Graphs where Search Methods are Indistinguishable

Graph searching is one of the simplest and most widely used tools in graph algorithms. Every graph search method is defined using some partic-ular selection rule, and the analysis of the corre-sponding vertex orderings can aid greatly in de-vising algorithms, writing proofs of correctness, or recognition of various graph families. We study graphs where the sets of vertex order-ings produced by two di˙erent search methods coincide. We characterise such graph families for ten pairs from the best-known set of graph searches: Breadth First Search (BFS), Depth First Search (DFS), Lexicographic Breadth First Search (LexBFS) and Lexicographic Depth First Search (LexDFS), and Maximal Neighborhood Search (MNS).

Integer Programming, Constraint Programming, and Hybrid Decomposition Approaches to Discretizable Distance Geometry Problems

Given an integer dimension K and a simple, undirected graph G with positive edge weights, the Distance Geometry Problem (DGP) aims to find a realization function mapping each vertex to a coordinate in [Formula: see text] such that the distance between pairs of vertex coordinates is equal to the corresponding edge weights in G. The so-called discretization assumptions reduce the search space of the realization to a finite discrete one, which can be explored via the branch-and-prune (BP) algorithm. Given a discretization vertex order in G, the BP algorithm constructs a binary tree where the nodes at a layer provide all possible coordinates of the vertex corresponding to that layer. The focus of this paper is on finding optimal BP trees for a class of discretizable DGPs. More specifically, we aim to find a discretization vertex order in G that yields a BP tree with the least number of branches. We propose an integer programming formulation and three constraint programming formulations that all significantly outperform the state-of-the-art cutting-plane algorithm for this problem. Moreover, motivated by the difficulty in solving instances with a large and low-density input graph, we develop two hybrid decomposition algorithms, strengthened by a set of valid inequalities, which further improve the solvability of the problem. Summary of Contribution: We present a new model to solve a combinatorial optimization problem on graphs, MIN DOUBLE, which comes from the highly active area of distance geometry and has applications in a wide variety of fields. We use integer programming (IP) and present the first constraint programming (CP) models and hybrid decomposition methods, implemented as a branch-and-cut procedure, for MIN DOUBLE. Through an extensive computational study, we show that our approaches advance the state of the art for MIN DOUBLE. We accomplish this by not only combining generic techniques from IP and CP but also exploring the structure of the problem in developing valid inequalities and variable fixing rules. Our methods significantly improve the solvability of MIN DOUBLE, which we believe can also provide insights for tackling other problem classes and applications.

Ordered Tree Decomposition for HRG Rule Extraction

We present algorithms for extracting Hyperedge Replacement Grammar (HRG) rules from a graph along with a vertex order. Our algorithms are based on finding a tree decomposition of smallest width, relative to the vertex order, and then extracting one rule for each node in this structure. The assumption of a fixed order for the vertices of the input graph makes it possible to solve the problem in polynomial time, in contrast to the fact that the problem of finding optimal tree decompositions for a graph is NP-hard. We also present polynomial-time algorithms for parsing based on our HRGs, where the input is a vertex sequence and the output is a graph structure. The intended application of our algorithms is grammar extraction and parsing for semantic representation of natural language. We apply our algorithms to data annotated with Abstract Meaning Representations and report on the characteristics of the resulting grammars.

Constant community discovery in network based on consensus clustering

Community detection is a fundamental work to analyze the structural and functional properties of complex networks. There are many algorithms proposed to find the optimal communities of network. In this paper, we focus on how vertex order influences the results of community detection. By using consensus clustering, we discover communities and get a consensus matrix under different vertex orders. Based on the consensus matrix, we study the phenomenon that some nodes are always allocated in the same community even with different vertex permutations. We call this group of nodes as constant community and propose a constant community detection algorithm (CCDA) to find constant communities in network. We also further study the internal properties of constant communities and find constant communities play a guiding role in community detection. Finally, a discussion of constant communities is given in the hope of being useful to others working in this field.