Related papers: A Short Note on Undirected Fitch Graphs
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.…
Several implicit methods to infer Horizontal Gene Transfer (HGT) focus on pairs of genes that have diverged only after the divergence of the two species in which the genes reside. This situation defines the edge set of a graph, the…
The modular decomposition of a symmetric map $\delta\colon X\times X \to \Upsilon$ (or, equivalently, a set of symmetric binary relations, a 2-structure, or an edge-colored undirected graph) is a natural construction to capture key features…
We classify the countable homogeneous coloured multipartite graphs with any finite number of parts. By Fraisse's Theorem this amounts to classifying the families F of pairwise non-embeddable finite coloured multipartite graphs for which the…
Horizontal gene transfer events partition a gene tree $T$ and thus, its leaf set into subsets of genes whose evolutionary history is described by speciation and duplication events alone. Indirect phylogenetic methods can be used to infer…
Without imposing restrictions on a weighted graph's arc lengths, symmetry structures cannot be expected. But, they exist. To find them, the graphs are decomposed into a component that dictates all closed path properties (e.g., shortest and…
This work provides a structural characterisation of hereditary graph classes that do not contain a star forest, several graphs obtained from star forests by subset complementation, a union of cliques, and the complement of a union of…
A unit disk graph is the intersection graph of disks of equal radii in the plane. The class of unit disk graphs is hereditary, and therefore admits a characterization in terms of minimal forbidden induced subgraphs. In spite of quite active…
A theorem of Kontsevich relates the homology of certain infinite dimensional Lie algebras to graph homology. We formulate this theorem using the language of reversible operads and mated species. All ideas are explained using a pictorial…
We construct and study a class of algebras associated to generalized layered graphs, i.e. directed graphs with a ranking function on their vertices. Each finite directed acyclic graph admits countably many structures of a generalized…
An $(m,n)$-mixed graph generalizes the notions of oriented graphs and edge-coloured graphs to a graph object with $m$ arc types and $n$ edge types. A simple colouring of such a graph is a non-trivial homomorphism to a reflexive target. We…
We define a grid presentation for singular links i.e. links with a finite number of rigid transverse double points. Then we use it to generalize link Floer homology to singular links. Besides the consistency of its definition, we prove that…
The traditional adjacency matrix of a mixed graph is not symmetric in general, hence its eigenvalues may be not real. To overcome this obstacle, several authors have recently defined and studied various Hermitian adjacency matrices of…
We exhibit the joint symmetric distribution of the following two parameters on the set of unlabeled, simple, connected graphs with $n$ vertices. The first parameter is the maximal number of leaves attached to a vertex. The second parameter…
A graph with degree sequence $\pi$ is a \emph{unigraph} if it is isomorphic to every graph that has degree sequence $\pi$. The class of unigraphs is not hereditary and in this paper we study the related hereditary class HCU, the hereditary…
Graphs can have different properties that lead to several graph types and may allow for a varying representation of diverse information. In order to clarify the modeling power of graphs, we introduce a partial order on the most common graph…
Recent years have witnessed fast developments of graph neural networks (GNNs) that have benefited myriad graph analytic tasks and applications. Most GNNs rely on the homophily assumption that nodes belonging to the same class are more…
In the theory of line graphs of undirected graphs there exists an important theorem linking the incidence matrix of the root graph to the adjacency matrix of its line graph. For directed or mixed graphs, however, the exists no analogous…
An inaccessible, vertex transitive, locally finite graph is described. This graph is not quasi-isometric to a Cayley graph.
The paper is devoted to differential geometric invariants determining a Frenet curve in up to a direct similarity These invariants can be presented by the Euclidean curvatures in terms of an arc lengths of the spherical indicatrices. Then,…