain a one-to-one…

For a zero-relation algebra over a field $\mathcal K$, Crawley-Boevey introduced the concept of a tree module and provided a combinatorial description of a basis for the space of homomorphisms between two tree modules--the basis elements…

Merge trees, contour trees, and Reeb graphs are graph-based topological descriptors that capture topological changes of (sub)level sets of scalar fields. Comparing scalar fields using their topological descriptors has many applications in…