Path Graphs H
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Networkx: Network Analysis with Python
NetworkX: Network Analysis with Python Salvatore Scellato Full tutorial presented at the XXX SunBelt Conference “NetworkX introduction: Hacking social networks using the Python programming language” by Aric Hagberg & Drew Conway Outline 1. Introduction to NetworkX 2. Getting started with Python and NetworkX 3. Basic network analysis 4. Writing your own code 5. You are ready for your project! 1. Introduction to NetworkX. Introduction to NetworkX - network analysis Vast amounts of network data are being generated and collected • Sociology: web pages, mobile phones, social networks • Technology: Internet routers, vehicular flows, power grids How can we analyze this networks? Introduction to NetworkX - Python awesomeness Introduction to NetworkX “Python package for the creation, manipulation and study of the structure, dynamics and functions of complex networks.” • Data structures for representing many types of networks, or graphs • Nodes can be any (hashable) Python object, edges can contain arbitrary data • Flexibility ideal for representing networks found in many different fields • Easy to install on multiple platforms • Online up-to-date documentation • First public release in April 2005 Introduction to NetworkX - design requirements • Tool to study the structure and dynamics of social, biological, and infrastructure networks • Ease-of-use and rapid development in a collaborative, multidisciplinary environment • Easy to learn, easy to teach • Open-source tool base that can easily grow in a multidisciplinary environment with non-expert users -
1 Hamiltonian Path
6.S078 Fine-Grained Algorithms and Complexity MIT Lecture 17: Algorithms for Finding Long Paths (Part 1) November 2, 2020 In this lecture and the next, we will introduce a number of algorithmic techniques used in exponential-time and FPT algorithms, through the lens of one parametric problem: Definition 0.1 (k-Path) Given a directed graph G = (V; E) and parameter k, is there a simple path1 in G of length ≥ k? Already for this simple-to-state problem, there are quite a few radically different approaches to solving it faster; we will show you some of them. We’ll see algorithms for the case of k = n (Hamiltonian Path) and then we’ll turn to “parameterizing” these algorithms so they work for all k. A number of papers in bioinformatics have used quick algorithms for k-Path and related problems to analyze various networks that arise in biology (some references are [SIKS05, ADH+08, YLRS+09]). In the following, we always denote the number of vertices jV j in our given graph G = (V; E) by n, and the number of edges jEj by m. We often associate the set of vertices V with the set [n] := f1; : : : ; ng. 1 Hamiltonian Path Before discussing k-Path, it will be useful to first discuss algorithms for the famous NP-complete Hamiltonian path problem, which is the special case where k = n. Essentially all algorithms we discuss here can be adapted to obtain algorithms for k-Path! The naive algorithm for Hamiltonian Path takes time about n! = 2Θ(n log n) to try all possible permutations of the nodes (which can also be adapted to get an O?(k!)-time algorithm for k-Path, as we’ll see). -
Exclusive Graph Searching Lélia Blin, Janna Burman, Nicolas Nisse
Exclusive Graph Searching Lélia Blin, Janna Burman, Nicolas Nisse To cite this version: Lélia Blin, Janna Burman, Nicolas Nisse. Exclusive Graph Searching. Algorithmica, Springer Verlag, 2017, 77 (3), pp.942-969. 10.1007/s00453-016-0124-0. hal-01266492 HAL Id: hal-01266492 https://hal.archives-ouvertes.fr/hal-01266492 Submitted on 2 Feb 2016 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. Exclusive Graph Searching∗ L´eliaBlin Sorbonne Universit´es, UPMC Univ Paris 06, CNRS, Universit´ed'Evry-Val-d'Essonne. LIP6 UMR 7606, 4 place Jussieu 75005, Paris, France [email protected] Janna Burman LRI, Universit´eParis Sud, CNRS, UMR-8623, France. [email protected] Nicolas Nisse Inria, France. Univ. Nice Sophia Antipolis, CNRS, I3S, UMR 7271, Sophia Antipolis, France. [email protected] February 2, 2016 Abstract This paper tackles the well known graph searching problem, where a team of searchers aims at capturing an intruder in a network, modeled as a graph. This problem has been mainly studied for its relationship with the pathwidth of graphs. All variants of this problem assume that any node can be simultaneously occupied by several searchers. -
K-Path Centrality: a New Centrality Measure in Social Networks
Centrality Metrics in Social Network Analysis K-path: A New Centrality Metric Experiments Summary K-Path Centrality: A New Centrality Measure in Social Networks Adriana Iamnitchi University of South Florida joint work with Tharaka Alahakoon, Rahul Tripathi, Nicolas Kourtellis and Ramanuja Simha Adriana Iamnitchi K-Path Centrality: A New Centrality Measure in Social Networks 1 of 23 Centrality Metrics in Social Network Analysis Centrality Metrics Overview K-path: A New Centrality Metric Betweenness Centrality Experiments Applications Summary Computing Betweenness Centrality Centrality Metrics in Social Network Analysis Betweenness Centrality - how much a node controls the flow between any other two nodes Closeness Centrality - the extent a node is near all other nodes Degree Centrality - the number of ties to other nodes Eigenvector Centrality - the relative importance of a node Adriana Iamnitchi K-Path Centrality: A New Centrality Measure in Social Networks 2 of 23 Centrality Metrics in Social Network Analysis Centrality Metrics Overview K-path: A New Centrality Metric Betweenness Centrality Experiments Applications Summary Computing Betweenness Centrality Betweenness Centrality measures the extent to which a node lies on the shortest path between two other nodes betweennes CB (v) of a vertex v is the summation over all pairs of nodes of the fractional shortest paths going through v. Definition (Betweenness Centrality) For every vertex v 2 V of a weighted graph G(V ; E), the betweenness centrality CB (v) of v is defined by X X σst (v) CB -
Discrete Mathematics Rooted Directed Path Graphs Are Leaf Powers
Discrete Mathematics 310 (2010) 897–910 Contents lists available at ScienceDirect Discrete Mathematics journal homepage: www.elsevier.com/locate/disc Rooted directed path graphs are leaf powers Andreas Brandstädt a, Christian Hundt a, Federico Mancini b, Peter Wagner a a Institut für Informatik, Universität Rostock, D-18051, Germany b Department of Informatics, University of Bergen, N-5020 Bergen, Norway article info a b s t r a c t Article history: Leaf powers are a graph class which has been introduced to model the problem of Received 11 March 2009 reconstructing phylogenetic trees. A graph G D .V ; E/ is called k-leaf power if it admits a Received in revised form 2 September 2009 k-leaf root, i.e., a tree T with leaves V such that uv is an edge in G if and only if the distance Accepted 13 October 2009 between u and v in T is at most k. Moroever, a graph is simply called leaf power if it is a Available online 30 October 2009 k-leaf power for some k 2 N. This paper characterizes leaf powers in terms of their relation to several other known graph classes. It also addresses the problem of deciding whether a Keywords: given graph is a k-leaf power. Leaf powers Leaf roots We show that the class of leaf powers coincides with fixed tolerance NeST graphs, a Graph class inclusions well-known graph class with absolutely different motivations. After this, we provide the Strongly chordal graphs largest currently known proper subclass of leaf powers, i.e, the class of rooted directed path Fixed tolerance NeST graphs graphs. -
Compact Representation of Graphs with Small Bandwidth and Treedepth
Compact Representation of Graphs with Small Bandwidth and Treedepth Shahin Kamali University of Manitoba Winnipeg, MB, R3T 2N2, Canada [email protected] Abstract We consider the problem of compact representation of graphs with small bandwidth as well as graphs with small treedepth. These parameters capture structural properties of graphs that come in useful in certain applications. We present simple navigation oracles that support degree and adjacency queries in constant time and neighborhood query in constant time per neighbor. For graphs of bandwidth k, our oracle takesp (k + dlog 2ke)n + o(kn) bits. By way of an enumeration technique, we show that (k − 5 k − 4)n − O(k2) bits are required to encode a graph of bandwidth k and size n. For graphs of treedepth k, our oracle takes (k + dlog ke + 2)n + o(kn) bits. We present a lower bound that certifies our oracle is succinct for certain values of k 2 o(n). 1 Introduction Graphs are among the most relevant ways to model relationships between objects. Given the ever-growing number of objects to model, it is increasingly important to store the underlying graphs in a compact manner in order to facilitate designing efficient algorithmic solutions. One simple way to represent graphs is to consider them as random objects without any particular structure. There are two issues, however, with such general approach. First, many computational problems are NP-hard on general graphs and often remain hard to approximate. Second, random graphs are highly incompressible and cannot be stored compactly [1]. At the same time, graphs that arise in practice often have combinatorial structures that can -and should- be exploited to provide space-efficient representations. -
The On-Line Shortest Path Problem Under Partial Monitoring
Journal of Machine Learning Research 8 (2007) 2369-2403 Submitted 4/07; Revised 8/07; Published 10/07 The On-Line Shortest Path Problem Under Partial Monitoring Andras´ Gyor¨ gy [email protected] Machine Learning Research Group Computer and Automation Research Institute Hungarian Academy of Sciences Kende u. 13-17, Budapest, Hungary, H-1111 Tamas´ Linder [email protected] Department of Mathematics and Statistics Queen’s University, Kingston, Ontario Canada K7L 3N6 Gabor´ Lugosi [email protected] ICREA and Department of Economics Universitat Pompeu Fabra Ramon Trias Fargas 25-27 08005 Barcelona, Spain Gyor¨ gy Ottucsak´ [email protected] Department of Computer Science and Information Theory Budapest University of Technology and Economics Magyar Tudosok´ Kor¨ utja´ 2. Budapest, Hungary, H-1117 Editor: Leslie Pack Kaelbling Abstract The on-line shortest path problem is considered under various models of partial monitoring. Given a weighted directed acyclic graph whose edge weights can change in an arbitrary (adversarial) way, a decision maker has to choose in each round of a game a path between two distinguished vertices such that the loss of the chosen path (defined as the sum of the weights of its composing edges) be as small as possible. In a setting generalizing the multi-armed bandit problem, after choosing a path, the decision maker learns only the weights of those edges that belong to the chosen path. For this problem, an algorithm is given whose average cumulative loss in n rounds exceeds that of the best path, matched off-line to the entire sequence of the edge weights, by a quantity that is proportional to 1=pn and depends only polynomially on the number of edges of the graph. -
Branch-Depth: Generalizing Tree-Depth of Graphs
Branch-depth: Generalizing tree-depth of graphs ∗1 †‡23 34 Matt DeVos , O-joung Kwon , and Sang-il Oum† 1Department of Mathematics, Simon Fraser University, Burnaby, Canada 2Department of Mathematics, Incheon National University, Incheon, Korea 3Discrete Mathematics Group, Institute for Basic Science (IBS), Daejeon, Korea 4Department of Mathematical Sciences, KAIST, Daejeon, Korea [email protected], [email protected], [email protected] November 5, 2020 Abstract We present a concept called the branch-depth of a connectivity function, that generalizes the tree-depth of graphs. Then we prove two theorems showing that this concept aligns closely with the no- tions of tree-depth and shrub-depth of graphs as follows. For a graph G = (V, E) and a subset A of E we let λG(A) be the number of vertices incident with an edge in A and an edge in E A. For a subset X of V , \ let ρG(X) be the rank of the adjacency matrix between X and V X over the binary field. We prove that a class of graphs has bounded\ tree-depth if and only if the corresponding class of functions λG has arXiv:1903.11988v2 [math.CO] 4 Nov 2020 bounded branch-depth and similarly a class of graphs has bounded shrub-depth if and only if the corresponding class of functions ρG has bounded branch-depth, which we call the rank-depth of graphs. Furthermore we investigate various potential generalizations of tree- depth to matroids and prove that matroids representable over a fixed finite field having no large circuits are well-quasi-ordered by restriction. -
An Efficient Reachability Indexing Scheme for Large Directed Graphs
1 Path-Tree: An Efficient Reachability Indexing Scheme for Large Directed Graphs RUOMING JIN, Kent State University NING RUAN, Kent State University YANG XIANG, The Ohio State University HAIXUN WANG, Microsoft Research Asia Reachability query is one of the fundamental queries in graph database. The main idea behind answering reachability queries is to assign vertices with certain labels such that the reachability between any two vertices can be determined by the labeling information. Though several approaches have been proposed for building these reachability labels, it remains open issues on how to handle increasingly large number of vertices in real world graphs, and how to find the best tradeoff among the labeling size, the query answering time, and the construction time. In this paper, we introduce a novel graph structure, referred to as path- tree, to help labeling very large graphs. The path-tree cover is a spanning subgraph of G in a tree shape. We show path-tree can be generalized to chain-tree which theoretically can has smaller labeling cost. On top of path-tree and chain-tree index, we also introduce a new compression scheme which groups vertices with similar labels together to further reduce the labeling size. In addition, we also propose an efficient incremental update algorithm for dynamic index maintenance. Finally, we demonstrate both analytically and empirically the effectiveness and efficiency of our new approaches. Categories and Subject Descriptors: H.2.8 [Database management]: Database Applications—graph index- ing and querying General Terms: Performance Additional Key Words and Phrases: Graph indexing, reachability queries, transitive closure, path-tree cover, maximal directed spanning tree ACM Reference Format: Jin, R., Ruan, N., Xiang, Y., and Wang, H. -
Cop Number of Graphs Without Long Holes
Cop number of graphs without long holes Vaidy Sivaraman January 3, 2020 Abstract A hole in a graph is an induced cycle of length at least 4. We give a simple winning strategy for t − 3 cops to capture a robber in the game of cops and robbers played in a graph that does not contain a hole of length at least t. This strengthens a theorem of Joret-Kaminski-Theis, who proved that t − 2 cops have a winning strategy in such graphs. As a consequence of our bound, we also give an inequality relating the cop number and the Dilworth number of a graph. The game of cops and robbers is played on a finite simple graph G. There are k cops and a single robber. Each of the cops chooses a vertex to start, and then the robber chooses a vertex. And then they alternate turns starting with the cop. In the turn of cops, each cop either stays on the vertex or moves to a neighboring vertex. In the robber’s turn, he stays on the same vertex or moves to a neighboring vertex. The cops win if at any point in time, one of the cops lands on the robber. The robber wins if he can avoid being captured. The cop number of G, denoted c(G), is the minimum number of cops needed so that the cops have a winning strategy in G. The question of what makes a graph to have high cop number is not clearly understood. Some fundamental results were proved in [1] and [9]. -
Tree-Depth and the Formula Complexity of Subgraph Isomorphism
Electronic Colloquium on Computational Complexity, Report No. 61 (2020) Tree-depth and the Formula Complexity of Subgraph Isomorphism Deepanshu Kush Benjamin Rossman University of Toronto Duke University April 28, 2020 Abstract For a fixed \pattern" graph G, the colored G-subgraph isomorphism problem (denoted SUB(G)) asks, given an n-vertex graph H and a coloring V (H) ! V (G), whether H contains a properly colored copy of G. The complexity of this problem is tied to parameterized versions of P =? NP and L =? NL, among other questions. An overarching goal is to understand the complexity of SUB(G), under different computational models, in terms of natural invariants of the pattern graph G. In this paper, we establish a close relationship between the formula complexity of SUB(G) and an invariant known as tree-depth (denoted td(G)). SUB(G) is known to be solvable by monotone AC 0 1=3 formulas of size O(ntd(G)). Our main result is an nΩ(e td(G) ) lower bound for formulas that are monotone or have sub-logarithmic depth. This complements a lower bound of Li, Razborov and Rossman [8] relating tree-width and AC 0 circuit size. As a corollary, it implies a stronger homomorphism preservation theorem for first-order logic on finite structures [14]. The technical core of this result is an nΩ(k) lower bound in the special case where G is a complete binary tree of height k, which we establish using the pathset framework introduced in [15]. (The lower bound for general patterns follows via a recent excluded-minor characterization of tree-depth [4, 6].) Additional results of this paper extend the pathset framework and improve upon both, the best known upper and lower bounds on the average-case formula size of SUB(G) when G is a path. -
An Algorithm for the Exact Treedepth Problem James Trimble School of Computing Science, University of Glasgow Glasgow, Scotland, UK [email protected]
An Algorithm for the Exact Treedepth Problem James Trimble School of Computing Science, University of Glasgow Glasgow, Scotland, UK [email protected] Abstract We present a novel algorithm for the minimum-depth elimination tree problem, which is equivalent to the optimal treedepth decomposition problem. Our algorithm makes use of two cheaply-computed lower bound functions to prune the search tree, along with symmetry-breaking and domination rules. We present an empirical study showing that the algorithm outperforms the current state-of-the-art solver (which is based on a SAT encoding) by orders of magnitude on a range of graph classes. 2012 ACM Subject Classification Theory of computation → Graph algorithms analysis; Theory of computation → Algorithm design techniques Keywords and phrases Treedepth, Elimination Tree, Graph Algorithms Supplement Material Source code: https://github.com/jamestrimble/treedepth-solver Funding James Trimble: This work was supported by the Engineering and Physical Sciences Research Council (grant number EP/R513222/1). Acknowledgements Thanks to Ciaran McCreesh, David Manlove, Patrick Prosser and the anonymous referees for their helpful feedback, and to Robert Ganian, Neha Lodha, and Vaidyanathan Peruvemba Ramaswamy for providing software for the SAT encoding. 1 Introduction This paper presents a practical algorithm for finding an optimal treedepth decomposition of a graph. A treedepth decomposition of graph G = (V, E) is a rooted forest F with node set V , such that for each edge {u, v} ∈ E, we have either that u is an ancestor of v or v is an ancestor of u in F . The treedepth of G is the minimum depth of a treedepth decomposition of G, where depth is defined as the maximum number of vertices along a path from the root of the tree to a leaf.