Related papers: Reciprocal Best Match Graphs
A generalization of the random geometric graph (RGG) model is proposed by considering a set of points uniformly and independently distributed on a rectangle of unit area instead of on a unit square [0,1]^2. The topological properties of the…
Range-filtered approximate nearest neighbor (RFANN) search is a fundamental operation in modern data systems. Given a set of objects, each with a vector and a numerical attribute, an RFANN query retrieves the nearest neighbors to a query…
For a graph $G = (V, E)$, the $\gamma$-graph of $G$, denoted $G(\gamma) = (V(\gamma), E(\gamma))$, is the graph whose vertex set is the collection of minimum dominating sets, or $\gamma$-sets of $G$, and two $\gamma$-sets are adjacent in…
Many popular algorithms for searching the space of leaf-labelled trees are based on tree rearrangement operations. Under any such operation, the problem is reduced to searching a graph where vertices are trees and (undirected) edges are…
In this paper, we study the maximum matching problem in RDV graphs, i.e., graphs that are vertex-intersection graphs of downward paths in a rooted tree. We show that this problem can be reduced to a problem of testing (repeatedly) whether a…
A plane graph is said to be a rectangular graph if each of its edges can be oriented horizontal or vertical, its internal regions are four-sided and it has a rectangular enclosure. If dual of a planar graph is a rectangular graph, then the…
Phylogeny is the study of the relations between biological entities. From it, the need to compare tree-like graphs has risen and several metrics were established and researched, but since there is no definitive way to compare them, its…
An independent edge set of graph $G$ is a matching, and is maximal if it is not a proper subset of any other matching of $G$. The number of all the maximal matchings of $G$ is denoted by $\Psi(G)$. In this paper, an algorithm to count…
Trees have long been used as a graphical representation of species relationships. However complex evolutionary events, such as genetic reassortments or hybrid speciations which occur commonly in viruses, bacteria and plants, do not fit into…
Graph matching refers to finding node correspondence between graphs, such that the corresponding node and edge's affinity can be maximized. In addition with its NP-completeness nature, another important challenge is effective modeling of…
This paper introduces decorated merge trees (DMTs) as a novel invariant for persistent spaces. DMTs combine both $\pi_0$ and $H_n$ information into a single data structure that distinguishes filtrations that merge trees and persistent…
The Robinson-Foulds (RF) metric is arguably the most widely used measure of phylogenetic tree similarity, despite its well-known shortcomings: For example, moving a single taxon in a tree can result in a tree that has maximum distance to…
Random graph matching refers to recovering the underlying vertex correspondence between two random graphs with correlated edges; a prominent example is when the two random graphs are given by Erd\H{o}s-R\'{e}nyi graphs $G(n,\frac{d}{n})$.…
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…
In this paper, we present a flexible and probabilistic framework for tracking topological features in time-varying scalar fields using merge trees and partial optimal transport. Merge trees are topological descriptors that record the…
In this paper, we describe a reproduction of the Relational Graph Convolutional Network (RGCN). Using our reproduction, we explain the intuition behind the model. Our reproduction results empirically validate the correctness of our…
We develop a time-optimal $O(mn^2)$-time algorithm to construct the subtree prune-regraft (SPR) graph on a collection of m phylogenetic trees with n leaves. This improves on the previous bound of $O(mn^3)$. Such graphs are used to better…
Graph-based algorithms have shown great empirical potential for the approximate nearest neighbor (ANN) search problem. Currently, graph-based ANN search algorithms are designed mainly using heuristics, whereas theoretical analysis of such…
Three-way dissimilarities are a generalization of (two-way) dissimilarities which can be used to indicate the lack of homogeneity or resemblance between any three objects. Such maps have applications in cluster analysis, and have been used…
Tree-child networks are a recently-described class of directed acyclic graphs that have risen to prominence in phylogenetics (the study of evolutionary trees and networks). Although these networks have a number of attractive mathematical…