The Topology of the Permutation Pattern Poset Peter Mcnamara, Einar Steingrımsson
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Sorting Separable Permutations by Restricted Multi-Break Rearrangements
Matem´atica Contempor^anea, Vol. 44,1{10 c 2015, Sociedade Brasileira de Matem´atica Sorting Separable Permutations by Restricted Multi-break Rearrangements Lu´ısFelipe I. Cunha Luis Antonio B. Kowada Celina M. H. de Figueiredo Abstract A multi-break rearrangement generalizes most of genome rear- rangements, such as block-interchanges, transpositions and rever- sals. A k-break cuts k adjacencies over a permutation, and forms k new adjacencies by joining the extremities according to an arbi- trary matching. Block-interchange distance is a polynomial problem, but the transposition and the reversal distances are both NP-hard problems. A FPT algorithm is known for the multi-break distance between two permutations. We propose the restricted multi-break rearrangement (rmb), where a restricted k-break cuts k adjacencies but forms k new adjacencies according to a fixed matching. By considering permutations graphs we are able to formulate a better way to represent the orders of a permutations. Cographs are P4-free graphs, a subclass of permutation graphs. The permutations that characterize cographs are the separable permutations, exactly the permutations which do not contain particular patterns that yield P4's. By using their cotree representation, we give an algorithm to sort by rmb the separable permutations. 2000 AMS Subject Classification: 68Q17, 68P10 and 05A05. Key Words and Phrases: Algorithms, Genome rearrangements, Sorting permuta- tions, Cographs Supported by CAPES, CNPq, and FAPERJ. Sorting Separable Permutations by Restricted Multi-break Rearrangements 2 1 Introduction Genome rearrangements ask for the minimum number of mutational events over a genome required to transform a genome into another one. -
Complete Edge-Colored Permutation Graphs
Complete Edge-Colored Permutation Graphs Tom Hartmann1,*, Max Bannach2, Martin Middendorf3, Peter F. Stadler1,4-8, Nicolas Wieseke3, and Marc Hellmuth9,* 1Bioinformatics Group, Department of Computer Science & Interdisciplinary Center for Bioinformatics, Universit¨atLeipzig, H¨artelstraße 16{18, D-04107 Leipzig, Germany. 2Institute for Theoretical Computer Science, Universit¨atzu L¨ubeck, Ratzeburger Allee 160, D-23562 L¨ubeck, Germany. 3Swarm Intelligence and Complex Systems Group, Faculty of Mathematics and Computer Science, University of Leipzig, Augustusplatz 10, D-04109 Leipzig, Germany. 4German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Competence Center for Scalable Data Services and Solutions Dresden-Leipzig, Leipzig Research Center for Civilization Diseases, and Centre for Biotechnology and Biomedicine at Leipzig University at Universit¨atLeipzig 5Max Planck Institute for Mathematics in the Sciences, Inselstraße 22, D-04103 Leipzig, Germany 6Institute for Theoretical Chemistry, University of Vienna, W¨ahringerstrasse 17, A-1090 Wien, Austria 7Facultad de Ciencias, Universidad National de Colombia, Sede Bogot´a,Colombia 8Santa Fe Insitute, 1399 Hyde Park Rd., Santa Fe NM 87501, USA 9School of Computing, University of Leeds, EC Stoner Building, Leeds LS2 9JT, UK *corresponding author Abstract We introduce the concept of complete edge-colored permutation graphs as complete graphs that are the edge-disjoint union of \classical" permutation graphs. We show that a graph G = (V; E) is a com- plete edge-colored permutation graph if and only if each monochromatic subgraph of G is a \classical" permutation graph and G does not contain a triangle with 3 different colors. Using the modular decompo- sition as a framework we demonstrate that complete edge-colored permutation graphs are characterized in terms of their strong prime modules, which induce also complete edge-colored permutation graphs. -
Permutation Patterns 2021 Virtual Workshop, Hosted by the Combinatorics Group at the University of Strathclyde
15th & 16th June 2021 A very warm welcome to the Permutation Patterns 2021 Virtual Workshop, hosted by the Combinatorics Group at the University of Strathclyde. Programme All workshop activities will take place online. Registered participants will receive a Zoom link for the sessions, along with links to the pre-recorded keynote addresses so they can be watched asynchronously. There will be four sessions on both days. During Sessions A, B and D (one hour), six speakers will each give a five minute presentation and then take questions. During Session C (thirty minutes), one of the keynote speakers will give a 10–15 minute summary of their address, followed by an opportunity for discussion. The full pre-recorded keynote address will be streamed online during the break immediately prior to Session C for the benefit of those who weren’t able to watch it earlier. Schedule The synchronous sessions will take place during the late afternoon and evening in Europe. The full schedule is on the following two pages, with links to all the abstracts. Session times use British Summer Time (UTC+1). Here are the times in some other locations. Session A Session B Session C Session D US Pacific 08.00 09.30 11.45 12.30 US Central 10.00 11.30 13.45 14.30 US Eastern 11.00 12.30 14.45 15.30 UK & Ireland 16.00 17.30 19.45 20.30 Central Europe 17.00 18.30 20.45 21.30 Israel 18.00 19.30 21.45 22.30 India 20.30 22.00 00.15 01.00 China 23.00 00.30 02.45 03.30 Eastern Australia 01.00 02.30 04.45 05.30 New Zealand 03.00 04.30 06.45 07.30 Proceedings A special issue of Enumerative Combinatorics and Applications (ECA) will be published to mark the conference. -
Graph Theory, an Antiprism Graph Is a Graph That Has One of the Antiprisms As Its Skeleton
Graph families From Wikipedia, the free encyclopedia Chapter 1 Antiprism graph In the mathematical field of graph theory, an antiprism graph is a graph that has one of the antiprisms as its skeleton. An n-sided antiprism has 2n vertices and 4n edges. They are regular, polyhedral (and therefore by necessity also 3- vertex-connected, vertex-transitive, and planar graphs), and also Hamiltonian graphs.[1] 1.1 Examples The first graph in the sequence, the octahedral graph, has 6 vertices and 12 edges. Later graphs in the sequence may be named after the type of antiprism they correspond to: • Octahedral graph – 6 vertices, 12 edges • square antiprismatic graph – 8 vertices, 16 edges • Pentagonal antiprismatic graph – 10 vertices, 20 edges • Hexagonal antiprismatic graph – 12 vertices, 24 edges • Heptagonal antiprismatic graph – 14 vertices, 28 edges • Octagonal antiprismatic graph– 16 vertices, 32 edges • ... Although geometrically the star polygons also form the faces of a different sequence of (self-intersecting) antiprisms, the star antiprisms, they do not form a different sequence of graphs. 1.2 Related graphs An antiprism graph is a special case of a circulant graph, Ci₂n(2,1). Other infinite sequences of polyhedral graph formed in a similar way from polyhedra with regular-polygon bases include the prism graphs (graphs of prisms) and wheel graphs (graphs of pyramids). Other vertex-transitive polyhedral graphs include the Archimedean graphs. 1.3 References [1] Read, R. C. and Wilson, R. J. An Atlas of Graphs, Oxford, England: Oxford University Press, 2004 reprint, Chapter 6 special graphs pp. 261, 270. 2 1.4. EXTERNAL LINKS 3 1.4 External links • Weisstein, Eric W., “Antiprism graph”, MathWorld.