Fine-Grained Complexity of the Graph Homomorphism Problem For
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On Finding Hajós Constructions Erik Johnson
On Finding Haj´osConstructions by Erik Johnson A thesis submitted in partial fulfillment of the requirements for the degree of Master of Science Department of Computing Science University of Alberta c Erik Johnson, 2015 Abstract We develop a method for searching for Haj´osconstructions. Our results include the discovery of new constructions for some well-known graphs, including the Gr¨otzsch graph, Chv´atalgraph, and Brinkmann graph; also, we prove that the first two of these are shortest possible constructions. These are the first published constructions for these graphs. ii Acknowledgments Thank you Dr. Joseph Culberson for getting me started on this topic and for your ongoing help and interest. Thank you Dr. Ryan Hayward for seeing this project through and for all of your help in advising me on my thesis. I would also like to thank Jeanette Bliemel for her patience, support, and encouragement as I took my meandering path through work and academics. iii Table of Contents 1 Introduction 1 1.1 Graph Colouring and Complexity Theory ............ 2 1.2 Contributions ........................... 7 2 The Gr¨otzsch Graph 8 2.1 Background ............................ 8 2.2 Construction ........................... 9 2.3 Minimality of the Construction ................. 9 2.4 Alternate Constructions of the Gr¨otzsch Graph . 16 3 Variations on Haj´osConstructions 18 3.1 Tree-Like Haj´osConstructions . 18 3.2 Haj´os'Proof of Completeness . 22 3.3 Top-Down Constructions ..................... 23 4 Searching for Haj´osConstructions 27 4.1 Background ............................ 27 4.2 Haj´os'Algorithm ......................... 28 4.3 Searching the Constructions Space . 29 4.4 Isomorphisms and Tree-Like Constructions . -
Atomic Ring Invariant and Modi Ed CANON Extended Connectivity
Atomic Ring Invariant and Modied CANON Extended Connectivity Algorithm for Symmetry Perception in Molecular Graphs and Rigorous Canonicalization of SMILES Dmytro G. Krotko ( [email protected] ) Research article Keywords: molecular graphs, symmetry perception, SMILES, canonicalization Posted Date: August 10th, 2020 DOI: https://doi.org/10.21203/rs.3.rs-33257/v3 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Version of Record: A version of this preprint was published on August 20th, 2020. See the published version at https://doi.org/10.1186/s13321-020-00453-4. Page 1/16 Abstract We propose new invariant (the product of the corresponding primes for the ring size of each bond of an atom) as a simple unambiguous ring invariant of an atom that allows distinguishing symmetry classes in the highly symmetrical molecular graphs using traditional local and distance atom invariants. Also, we propose modications of Weininger’s CANON algorithm to avoid its ambiguities (swapping and leveling ranks, incorrect determination of symmetry classes in non-aromatic annulenes, arbitrary selection of atom for breaking ties). The atomic ring invariant and the Modied CANON algorithm allow us to create a rigorous procedure for the generation of canonical SMILES which can be used for accurate and fast structural searching in large chemical databases. Introduction The perception of the symmetry of atoms in molecular graphs is an important problem for chemoinformatics. The systems for the synthesis design use the constitutional symmetry information to generate and evaluate the reaction pathways [1]. The constitutional symmetry is important for the interpretation of NMR and ESR spectra. -
Bounds for the Smallest K-Chromatic Graphs of Given Girth Arxiv
Discrete Mathematics and Theoretical Computer Science DMTCS vol. 21:3, 2019, #9 Bounds for the smallest k-chromatic graphs of given girth Geoffrey Exoo1∗ Jan Goedgebeur2;3y 1 Department of Mathematics and Computer Science, Indiana State University, USA 2 Department of Applied Mathematics, Computer Science and Statistics, Ghent University, Belgium 3 Computer Science Department, University of Mons, Belgium received 11th June 2018, revised 14th Feb. 2019, accepted 15th Feb. 2019. Let ng(k) denote the smallest order of a k-chromatic graph of girth at least g. We consider the problem of determining ng(k) for small values of k and g. After giving an overview of what is known about ng(k), we provide some new lower bounds based on exhaustive searches, and then obtain several new upper bounds using computer algorithms for the construction of witnesses, and for the verification of their correctness. We also present the first examples of reasonably small order for k = 4 and g > 5. In particular, the new bounds include: n4(7) ≤ 77, 26 ≤ n6(4) ≤ 66 and 30 ≤ n7(4) ≤ 171. Keywords: triangle-free graph, girth, chromatic number, semiregular, computation 1 Introduction This paper deals with the problem of determining the minimum order among graphs with given girth g and chromatic number k. The chromatic number of a graph is the minimum number of colours required to colour the vertices of the graph such that no two adjacent vertices have the same colour. The girth of a graph is the length of its shortest cycle. In a well-known demonstration of the power of the probabilistic method Erdos˝ [9] established in 1959 the existence of graphs for which both the girth and the chromatic number are arbitrarily large. -
Download the Thesis Here (PDF)
in the field of study Mathematics Complexity of variants of graph homomorphism problem in selected graph classes Karolina Okrasa student record book number 254071 thesis supervisor Paweł Rzążewski, PhD WARSAW 2019 ............................................. ............................................. supervisor's signature author's signature Abstract Complexity of variants of graph homomorphism problem in selected graph classes A homomorphism is a function which maps vertices of a graph G to vertices of a graph H in which each edge of G is mapped to some edge of H. For a xed graph H, by Hom(H) we denote the computational problem of deciding whether a given graph G admits a homomorphism to H. Graph homomorphisms are generalization of graphs colorings, as if H is a complete graph on k vertices, then Hom(Kk) is equivalent to k-coloring. A result of Hell and Ne²et°il states that if H is bipartite or has a vertex with a loop then Hom(H) is polynomial-time solvable and otherwise it is NP-complete. In this thesis we consider complexity bounds of NP-complete cases of Hom(H), parameterized by the treewidth of the instance graph G. Using both algebraic and combinatorial tools, we show that for almost all graphs H the complexity obtained by a straightforward dynamic programming on a tree decomposition of G cannot be improved, unless the Strong Exponential Time Hypothesis (a standard assumption from the complexity theory) fails. In the second part of the thesis, we analyse the cases of graphs H for which the bound obtained by the dynamic programming method can be improved. We prove another lower bound with an additional restriction on H and show that it is tight for all graphs H, if we assume two conjectures from algebraic graph theory. -
Coloring Graphs from Almost Maximum Degree Sized Palettes by Landon Rabern
Coloring Graphs from Almost Maximum Degree Sized Palettes by Landon Rabern A Dissertation Presented in Partial Fulfillment of the Requirements for the Degree Doctor of Philosophy Approved April 2013 by the Graduate Supervisory Committee: Henry Kierstead, Chair Charles Colbourn Andrzej Czygrinow Susanna Fishel Glenn Hurlbert ARIZONA STATE UNIVERSITY May 2013 ABSTRACT Every graph can be colored with one more color than its maximum degree. A well-known theorem of Brooks gives the precise conditions under which a graph can be colored with maximum degree colors. It is natural to ask for the required conditions on a graph to color with one less color than the maximum degree; in 1977 Borodin and Kostochka conjectured a solution for graphs with maximum degree at least 9: as long as the graph doesn't contain a maximum-degree-sized clique, it can be colored with one fewer than the maximum degree colors. This study attacks the conjecture on multiple fronts. The first technique is an extension of a vertex shuffling procedure of Catlin and is used to prove the conjecture for graphs with edgeless high vertex subgraphs. This general approach also bears more theoretical fruit. The second technique is an extension of a method Kostochka used to reduce the Borodin-Kostochka conjecture to the maximum degree 9 case. Results on the existence of independent transversals are used to find an independent set intersecting every maximum clique in a graph. The third technique uses list coloring results to exclude induced subgraphs in a counterexample to the conjecture. The classification of such excludable graphs that decompose as the join of two graphs is the backbone of many of the results presented here. -
On Minimal Triangle-Free 6-Chromatic Graphs Arxiv:1707.07581V3 [Math
On minimal triangle-free 6-chromatic graphs Jan Goedgebeur∗ Department of Applied Mathematics, Computer Science and Statistics Ghent University Krijgslaan 281-S9, 9000 Ghent, Belgium [email protected] Submitted: XX; Accepted: XX; Published: XX Mathematics Subject Classifications: 05C30, 05C85, 68R10, 90-04 In loving memory of Ella. Abstract A graph with chromatic number k is called k-chromatic. Using computational methods, we show that the smallest triangle-free 6-chromatic graphs have at least 32 and at most 40 vertices. We also determine the complete set of all triangle-free 5-chromatic graphs up to 24 vertices. This implies that Reed's conjecture holds for triangle-free graphs up to at least this order. We also establish that the smallest regular triangle-free 5-chromatic graphs have 24 vertices. Finally, we show that the smallest 5-chromatic graphs of girth at least 5 have at least 29 vertices and that the smallest 4-chromatic graphs of girth at least 6 have at least 25 vertices. Keywords: (maximal) triangle-free graph, chromatic number, Folkman number, Reed's conjecture, exhaustive generation arXiv:1707.07581v3 [math.CO] 1 Aug 2018 1 Introduction Throughout this paper, all graphs are simple and undirected. The chromatic number of a graph G, denoted by χ(G), is the minimum number of colours required to colour the vertices of G such that no two adjacent vertices have the same colour. A graph G with χ(G) = k is called k-chromatic. Let δ(G) and ∆(G) denote the minimum and maximum degree of G, respectively, or just δ and ∆ if G is clear from the context. -
On the $ K $-Independence Number of Graphs
On the k-independence number of graphs A. Abiada, G. Coutinhob, M. A. Fiolc aDepartment of Quantitative Economics Maastricht University, Maastricht, The Netherlands, [email protected] bDepartment of Computer Science Federal University of Minas Gerais, Belo Horizonte, Brazil [email protected] cDepartament de Matem`atiques Universitat Polit`ecnicade Catalunya, Barcelona, Catalonia Barcelona Graduate School of Mathematics [email protected] August 28, 2018 Abstract This paper generalizes and unifies the existing spectral bounds on the k-independence number of a graph, which is the maximum size of a set of vertices at pairwise distance greater than k. The previous bounds known in the literature follow as a corollary of the main results in this work. We show that for most cases our bounds outperform the previous known bounds. Some infinite graphs where the bounds are tight are also presented. Finally, as a byproduct, we derive some lower spectral bounds for the diameter of a graph. Keywords: Graph, k-independence number, Spectrum, Interlacing, Regular partition, An- tipodal distance-regular graph, Diameter. Mathematics Subject Classifications: 05C50, 05C69. arXiv:1803.07042v2 [math.CO] 26 Aug 2018 1 Introduction Given a graph G, let αk = αk(G) denote the size of the largest set of vertices such that any two vertices in the set are at distance larger than k. This choice of notation is no coincidence, since actually α1 is just the independence number of a graph. The parameter αk(G) therefore represents the largest number of vertices which can be k + 1 spread out in G. It is known that determining αk is NP-Hard in general [18]. -
Lombardi Drawings of Graphs Christian A
Journal of Graph Algorithms and Applications http://jgaa.info/ vol. 16, no. 1, pp. 37{83 (2012) Lombardi Drawings of Graphs Christian A. Duncan 1 David Eppstein 2 Michael T. Goodrich 2 Stephen G. Kobourov 3 Martin N¨ollenburg 4 1Dept. of Computer Science, Louisiana Tech Univ. http://www.latech.edu/~duncan/ 2Dept. of Computer Science, Univ. of California, Irvine http://www.ics.uci.edu/~(goodrich|eppstein)/ 3Dept. of Computer Science, University of Arizona http://cs.arizona.edu/~kobourov/ 4Faculty of Informatics, Karlsruhe Institute of Technology http://i11www.iti.kit.edu/~noellenburg Abstract We introduce the notion of Lombardi graph drawings, named after the American abstract artist Mark Lombardi. In these drawings, edges are represented as circular arcs rather than as line segments or polylines, and the vertices have perfect angular resolution: the edges are equiangularly spaced around each vertex. We describe algorithms for finding Lombardi drawings of regular graphs, graphs of bounded degeneracy, and certain families of planar graphs. Submitted: Reviewed: Revised: Accepted: December 2010 July 2011 August 2011 August 2011 Final: Published: September 2011 January 2012 Article type: Communicated by: Regular paper U. Brandes and S. Cornelsen This research was supported in part by the National Science Foundation under grants CCF- 0830403, CCF-0545743, and CCF-1115971, by the Office of Naval Research under MURI grant N00014-08-1-1015, by the Louisiana Board of Regents under PKSFI Grant LEQSF (2007-12)- ENH-PKSFI-PRS-03, and by the German Research Foundation under grant NO 899/1-1. E-mail addresses: [email protected] (Christian A. Duncan) [email protected] (David Eppstein) [email protected] (Michael T. -
Atomic Ring Invariant and Modified CANON Extended Connectivity
Krotko J Cheminform (2020) 12:48 https://doi.org/10.1186/s13321-020-00453-4 Journal of Cheminformatics RESEARCH ARTICLE Open Access Atomic ring invariant and Modifed CANON extended connectivity algorithm for symmetry perception in molecular graphs and rigorous canonicalization of SMILES Dmytro G. Krotko1,2* Abstract We propose new invariant (the product of the corresponding primes for the ring size of each bond of an atom) as a simple unambiguous ring invariant of an atom that allows distinguishing symmetry classes in the highly symmetrical molecular graphs using traditional local and distance atom invariants. Also, we propose modifcations of Weininger’s CANON algorithm to avoid its ambiguities (swapping and leveling ranks, incorrect determination of symmetry classes in non-aromatic annulenes, arbitrary selection of atom for breaking ties). The atomic ring invariant and the Modifed CANON algorithm allow us to create a rigorous procedure for the generation of canonical SMILES which can be used for accurate and fast structural searching in large chemical databases. Keywords: Molecular graphs, Symmetry perception, SMILES, Canonicalization Introduction molecular graphs are widely used in the contemporary Te perception of the symmetry of atoms in molecular chemical databases since they allow to compare chemical graphs is an important problem for chemoinformatics. structures as plain strings. Tese strings could be lexico- Te systems for the synthesis design use the constitu- graphically ordered, which allows using very fast binary tional symmetry information to generate and evaluate searching in ultra-large databases of canonicalized linear the reaction pathways [1]. Te constitutional symmetry is representations of molecular graphs [1]. Te accuracy important for the interpretation of NMR and ESR spec- and speed of search in millions of known and billions of tra. -
The Core Decomposition of Networks: Theory, Algorithms and Applications
The Core Decomposition of Networks: Theory, Algorithms and Applications Fragkiskos D. Malliaros∗, Christos Giatsidisy, Apostolos N. Papadopoulosz, and Michalis Vazirgiannisx Abstract The core decomposition of networks has attracted significant attention due to its numerous appli- cations in real-life problems. Simply stated, the core decomposition of a network (graph) assigns to each graph node v, an integer number c(v) (the core number), capturing how well v is connected with respect to its neighbors. This concept is strongly related to the concept of graph degeneracy, which has a long history in Graph Theory. Although the core decomposition concept is extremely simple, there is an enormous interest in the topic from diverse application domains, mainly because it can be used to analyze a network in a simple and concise manner by quantifying the significance of graph nodes. Therefore, there exists a respectable number of research works that either propose efficient algorithmic techniques under different settings and graph types or apply the concept to another problem or scientific area. Based on this large interest in the topic, in this survey, we perform an in-depth discussion of core decomposition, focusing mainly on: i) the basic theory and fundamental concepts, ii) the algorithmic techniques proposed for computing it efficiently under different settings, and iii) the applications that can benefit significantly from it. Keywords: Core decomposition, graph mining, graph degeneracy, graph theory, algorithms ∗Center for Visual Computing, CentraleSup´elec,University of Paris-Saclay and Inria Saclay, France. Email: fragkiskos. [email protected] yComputer Science Laboratory, Ecole´ Polytechnique, France. Email: [email protected] zSchool of Informatics, Aristotle University of Thessaloniki, Greece. -
A Survey of Repositories in Graph Theory
A survey of repositories in graph theory Srinibas Swain,∗ C. Paul Bonnington,y Graham Farr,z Kerri Morganx June 24, 2020 Abstract Since the pioneering work of R. M. Foster in the 1930s, many graph repositories have been created to support research in graph theory. This survey reviews many of these graph repositories and summarises the scope and contents of each repository. We identify opportunities for the development of repositories that can be queried in more flexible ways. 1 Introduction The history of graph theory may be traced to 1736, when the Swiss mathe- matician Leonhard Euler solved the K¨onigsberg bridge problem [24]. In re- cent decades, graph theory has established itself as an important mathemat- ical tool in a wide variety of subjects, including computer science, electrical engineering, operational research, chemistry, genetics, linguistics, geogra- phy, sociology and architecture [50]. At the same time it has also become established as a sophisticated mathematical discipline in its own right. Readily available graph data may help graph theory researchers to de- velop insight and intuition. However generating and storing graph data is extremely challenging due to its large magnitude. The number of graphs arXiv:2006.12741v1 [math.CO] 23 Jun 2020 ∗[email protected], Indian Institute of Information Technology Guwahati, Assam 781015, India. [email protected], Monash eResearch Centre, Monash University, Clay- ton, Victoria 3800, Australia. [email protected], Faculty of Information Technology, Monash University, Clayton, Victoria 3800, Australia. [email protected], Deakin University, Geelong, Australia, School of Infor- mation Technology, Faculty of Science Engineering & Built Environment, Australia. -
Graph Homomorphisms: Structure and Symmetry
Graph homomorphisms: structure and symmetry Geˇna HAHN D´epartement d’informatique et de recherche op´erationnelle and Claude TARDIF D´epartement de math´ematiques et de statistique Universit´ede Montr´eal C.P. 6128, succursale Centre-ville Montr´eal, Qu´ebec, H3C 3J7 Canada Abstract This paper is the first part of an introduction to the subject of graph homomorphism in the mixed form of a course and a survey. We give the basic definitions, examples and uses of graph homomorphisms and mention some results that consider the structure and some parameters of the graphs involved. We discuss vertex transitive graphs and Cayley graphs and their rather fundamental role in some aspects of graph homomorphisms. Graph colourings are then explored as homomorphisms, followed by a discussion of various graph products. 1 Introduction Homomorphisms provide a way of simplifying the structure of objects one wishes to study while preserving much of it that is of significance. Most mathematicians remember the iso- morphism theorems we learn in a first course on group theory, and certainly anyone involved in some way with mathematics or computer science knows about integers modulo some n. It is not surprising that homomorphisms also appeared in graph theory, and that they have proven useful in many areas. We do not claim to provide the definitive survey but only an introductory course. Of necessity, we had to omit most proofs and, sadly, even many results and some aspects of the subject matter. But we do try to provide an extensive bibliography and the interested reader will be able to find the missing pieces with little trouble.