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The Dulmage--Mendelsohn decomposition (or the DM-decomposition) gives a unique partition of the vertex set of a bipartite graph reflecting the structure of all the maximum matchings therein. A bipartite graph is said to be DM-irreducible if…
Graph matching, also known as network alignment, refers to finding a bijection between the vertex sets of two given graphs so as to maximally align their edges. This fundamental computational problem arises frequently in multiple fields…
Let $k$ be an integer. Two vertex $k$-colorings of a graph are \emph{adjacent} if they differ on exactly one vertex. A graph is \emph{$k$-mixing} if any proper $k$-coloring can be transformed into any other through a sequence of adjacent…
There exist several methods dealing with the reconstruction of rooted phylogenetic networks explaining different evolutionary histories given by rooted binary phylogenetic trees. In practice, however, due to insufficient information of the…
The Dulmage-Mendelsohn decomposition is a classical canonical decomposition in matching theory applicable for bipartite graphs, and is famous not only for its application in the field of matrix computation, but also for providing a…
A matching $M$ in a graph $G$ is $r$-degenerate if the subgraph of $G$ induced by the set of vertices incident with an edge in $M$ is $r$-degenerate. Goddard, Hedetniemi, Hedetniemi, and Laskar (Generalized subgraph-restricted matchings in…
Tree ensembles such as random forests (RFs) and gradient boosting machines (GBMs) are among the most widely used supervised learners, yet their theoretical properties remain incompletely understood. We adopt a spectral perspective on these…
Given a multigraph $G$ whose edges are colored from the set $[q]:=\{1,2,\ldots,q\}$ (\emph{$q$-colored graph}), and a vector $\alpha=(\alpha_1,\ldots,\alpha_{q}) \in \mathbb{N}^{q}$ (\emph{color-constraint}), a subgraph $H$ of $G$ is called…
Two genes are xenologs in the sense of Fitch if they are separated by at least one horizontal gene transfer event. Horizonal gene transfer is asymmetric in the sense that the transferred copy is distinguished from the one that remains…
An edge-colored graph is said to be balanced if it has an equal number of edges of each color. Given a graph $G$ whose edges are colored using two colors and a positive integer $k$, the objective in the Edge Balanced Connected Subgraph…
Suppose that the vertices of a graph $G$ are colored with two colors in an unknown way. The color that occurs on more than half of the vertices is called the majority color (if it exists), and any vertex of this color is called a majority…
In a vertex-colored graph $G = (V, E)$, a subset $S \subseteq V$ is said to be consistent if every vertex has a nearest neighbor in $S$ with the same color. The problem of computing a minimum cardinality consistent subset of a graph is…
A phylogenetic tree is a way to organize a finite set of species, individuals or other sources of related data. The species for which we have existing DNA data make up the set of leaves of the tree. The balanced minimal evolution method of…
We study weighted edge coloring of graphs, where we are given an undirected edge-weighted general multi-graph $G := (V, E)$ with weights $w : E \rightarrow [0, 1]$. The goal is to find a proper weighted coloring of the edges with as few…
The perfect phylogeny problem is a classic problem in computational biology, where we seek an unrooted phylogeny that is compatible with a set of qualitative characters. Such a tree exists precisely when an intersection graph associated…
Series-parallel (SP) graphs are binary edge-labeled graphs with a designated source and target vertex, built using serial and parallel composition. A set of graphs is recognizable if membership depends only on its image under a homomorphism…
Subgraph matching is a fundamental building block for graph-based applications and is challenging due to its high-order combinatorial nature. Existing studies usually tackle it by combinatorial optimization or learning-based methods.…
A classical problem in phylogenetic tree analysis is to decide whether there is a phylogenetic tree $T$ that contains all information of a given collection $\cP$ of phylogenetic trees. If the answer is "yes" we say that $\cP$ is compatible…
We investigate the relationship between two kinds of vertex colorings of hypergraphs: unique-maximum colorings and conflict-free colorings. In a unique-maximum coloring, the colors are ordered, and in every hyperedge of the hypergraph the…
A $k$-edge-coloured graph is colour-balanced if each colour appears equally often. Resolving a conjecture of Pardey and Rautenbach, we show that any colour-balanced $k$-edge-coloured complete graph $K_{2kt}$ contains a perfect matching that…