Related papers: Potential Maximal Clique Algorithms for Perfect Ph…
The maximal clique enumeration (MCE) problem has numerous applications in biology, chemistry, sociology, and graph modeling. Though this problem is well studied, most current research focuses on finding solutions in large sparse graphs or…
We design new polynomial-time algorithms for recovering planted cliques in the semi-random graph model introduced by Feige and Kilian 2001. The previous best algorithms for this model succeed if the planted clique has size at least…
We study the planted clique problem in which a clique of size k is planted in an Erdos-Renyi graph G(n,1/2) and one is interested in recovering this planted clique. It is widely believed that it exhibits a statistical-computational gap when…
We address the problem of enumerating all maximal clique-partitions of an undirected graph and present an algorithm based on the observation that every maximal clique-partition can be produced from the maximal clique-cover of the graph by…
We consider the problems of finding a maximum clique in a graph and finding a maximum-edge biclique in a bipartite graph. Both problems are NP-hard. We write both problems as matrix-rank minimization and then relax them using the nuclear…
The perfect phylogeny is one of the most used models in different areas of computational biology. In this paper we consider the problem of the Persistent Perfect Phylogeny (referred as P-PP) recently introduced to extend the perfect…
We study the {\sc Clique} problem in classes of intersection graphs of convex sets in the plane. The problem is known to be NP-complete in convex-set intersection graphs and straight-line-segment intersection graphs, but solvable in…
A clique in an undirected graph G= (V, E) is a subset V' V of vertices, each pair of which is connected by an edge in E. The clique problem is an optimization problem of finding a clique of maximum size in graph. The clique problem is…
Finding a Maximum Clique is a classic property test from graph theory; find any one of the largest complete subgraphs in an Erd\"os-R\'enyi G(N, p) random graph. We use Maximum Clique to explore the structure of the problem as a function of…
In computational phylogenetics, the problem of constructing a supertree of a given set of rooted input trees can be formalized in different ways, to cope with contradictory information in the input. We consider the Minimum Flip Supertree…
Perfect Matching-Cut is the problem of deciding whether a graph has a perfect matching that contains an edge-cut. We show that this problem is NP-complete for planar graphs with maximum degree four, for planar graphs with girth five, for…
We present a new formulation of the maximum clique problem of a graph in complex space. We start observing that the adjacency matrix A of a graph can always be written in the form A = B B where B is a complex, symmetric matrix formed by…
In a graph, a perfect matching cut is an edge cut that is a perfect matching. Perfect Matching Cut (PMC) is the problem of deciding whether a given graph has a perfect matching cut, and is known to be NP-complete. We revisit the problem and…
In this article we use the modular decomposition technique for exact solving the weighted maximum clique problem. Our algorithm takes the modular decomposition tree from the paper of Tedder et. al. and finds solution recursively. Also, we…
The Persistent Perfect phylogeny, also known as Dollo-1, has been introduced as a generalization of the well-known perfect phylogenetic model for binary characters to deal with the potential loss of characters. The problem of deciding the…
Finding a maximum clique in a given graph is one of the fundamental NP-hard problems. We compare two multi-core thread-parallel adaptations of a state-of-the-art branch and bound algorithm for the maximum clique problem, and provide a novel…
We propose a fast, parallel maximum clique algorithm for large sparse graphs that is designed to exploit characteristics of social and information networks. The method exhibits a roughly linear runtime scaling over real-world networks…
In a distinguishing problem, the input is a sample drawn from one of two distributions and the algorithm is tasked with identifying the source distribution. The performance of a distinguishing algorithm is measured by its advantage, i.e.,…
A novel approach to complex problems has been previously applied to graph classification and the graph equivalence problem. Here we apply it to the NP complete problem of finding the largest perfect clique within a graph $G$.
Comparative analyses of phylogenetic trees typically require identical taxon sets, however, in practice, trees often include distinct but overlapping taxa. Pruning non-shared leaves discards phylogenetic signal, whereas tree completion can…