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Tree representations of (sets of) symmetric binary relations, or equivalently edge-colored undirected graphs, are of central interest, e.g.\ in phylogenomics. In this context symbolic ultrametrics play a crucial role. Symbolic ultrametrics…
A trivalent diagram is a connected, two-colored bipartite graph (parallel edges allowed but not loops) such that every black vertex is of degree 1 or 3 and every white vertex is of degree 1 or 2, with a cyclic order imposed on every set of…
We characterize the generating function of bipartite planar maps counted according to the degree distribution of their black and white vertices. This result is applied to the solution of the hard particle and Ising models on random planar…
Dependency trees have proven to be a very successful model to represent the syntactic structure of sentences of human languages. In these structures, vertices are words and edges connect syntactically-dependent words. The tendency of these…
We provide linear-time algorithms for geometric graphs with sublinearly many crossings. That is, we provide algorithms running in O(n) time on connected geometric graphs having n vertices and k crossings, where k is smaller than n by an…
Trellises are crucial graphical representations of codes. While conventional trellises are well understood, the general theory of (tail-biting) trellises is still under development. Iterative decoding concretely motivates such theory. In…
Temporal graphs are a special class of graphs for which a temporal component is added to edges, that is, each edge possesses a set of times at which it is available and can be traversed. Many classical problems on graphs can be translated…
Tree decompositions were developed by Robertson and Seymour. Since then algorithms have been developed to solve intractable problems efficiently for graphs of bounded treewidth. In this paper we extend tree decompositions to allow cycles to…
The task of finding an extension to a given partial drawing of a graph while adhering to constraints on the representation has been extensively studied in the literature, with well-known results providing efficient algorithms for…
In this work, we answer an open problem in the study of phylogenetic networks. Phylogenetic trees are rooted binary trees in which all edges are directed away from the root, whereas phylogenetic networks are rooted acyclic digraphs. For the…
We present simpler algorithms for two closely related morphing problems, both based on the barycentric interpolation paradigm introduced by Floater and Gotsman, which is in turn based on Floater's asymmetric extension of Tutte's classical…
THIS IS A CORRECTED VERSION INCLUDING AN APPENDED CORRIGENDUM. Best match graphs arise naturally as the first processing intermediate in algorithms for orthology detection. Let $T$ be a phylogenetic (gene) tree $T$ and $\sigma$ an…
Phylogenetic networks generalise phylogenetic trees and allow for the accurate representation of the evolutionary history of a set of present-day species whose past includes reticulate events such as hybridisation and lateral gene transfer.…
Understanding spatial correlation is vital in many fields including epidemiology and social science. Lee, Meeks and Pettersson (Stat. Comput. 2021) recently demonstrated that improved inference for areal unit count data can be achieved by…
Given a $\{0,1\}$-matrix $M$, the graph realization problem for $M$ asks if there exists a spanning forest such that the columns of $M$ are incidence vectors of paths in the forest. The problem is closely related to the recognition of…
Phylogenetic (evolutionary) trees and networks are leaf-labeled graphs that are widely used to represent the evolutionary relationships between entities such as species, languages, cancer cells, and viruses. To reconstruct and analyze…
We study triangle decompositions of graphs. We consider constructions of classes of graphs where every edge lies on a triangle and the addition of the minimum number of multiple edges between already adjacent vertices results in a strongly…
Let $G$ be a connected planar (but not yet embedded) graph and $F$ a set of additional edges not yet in $G$. The {multiple edge insertion} problem (MEI) asks for a drawing of $G+F$ with the minimum number of pairwise edge crossings, such…
Model trees provide an appealing way to perform interpretable machine learning for both classification and regression problems. In contrast to ``classic'' decision trees with constant values in their leaves, model trees can use linear…
It is a classical result that an unrooted tree $T$ having positive real-valued edge lengths and no vertices of degree two can be reconstructed from the induced distance between each pair of leaves. Moreover, if each non-leaf vertex of $T$…