Lecture 12 1 Monomial Orderings
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Using Macaulay2 Effectively in Practice
Using Macaulay2 effectively in practice Mike Stillman ([email protected]) Department of Mathematics Cornell 22 July 2019 / IMA Sage/M2 Macaulay2: at a glance Project started in 1993, Dan Grayson and Mike Stillman. Open source. Key computations: Gr¨obnerbases, free resolutions, Hilbert functions and applications of these. Rings, Modules and Chain Complexes are first class objects. Language which is comfortable for mathematicians, yet powerful, expressive, and fun to program in. Now a community project Journal of Software for Algebra and Geometry (started in 2009. Now we handle: Macaulay2, Singular, Gap, Cocoa) (original editors: Greg Smith, Amelia Taylor). Strong community: including about 2 workshops per year. User contributed packages (about 200 so far). Each has doc and tests, is tested every night, and is distributed with M2. Lots of activity Over 2000 math papers refer to Macaulay2. History: 1976-1978 (My undergrad years at Urbana) E. Graham Evans: asked me to write a program to compute syzygies, from Hilbert's algorithm from 1890. Really didn't work on computers of the day (probably might still be an issue!). Instead: Did computation degree by degree, no finishing condition. Used Buchsbaum-Eisenbud \What makes a complex exact" (by hand!) to see if the resulting complex was exact. Winfried Bruns was there too. Very exciting time. History: 1978-1983 (My grad years, with Dave Bayer, at Harvard) History: 1978-1983 (My grad years, with Dave Bayer, at Harvard) I tried to do \real mathematics" but Dave Bayer (basically) rediscovered Groebner bases, and saw that they gave an algorithm for computing all syzygies. I got excited, dropped what I was doing, and we programmed (in Pascal), in less than one week, the first version of what would be Macaulay. -
Ideals, Varieties and Macaulay 2
Ideals, Varieties and Macaulay 2 Bernd Sturmfels? This chapter introduces Macaulay 2 commands for some elementary compu- tations in algebraic geometry. Familiarity with Gr¨obnerbases is assumed. Many students and researchers alike have their first encounter with Gr¨ob- ner bases through the delightful text books [1] and [2] by David Cox, John Little and Donal O'Shea. This chapter illustrates the use of Macaulay 2 for some computations discussed in these books. It can be used as a supplement for an advanced undergraduate course or first-year graduate course in com- putational algebraic geometry. The mathematically advanced reader will find this chapter a useful summary of some basic Macaulay 2 commands. 1 A Curve in Affine Three-Space Our first example concerns geometric objects in (complex) affine 3-space. We start by setting up the ring of polynomial functions with rational coefficients. i1 : R = QQ[x,y,z] o1 = R o1 : PolynomialRing Various monomial orderings are available in Macaulay 2; since we did not specify one explicitly, the monomials in the ring R will be sorted in graded reverse lexicographic order [1, I.2, Definition 6]. We define an ideal generated by two polynomials in this ringx and assign it to the variable named curve. i2 : curve = ideal( x^4-y^5, x^3-y^7 ) 5 4 7 3 o2 = ideal (- y + x , - y + x ) o2 : Ideal of R We compute the reduced Gr¨obnerbasis of our ideal: i3 : gb curve o3 = | y5-x4 x4y2-x3 x8-x3y3 | o3 : GroebnerBasis By inspecting leading terms (and using [1, 9.3, Theorem 8]), we see that our ideal curve does indeed define a one-dimensionalx affine variety. -
Luis David Garcıa Puente
Luis David Garc´ıa Puente Department of Mathematics and Statistics (936) 294-1581 Sam Houston State University [email protected] Huntsville, TX 77341–2206 http://www.shsu.edu/ldg005/ Professional Preparation Universidad Nacional Autonoma´ de Mexico´ (UNAM) Mexico City, Mexico´ B.S. Mathematics (with Honors) 1999 Virginia Polytechnic Institute and State University Blacksburg, VA Ph.D. Mathematics 2004 – Advisor: Reinhard Laubenbacher – Dissertation: Algebraic Geometry of Bayesian Networks University of California, Berkeley Berkeley, CA Postdoctoral Fellow Summer 2004 – Mentor: Lior Pachter Mathematical Sciences Research Institute (MSRI) Berkeley, CA Postdoctoral Fellow Fall 2004 – Mentor: Bernd Sturmfels Texas A&M University College Station, TX Visiting Assistant Professor 2005 – 2007 – Mentor: Frank Sottile Appointments Colorado College Colorado Springs, CO Professor of Mathematics and Computer Science 2021 – Sam Houston State University Huntsville, TX Professor of Mathematics 2019 – 2021 Sam Houston State University Huntsville, TX Associate Department Chair Fall 2017 – 2021 Sam Houston State University Huntsville, TX Associate Professor of Mathematics 2013 – 2019 Statistical and Applied Mathematical Sciences Institute Research Triangle Park, NC SAMSI New Researcher fellowship Spring 2009 Sam Houston State University Huntsville, TX Assistant Professor of Mathematics 2007 – 2013 Virginia Bioinformatics Institute (Virginia Tech) Blacksburg, VA Graduate Research Assistant Spring 2004 Virginia Polytechnic Institute and State University Blacksburg, -
MA/CSSE 473 Day 15 Return Exam
MA/CSSE 473 Day 15 Return Exam Student questions Towers of Hanoi Subsets Ordered Permutations MA/CSSE 473 Day 13 • Student Questions on exam or anything else •Towers of Hanoi • Subset generation –Gray code • Permutations and order 1 Towers of Hanoi •Move all disks from peg A to peg B •One at a time • Never place larger disk on top of a smaller disk •Demo •Code • Recurrence and solution Towers of Hanoi code Recurrence for number of moves, and its solution? 2 Permutations and order number permutation number permutation •Given a permutation 0 0123 12 2013 of 0, 1, …, n‐1, can 1 0132 13 2031 2 0213 14 2103 we directly find the 3 0231 15 2130 next permutation in 4 0312 16 2301 the lexicographic 5 0321 17 2310 sequence? 6 1023 18 3012 7 1032 19 3021 •Given a permutation 8 1203 20 3102 of 0..n‐1, can we 9 1230 21 3120 determine its 10 1302 22 3201 11 1320 23 3210 permutation sequence number? •Given n and i, can we directly generate the ith permutation of 0, …, n‐1? Subset generation • Goal: generate all subsets of {0, 1, 2, …, N‐1} • Bottom‐up (decrease‐by‐one) approach •First generate Sn‐1, the collection of all subsets of {0, …, N‐2} •Then Sn = Sn‐1 { Sn‐1 {n‐1} : sSn‐1} 3 Subset generation • Numeric approach: Each subset of {0, …, N‐1} corresponds to an bit string of length N where the ith bit is 1 iff i is in the subset. •So each subset can be represented by N bits. -
Homological Algebra of Monomial Ideals
Homological Algebra of Monomial Ideals Caitlyn Booms A senior thesis completed under the guidance of Professor Claudiu Raicu as part of the SUMR program and towards the completion of a Bachelors of Science in Mathematics with an Honors Concentration. Department of Mathematics May 8, 2018 Contents 1 Introduction 2 2 Homological Algebra 3 2.1 Exact Sequences and Projective and Injective Modules . .3 2.2 Ext and Tor . .5 2.3 Free Resolutions Over the Polynomial Ring . 11 3 Monomial Ideals 13 3.1 Introduction to Monomial Ideals . 13 3.2 Simplicial Complexes . 15 3.3 Graphs and Edge Ideals . 16 4 Useful Applications 17 4.1 Fröberg's Theorem . 22 5 Computing Exti for Monomial Ideals 24 S(S=I; S) 5.1 In the Polynomial Ring with Two Variables . 26 5.2 In the Multivariate Polynomial Ring . 32 1 1 Introduction An important direction in commutative algebra is the study of homological invariants asso- ciated to ideals in a polynomial ring. These invariants tend to be quite mysterious for even some of the simplest ideals, such as those generated by monomials, which we address here. Let S = k[x1; : : : ; xn] be the polynomial ring in n variables over a eld k.A monomial in is an element of the form a1 an where each (possibly zero), and an ideal S x1 ··· xn ai 2 N I ⊆ S is a monomial ideal if it is generated by monomials. Although they arise most naturally in commutative algebra and algebraic geometry, monomial ideals can be further understood using techniques from combinatorics and topology. -
1 (15 Points) Lexicosort
CS161 Homework 2 Due: 22 April 2016, 12 noon Submit on Gradescope Handed out: 15 April 2016 Instructions: Please answer the following questions to the best of your ability. If you are asked to show your work, please include relevant calculations for deriving your answer. If you are asked to explain your answer, give a short (∼ 1 sentence) intuitive description of your answer. If you are asked to prove a result, please write a complete proof at the level of detail and rigor expected in prior CS Theory classes (i.e. 103). When writing proofs, please strive for clarity and brevity (in that order). Cite any sources you reference. 1 (15 points) LexicoSort In class, we learned how to use CountingSort to efficiently sort sequences of values drawn from a set of constant size. In this problem, we will explore how this method lends itself to lexicographic sorting. Let S = `s1s2:::sa' and T = `t1t2:::tb' be strings of length a and b, respectively (we call si the ith letter of S). We say that S is lexicographically less than T , denoting S <lex T , if either • a < b and si = ti for all i = 1; 2; :::; a, or • There exists an index i ≤ min fa; bg such that sj = tj for all j = 1; 2; :::; i − 1 and si < ti. Lexicographic sorting algorithm aims to sort a given set of n strings into lexicographically ascending order (in case of ties due to identical strings, then in non-descending order). For each of the following, describe your algorithm clearly, and analyze its running time and prove cor- rectness. -
An Alternative Algorithm for Computing the Betti Table of a Monomial Ideal 3
AN ALTERNATIVE ALGORITHM FOR COMPUTING THE BETTI TABLE OF A MONOMIAL IDEAL MARIA-LAURA TORRENTE AND MATTEO VARBARO Abstract. In this paper we develop a new technique to compute the Betti table of a monomial ideal. We present a prototype implementation of the resulting algorithm and we perform numerical experiments suggesting a very promising efficiency. On the way of describing the method, we also prove new constraints on the shape of the possible Betti tables of a monomial ideal. 1. Introduction Since many years syzygies, and more generally free resolutions, are central in purely theo- retical aspects of algebraic geometry; more recently, after the connection between algebra and statistics have been initiated by Diaconis and Sturmfels in [DS98], free resolutions have also become an important tool in statistics (for instance, see [D11, SW09]). As a consequence, it is fundamental to have efficient algorithms to compute them. The usual approach uses Gr¨obner bases and exploits a result of Schreyer (for more details see [Sc80, Sc91] or [Ei95, Chapter 15, Section 5]). The packages for free resolutions of the most used computer algebra systems, like [Macaulay2, Singular, CoCoA], are based on these techniques. In this paper, we introduce a new algorithmic method to compute the minimal graded free resolution of any finitely generated graded module over a polynomial ring such that some (possibly non- minimal) graded free resolution is known a priori. We describe this method and we present the resulting algorithm in the case of monomial ideals in a polynomial ring, in which situ- ation we always have a starting nonminimal graded free resolution. -
Computations in Algebraic Geometry with Macaulay 2
Computations in algebraic geometry with Macaulay 2 Editors: D. Eisenbud, D. Grayson, M. Stillman, and B. Sturmfels Preface Systems of polynomial equations arise throughout mathematics, science, and engineering. Algebraic geometry provides powerful theoretical techniques for studying the qualitative and quantitative features of their solution sets. Re- cently developed algorithms have made theoretical aspects of the subject accessible to a broad range of mathematicians and scientists. The algorith- mic approach to the subject has two principal aims: developing new tools for research within mathematics, and providing new tools for modeling and solv- ing problems that arise in the sciences and engineering. A healthy synergy emerges, as new theorems yield new algorithms and emerging applications lead to new theoretical questions. This book presents algorithmic tools for algebraic geometry and experi- mental applications of them. It also introduces a software system in which the tools have been implemented and with which the experiments can be carried out. Macaulay 2 is a computer algebra system devoted to supporting research in algebraic geometry, commutative algebra, and their applications. The reader of this book will encounter Macaulay 2 in the context of concrete applications and practical computations in algebraic geometry. The expositions of the algorithmic tools presented here are designed to serve as a useful guide for those wishing to bring such tools to bear on their own problems. A wide range of mathematical scientists should find these expositions valuable. This includes both the users of other programs similar to Macaulay 2 (for example, Singular and CoCoA) and those who are not interested in explicit machine computations at all. -
A Simplified Introduction to Virus Propagation Using Maple's Turtle Graphics Package
E. Roanes-Lozano, C. Solano-Macías & E. Roanes-Macías.: A simplified introduction to virus propagation using Maple's Turtle Graphics package A simplified introduction to virus propagation using Maple's Turtle Graphics package Eugenio Roanes-Lozano Instituto de Matemática Interdisciplinar & Departamento de Didáctica de las Ciencias Experimentales, Sociales y Matemáticas Facultad de Educación, Universidad Complutense de Madrid, Spain Carmen Solano-Macías Departamento de Información y Comunicación Facultad de CC. de la Documentación y Comunicación, Universidad de Extremadura, Spain Eugenio Roanes-Macías Departamento de Álgebra, Universidad Complutense de Madrid, Spain [email protected] ; [email protected] ; [email protected] Partially funded by the research project PGC2018-096509-B-100 (Government of Spain) 1 E. Roanes-Lozano, C. Solano-Macías & E. Roanes-Macías.: A simplified introduction to virus propagation using Maple's Turtle Graphics package 1. INTRODUCTION: TURTLE GEOMETRY AND LOGO • Logo language: developed at the end of the ‘60s • Characterized by the use of Turtle Geometry (a.k.a. as Turtle Graphics). • Oriented to introduce kids to programming (Papert, 1980). • Basic movements of the turtle (graphic cursor): FD, BK RT, LT. • It is not based on a Cartesian Coordinate system. 2 E. Roanes-Lozano, C. Solano-Macías & E. Roanes-Macías.: A simplified introduction to virus propagation using Maple's Turtle Graphics package • Initially robots were used to plot the trail of the turtle. http://cyberneticzoo.com/cyberneticanimals/1969-the-logo-turtle-seymour-papert-marvin-minsky-et-al-american/ 3 E. Roanes-Lozano, C. Solano-Macías & E. Roanes-Macías.: A simplified introduction to virus propagation using Maple's Turtle Graphics package • IBM Logo / LCSI Logo (’80) 4 E. -
Total Ordering on Subgroups and Cosets
Total Ordering on Subgroups and Cosets ∗ Alexander Hulpke Steve Linton Department of Mathematics Centre for Interdisciplinary Research in Colorado State University Computational Algebra 1874 Campus Delivery University of St Andrews Fort Collins, CO 80523-1874 The North Haugh [email protected] St Andrews, Fife KY16 9SS, U.K. [email protected] ABSTRACT permutation is thus the identity element ( ).) In the sym- We show how to compute efficiently a lexicographic order- metric group Sn this comparison of elements takes at most ing for subgroups and cosets of permutation groups and, n point comparisons. In a similar way a total order on a field F induces a to- more generally, of finite groups with a faithful permutation n representation. tal lexicographic order on the n-dimensional row space F which in turn induces a total (again lexicographic) order on the set F n×n of n×n matrices with entries in F . A compar- Categories and Subject Descriptors ison of two matrices takes at most n2 comparisons of field F[2]: 2; G [2]: 1; I [1]: 2 elements. As a third case we consider the automorphism group G of a (finite) group A. A total order on the elements of A again General Terms induces a total order on the elements of G by lexicographic Algorithms comparison of the images of a generating list L of A. (It can be convenient to take L to be sorted as well. The most Keywords “generic” choice is probably L = A.) Comparison of two automorphisms will take at most |L| comparisons of images. -
Implementing Language-Dependent Lexicographic Orders in Scheme
Implementing Language-Dependent Lexicographic Orders in Scheme Jean-Michel HUFFLEN LIFC (EA CNRS 4157) — University of Franche-Comté 16, route de Gray — 25030 BESANÇON CEDEX — FRANCE Abstract algorithm related to Unicode, an industry standard designed to al- The lexicographical order relations used within dictionaries are low text and symbols from all of the writing systems of the world to language-dependent, and we explain how we implemented such be consistently represented [2006]. Our method can be generalised orders in Scheme. We show how our sorting orders are derived to other alphabets. In addition, let us mention that if a document from the Unicode collation algorithm. Since the result of a Scheme cites some works written using the Latin alphabet and some writ- function can be itself a function, we use generators of sorting ten using another alphabet (Arabic, Cyrillic, . ), they are usually orders. Specifying a sorting order for a new natural language has itemised in two separate bibliography sections. So this limitation is been made as easy as possible and can be done by a programmer not too restrictive within MlBIBTEX’s purpose. who just has basic knowledge of Scheme. We also show how The next section of this article is devoted to some examples Scheme data structures allow our functions to be programmed in order to give some idea of this task’s complexity. We briefly efficiently. recall the principles of the Unicode collation algorithm [2006a] in Section 3 and explain how we adapted it in Scheme in Section 4. Keywords Lexicographical order relations, collation algorithm, Section 5 discusses some points, gives some limitations of our Unicode, MlBIBTEX, Scheme. -
What Can Computer Algebraic Geometry Do Today?
What can computer Algebraic Geometry do today? Gregory G. Smith Wolfram Decker Mike Stillman 14 July 2015 Essential Questions ̭ What can be computed? ̭ What software is currently available? ̭ What would you like to compute? ̭ How should software advance your research? Basic Mathematical Types ̭ Polynomial Rings, Ideals, Modules, ̭ Varieties (affine, projective, toric, abstract), ̭ Sheaves, Divisors, Intersection Rings, ̭ Maps, Chain Complexes, Homology, ̭ Polyhedra, Graphs, Matroids, ̯ Established Geometric Tools ̭ Elimination, Blowups, Normalization, ̭ Rational maps, Working with divisors, ̭ Components, Parametrizing curves, ̭ Sheaf Cohomology, ঠ-modules, ̯ Emerging Geometric Tools ̭ Classification of singularities, ̭ Numerical algebraic geometry, ̭ ैक़௴Ь, Derived equivalences, ̭ Deformation theory,Positivity, ̯ Some Geometric Successes ̭ GEOGRAPHY OF SURFACES: exhibiting surfaces with given invariants ̭ BOIJ-SÖDERBERG: examples lead to new conjectures and theorems ̭ MODULI SPACES: computer aided proofs of unirationality Some Existing Software ̭ GAP,Macaulay2, SINGULAR, ̭ CoCoA, Magma, Sage, PARI, RISA/ASIR, ̭ Gfan, Polymake, Normaliz, 4ti2, ̭ Bertini, PHCpack, Schubert, Bergman, an idiosyncratic and incomplete list Effective Software ̭ USEABLE: documented examples ̭ MAINTAINABLE: includes tests, part of a larger distribution ̭ PUBLISHABLE: Journal of Software for Algebra and Geometry; www.j-sag.org ̭ CITATIONS: reference software Recent Developments in Singular Wolfram Decker Janko B¨ohm, Hans Sch¨onemann, Mathias Schulze Mohamed Barakat TU Kaiserslautern July 14, 2015 Wolfram Decker (TU-KL) Recent Developments in Singular July 14, 2015 1 / 24 commutative and non-commutative algebra, singularity theory, and with packages for convex and tropical geometry. It is free and open-source under the GNU General Public Licence.