Related papers: Automorphisms and quotients of 2-colored quasi bes…
Quasi-best match graphs (qBMGs) are a hereditary class of directed, properly vertex-colored graphs. They arise naturally in mathematical phylogenetics as a generalization of best match graphs, which formalize the notion of evolutionary…
2-quasi best match graphs (2-qBMGs) are directed graphs that capture a notion of close relatedness in phylogenetics. Here, we investigate the undirected underlying graph of a 2-qBMG (un-2qBMG) and show that they contain neither a path $P_l$…
Bipartite best match graphs (BMG) and their generalizations arise in mathematical phylogenetics as combinatorial models describing evolutionary relationships among related genes in a pair of species. In this work, we characterize the class…
The undirected underlying graph of a 2-quasi best match graph (2-qBMG) is proven not to contain any induced graph isomorphic to $P_6$ or $C_6$. This new feature allows for the investigation of 2-BMGs further by exploiting the numerous known…
Recent investigations in computational biology focus on a family of 2-colored digraphs, called 2-colored best match graphs, which naturally arise from rooted phylogenetic trees. Actually the defining properties of such graphs are…
Recent investigations in computational biology have focused on a family of 2-colored digraphs, called 2-colored best match graphs, which naturally arise from rooted phylogenetic trees. Actually the defining properties of such graphs are…
2-colored best match graphs (2-BMGs) form a subclass of sink-free bi-transitive graphs that appears in phylogenetic combinatorics. There, 2-BMGs describe evolutionarily most closely related genes between a pair of species. They are…
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 give a combinatorial characterization of the group of quasiconformal homeomorphisms of a closed, oriented surface $S$ of genus at least $2$. In particular, we prove they are exactly the automorphisms of a graph of essential quasicircles…
In 2019, Aterias et al. constructed pairs of quantum isomorphic, non-isomorphic graphs from linear constraint systems. This article deals with quantum automorphisms and quantum isomorphisms of colored versions of those graphs. We show that…
Reciprocal best matches play an important role in numerous applications in computational biology, in particular as the basis of many widely used tools for orthology assessment. Nevertheless, very little is known about their mathematical…
The present paper constructs unbounded quasimorphisms that are invariant under all automorphisms on free products of more than two factors and on graph products of finitely generated abelian groups. This includes many classes of right…
In \cite{Oh22}, the second author defined a complex of groups decomposition of the fundamental group of a finitely generated 2-dimensional special group, called an \emph{intersection complex}, which is a quasi-isometry invariant. In this…
We describe the groups of automorphisms of two generated free braided associative algebras with involutive diagonal braidings over a field of characteristic $\neq 2$. Depending on the form of the diagonal involutive braiding, five different…
We give a general construction leading to different non-isomorphic families $\Gamma_{n,q}(\K)$ of connected $q$-regular semisymmetric graphs of order $2q^{n+1}$ embedded in $\PG(n+1,q)$, for a prime power $q=p^h$, using the linear…
We formulate a notion of the quantum automorphism group of a $2$-graph. After some preliminary computations, we define quantum isomorphism between a pair of $2$-graphs. We produce a `non-trivial' example of a pair of $2$-graphs that are not…
Best match graphs (BMG) are a key intermediate in graph-based orthology detection and contain a large amount of information on the gene tree. We provide a near-cubic algorithm to determine whether a BMG is binary-explainable, i.e., whether…
We study the group $QV$, the self-maps of the infinite $2$-edge coloured binary tree which preserve the edge and colour relations at cofinitely many locations. We introduce related groups $QF$, $QT$, $\tilde{Q}T$, and $\tilde{Q}V$, prove…
In this paper, we determine the reduced automorphism groups of hyperelliptic curves of a small genus in characteristic $2$, when they are of $2$-rank $0$. Such a curve is an Artin-Schreier curve defined in the form $y^2-y=f(x)$ for a…
The purpose of this paper is to present the structure of the linear codes over a finite field with q elements that have a permutation automorphism of order m. These codes can be considered as generalized quasi-cyclic codes. Quasi-cyclic…