Related papers: On recognizing graphs representing Persistent Perf…
Persistent homology, a technique from computational topology, has recently shown strong empirical performance in the context of graph classification. Being able to capture long range graph properties via higher-order topological features,…
Given a graph with edges colored red or blue and an integer $k$, the exact perfect matching problem asks if there exists a perfect matching with exactly $k$ red edges. There exists a randomized polylogarithmic-time parallel algorithm to…
We consider classes of graphs, which we call thick graphs, that have the vertices of a corresponding thin graph replaced by cliques and the edges replaced by cobipartite graphs In particular, we consider the case of thick forests, which we…
Parameterized complexity theory has enabled a refined classification of the difficulty of NP-hard optimization problems on graphs with respect to key structural properties, and so to a better understanding of their true difficulties. More…
Finding the most parsimonious tree inside a phylogenetic network with respect to a given character is an NP-hard combinatorial optimization problem that for many network topologies is essentially inapproximable. In contrast, if the network…
Persistent homology is a mathematical tool used for studying the shape of data by extracting its topological features. It has gained popularity in network science due to its applicability in various network mining problems, including…
Persistent homology is a natural tool for probing the topological characteristics of weighted graphs, essentially focusing on their $0$-dimensional homology. While this area has been substantially studied, we present a new approach to…
${ NP}$-complete problem "Hamiltonian cycle"\ for graph $G=(V,E)$ is extended to the "Hamiltonian Complement of the Graph"\ problem of finding the minimal cardinality set $H$ containing additional edges so that graph $G=(V,E\cup H)$ is…
I present a single algorithm which solves the clique problems, "What is the largest size clique?", "What are all the maximal cliques?" and the decision problem, "Does a clique of size k exist?" for any given graph in polynomial time. The…
Haxell's condition is a natural hypergraph analog of Hall's condition, which is a well-known necessary and sufficient condition for a bipartite graph to admit a perfect matching. That is, when Haxell's condition holds it forces the…
The maximum coverage problem is to select $k$ sets from a collection of sets such that the cardinality of the union of the selected sets is maximized. We consider $(1-1/e-\epsilon)$-approximation algorithms for this NP-hard problem in three…
A graph is said to be well-dominated if all its minimal dominating sets are of the same size. The class of well-dominated graphs forms a subclass of the well studied class of well-covered graphs. While the recognition problem for the class…
In this paper, we present new efficiently solvable cases of the Minimum Uncovering Branching problem, an optimization problem with applications in cancer genomics introduced by Hujdurovi\'c, Husi\'c, Milani\v{c}, Rizzi, and Tomescu in 2018.…
Phylogenetic networks are increasingly used in evolutionary biology to represent the history of species that have undergone reticulate events such as horizontal gene transfer, hybrid speciation and recombination. One of the most fundamental…
Horizontal gene transfer is an important contributor to evolution. According to Walter M.\ Fitch, two genes are xenologs if they are separated by at least one HGT. More formally, the directed Fitch graph has a set of genes is its vertices,…
The distinguishing result of this paper is a $\mathbf{P}$-time enumerable partition of all the potential perfect matchings in a bipartite graph. This partition is a set of equivalence classes induced by the missing edges in the potential…
Graph-modification problems, where we modify a graph by adding or deleting vertices or edges or contracting edges to obtain a graph in a {\it simpler} class, is a well-studied optimization problem in all algorithmic paradigms including…
An L(2,1)-labeling of a graph $G$ is an assignment $f$ from the vertex set $V(G)$ to the set of nonnegative integers such that $|f(x)-f(y)|\ge 2$ if $x$ and $y$ are adjacent and $|f(x)-f(y)|\ge 1$ if $x$ and $y$ are at distance 2, for all…
A normal network is uniquely determined by the set of phylogenetic trees that it displays. Given a set $\mathcal{P}$ of rooted binary phylogenetic trees, this paper presents a polynomial-time algorithm that reconstructs the unique binary…
Phylogenetic trees are used to model evolution: leaves are labelled to represent contemporary species ("taxa") and interior vertices represent extinct ancestors. Informally, convex characters are measurements on the contemporary species in…