Related papers: Generalized Fitch Graphs: Edge-labeled Graphs that…
An edge-locating coloring of a simple connected graph $G$ is a partition of its edge set into matchings such that the vertices of $G$ are distinguished by the distance to the matchings. The minimum number of the matchings of $G$ that admits…
Let ${\cal G}=(G,w)$ be a weighted simple finite connected graph, that is, let $G$ be a simple finite connected graph endowed with a function $w$ from the set of the edges of $G$ to the set of real numbers. For any subgraph $G'$ of $G$, we…
The isomorphism problem of Cayley graphs has been well studied in the literature, such as characterizations of CI (DCI)-graphs and CI (DCI)-groups. In this paper, we generalize these to vertex-transitive graphs and establish parallel…
This paper presents a study on two data structures that have been used to model several problems in computer science: and/or graphs and x-y graphs. An and/or graph is an acyclic digraph containing a source, such that every vertex v has a…
In evolutionary studies it is common to use phylogenetic trees to represent the evolutionary history of a set of species. However, in case the transfer of genes or other genetic information between the species or their ancestors has…
In the CHY-frame for the tree-level amplitudes, the bi-adjoint scalar theory has played a fundamental role because it gives the on-shell Feynman diagrams for all other theories. Recently, an interesting generalization of the bi-adjoint…
The exponential family of random graphs represents an important and challenging class of network models. Despite their flexibility, conventionally used exponential random graphs have one shortcoming. They cannot directly model weighted…
Recently, so-called treebased phylogenetic networks have gained considerable interest in the literature, where a treebased network is a network that can be constructed from a phylogenetic tree, called the base tree, by adding additional…
Orthology and paralogy relations are often inferred by methods based on gene similarity, which usually yield a graph depicting the relationships between gene pairs. Such relation graphs are known to frequently contain errors, as they cannot…
Given a graph, we associate each edge with the transposition which exchanges the endvertices. Fixing a linear order on the edge set, we obtain a permutation of the vertices. D\'enes proved that the permutation is a full cyclic permutation…
In phylogenetics, evolution is traditionally represented in a tree-like manner. However, phylogenetic networks can be more appropriate for representing evolutionary events such as hybridization, horizontal gene transfer, and others. In…
Let $\mathcal{X}$ and $\mathcal{Y}$ be finite alphabets and $P_{XY}$ a joint distribution over them, with $P_X$ and $P_Y$ representing the marginals. For any $\epsilon > 0$, the set of $n$-length sequences $x^n$ and $y^n$ that are jointly…
Let $G$ be a graph with vertex set $V(G)$ and edge set $E(G)$, and $f$ be a 0-1 labeling of $E(G)$ so that the absolute difference in the number of edges labeled 1 and 0 is no more than one. Call such a labeling $f$ \emph{edge-friendly}. We…
Phylogenetic trees and networks are leaf-labelled graphs used to model evolution. Display graphs are created by identifying common leaf labels in two or more phylogenetic trees or networks. The treewidth of such graphs is bounded as a…
Deciding whether there is a single tree -a supertree- that summarizes the evolutionary information in a collection of unrooted trees is a fundamental problem in phylogenetics. We consider two versions of this question: agreement and…
The aim of this chapter is to provide an adequate graph theoretic framework for the description of periodic bifurcations which have recently been discovered in descendant trees of finite p-groups. The graph theoretic concepts of rooted…
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 tree-confluent graphs to a broader class of graphs called Delta-confluent graphs. This class of graphs and distance-hereditary graphs, a well-known class of graphs, coincide. Some results about the visualization of…
A graph is a $k$-leaf power of a tree $T$ if its vertices are leaves of $T$ and two vertices are adjacent in $T$ if and only if their distance in $T$ is at most $k$. Then $T$ is a $k$-leaf root of $G$. This notion was introduced by…
Given graphs $X$ and $Y$ with vertex sets $V(X)$ and $V(Y)$ of the same cardinality, we define a graph $\mathsf{FS}(X,Y)$ whose vertex set consists of all bijections $\sigma:V(X)\to V(Y)$, where two bijections $\sigma$ and $\sigma'$ are…