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Sequence Distance Embeddings
Sequence Distance Embeddings by Graham Cormode Thesis Submitted to the University of Warwick for the degree of Doctor of Philosophy Computer Science January 2003 Contents List of Figures vi Acknowledgments viii Declarations ix Abstract xi Abbreviations xii Chapter 1 Starting 1 1.1 Sequence Distances . ....................................... 2 1.1.1 Metrics ............................................ 3 1.1.2 Editing Distances ...................................... 3 1.1.3 Embeddings . ....................................... 3 1.2 Sets and Vectors ........................................... 4 1.2.1 Set Difference and Set Union . .............................. 4 1.2.2 Symmetric Difference . .................................. 5 1.2.3 Intersection Size ...................................... 5 1.2.4 Vector Norms . ....................................... 5 1.3 Permutations ............................................ 6 1.3.1 Reversal Distance ...................................... 7 1.3.2 Transposition Distance . .................................. 7 1.3.3 Swap Distance ....................................... 8 1.3.4 Permutation Edit Distance . .............................. 8 1.3.5 Reversals, Indels, Transpositions, Edits (RITE) . .................... 9 1.4 Strings ................................................ 9 1.4.1 Hamming Distance . .................................. 10 1.4.2 Edit Distance . ....................................... 10 1.4.3 Block Edit Distances . .................................. 11 1.5 Sequence Distance Problems . ................................. -
Mceliece Cryptosystem Based on Extended Golay Code
McEliece Cryptosystem Based On Extended Golay Code Amandeep Singh Bhatia∗ and Ajay Kumar Department of Computer Science, Thapar university, India E-mail: ∗[email protected] (Dated: November 16, 2018) With increasing advancements in technology, it is expected that the emergence of a quantum computer will potentially break many of the public-key cryptosystems currently in use. It will negotiate the confidentiality and integrity of communications. In this regard, we have privacy protectors (i.e. Post-Quantum Cryptography), which resists attacks by quantum computers, deals with cryptosystems that run on conventional computers and are secure against attacks by quantum computers. The practice of code-based cryptography is a trade-off between security and efficiency. In this chapter, we have explored The most successful McEliece cryptosystem, based on extended Golay code [24, 12, 8]. We have examined the implications of using an extended Golay code in place of usual Goppa code in McEliece cryptosystem. Further, we have implemented a McEliece cryptosystem based on extended Golay code using MATLAB. The extended Golay code has lots of practical applications. The main advantage of using extended Golay code is that it has codeword of length 24, a minimum Hamming distance of 8 allows us to detect 7-bit errors while correcting for 3 or fewer errors simultaneously and can be transmitted at high data rate. I. INTRODUCTION Over the last three decades, public key cryptosystems (Diffie-Hellman key exchange, the RSA cryptosystem, digital signature algorithm (DSA), and Elliptic curve cryptosystems) has become a crucial component of cyber security. In this regard, security depends on the difficulty of a definite number of theoretic problems (integer factorization or the discrete log problem). -
The Theory of Error-Correcting Codes the Ternary Golay Codes and Related Structures
Math 28: The Theory of Error-Correcting Codes The ternary Golay codes and related structures We have seen already that if C is an extremal [12; 6; 6] Type III code then C attains equality in the LP bounds (and conversely the LP bounds show that any ternary (12; 36; 6) code is a translate of such a C); ear- lier we observed that removing any coordinate from C yields a perfect 2-error-correcting [11; 6; 5] ternary code. Since C is extremal, we also know that its Hamming weight enumerator is uniquely determined, and compute 3 3 3 3 3 3 12 6 6 3 9 12 WC (X; Y ) = (X(X + 8Y )) − 24(Y (X − Y )) = X + 264X Y + 440X Y + 24Y : Here are some further remarkable properties that quickly follow: A (5,6,12) Steiner system. The minimal words form 132 pairs fc; −cg with the same support. Let S be the family of these 132 supports. We claim S is a (5; 6; 12) Steiner system; that is, that any pentad (5-element 12 6 set of coordinates) is a subset of a unique hexad in S. Because S has the right size 5 5 , it is enough to show that no two hexads intersect in exactly 5 points. If they did, then we would have some c; c0 2 C, both of weight 6, whose supports have exactly 5 points in common. But then c0 would agree with either c or −c on at least 3 of these points (and thus on exactly 4, because (c; c0) = 0), making c0 ∓ c a nonzero codeword of weight less than 5 (and thus exactly 3), which is a contradiction. -
Review of Binary Codes for Error Detection and Correction
` ISSN(Online): 2319-8753 ISSN (Print): 2347-6710 International Journal of Innovative Research in Science, Engineering and Technology (A High Impact Factor, Monthly, Peer Reviewed Journal) Visit: www.ijirset.com Vol. 7, Issue 4, April 2018 Review of Binary Codes for Error Detection and Correction Eisha Khan, Nishi Pandey and Neelesh Gupta M. Tech. Scholar, VLSI Design and Embedded System, TCST, Bhopal, India Assistant Professor, VLSI Design and Embedded System, TCST, Bhopal, India Head of Dept., VLSI Design and Embedded System, TCST, Bhopal, India ABSTRACT: Golay Code is a type of Error Correction code discovered and performance very close to Shanon‟s limit . Good error correcting performance enables reliable communication. Since its discovery by Marcel J.E. Golay there is more research going on for its efficient construction and implementation. The binary Golay code (G23) is represented as (23, 12, 7), while the extended binary Golay code (G24) is as (24, 12, 8). High speed with low-latency architecture has been designed and implemented in Virtex-4 FPGA for Golay encoder without incorporating linear feedback shift register. This brief also presents an optimized and low-complexity decoding architecture for extended binary Golay code (24, 12, 8) based on an incomplete maximum likelihood decoding scheme. KEYWORDS: Golay Code, Decoder, Encoder, Field Programmable Gate Array (FPGA) I. INTRODUCTION Communication system transmits data from source to transmitter through a channel or medium such as wired or wireless. The reliability of received data depends on the channel medium and external noise and this noise creates interference to the signal and introduces errors in transmitted data. -
Bilinear Forms Over a Finite Field, with Applications to Coding Theory
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by Elsevier - Publisher Connector JOURNAL OF COMBINATORIAL THEORY, Series A 25, 226-241 (1978) Bilinear Forms over a Finite Field, with Applications to Coding Theory PH. DELSARTE MBLE Research Laboratory, Brussels, Belgium Communicated by J. H. can Lint Received December 7, 1976 Let 0 be the set of bilinear forms on a pair of finite-dimensional vector spaces over GF(q). If two bilinear forms are associated according to their q-distance (i.e., the rank of their difference), then Q becomes an association scheme. The characters of the adjacency algebra of Q, which yield the MacWilliams transform on q-distance enumerators, are expressed in terms of generalized Krawtchouk polynomials. The main emphasis is put on subsets of s2 and their q-distance structure. Certain q-ary codes are attached to a given XC 0; the Hamming distance enumerators of these codes depend only on the q-distance enumerator of X. Interesting examples are provided by Singleton systems XC 0, which are defined as t-designs of index 1 in a suitable semilattice (for a given integer t). The q-distance enumerator of a Singleton system is explicitly determined from the parameters. Finally, a construction of Singleton systems is given for all values of the parameters. 1. INTRODUCTION Classical coding theory may be introduced as follows. Let r denote a finite-dimensional vector space over the finite field K. The Hamming weight wt(f) of a vector f E r is the number of nonzero coordinates off in a fixed K-basis of lY Then (r, wt) is a normed space, called Hamming space; and a code simply is a nonempty subset of r endowed with the Hamming distance attached to wt. -
A Parallel Algorithm for Query Adaptive, Locality Sensitive Hash
A CUDA Based Parallel Decoding Algorithm for the Leech Lattice Locality Sensitive Hash Family A thesis submitted to the Division of Research and Advanced Studies of the University of Cincinnati in partial fulfillment of the requirements for the degree of MASTER OF SCIENCE in the School of Electric and Computing Systems of the College of Engineering and Applied Sciences November 03, 2011 by Lee A Carraher BSCE, University of Cincinnati, 2008 Thesis Advisor and Committee Chair: Dr. Fred Annexstein Abstract Nearest neighbor search is a fundamental requirement of many machine learning algorithms and is essential to fuzzy information retrieval. The utility of efficient database search and construction has broad utility in a variety of computing fields. Applications such as coding theory and compression for electronic commu- nication systems as well as use in artificial intelligence for pattern and object recognition. In this thesis, a particular subset of nearest neighbors is consider, referred to as c-approximate k-nearest neighbors search. This particular variation relaxes the constraints of exact nearest neighbors by introducing a probability of finding the correct nearest neighbor c, which offers considerable advantages to the computational complexity of the search algorithm and the database overhead requirements. Furthermore, it extends the original nearest neighbors algorithm by returning a set of k candidate nearest neighbors, from which expert or exact distance calculations can be considered. Furthermore thesis extends the implementation of c-approximate k-nearest neighbors search so that it is able to utilize the burgeoning GPGPU computing field. The specific form of c-approximate k-nearest neighbors search implemented is based on the locality sensitive hash search from the E2LSH package of Indyk and Andoni [1]. -
On the Algebraic Structure of Quasi Group Codes
ON THE ALGEBRAIC STRUCTURE OF QUASI GROUP CODES MARTINO BORELLO AND WOLFGANG WILLEMS Abstract. In this note, an intrinsic description of some families of linear codes with symmetries is given, showing that they can be described more generally as quasi group codes, that is as linear codes with a free group of permutation automorphisms. An algebraic description, including the concatenated structure, of such codes is presented. Finally, self-duality of quasi group codes is investigated. 1. Introduction In the theory of error correcting codes, the linear ones play a central role for their algebraic properties which allow, for example, their easy description and storage. Quite early in their study, it appeared convenient to add additional algebraic structure in order to get more information about the parameters and to facilitate the decoding process. In 1957, E. Prange introduced the now well- known class of cyclic codes [18], which are the forefathers of many other families of codes with symmetries introduced later. In particular, abelian codes [2], group codes [15], quasi-cyclic codes [9] and quasi-abelian codes [19] are distinguished descendants of cyclic codes: they have a nice algebraic structure and many optimal codes belong to these families. The aim of the current note is to give an intrinsic description of these classes in terms of their permutation automorphism groups: we will show that all of them have a free group of permutation automorphisms (which is not necessarily the full permutation automorphism group of the code). We will define a code with this property as a quasi group code. So all families cited above can be described in this way. -
Error Detection and Correction Using the BCH Code 1
Error Detection and Correction Using the BCH Code 1 Error Detection and Correction Using the BCH Code Hank Wallace Copyright (C) 2001 Hank Wallace The Information Environment The information revolution is in full swing, having matured over the last thirty or so years. It is estimated that there are hundreds of millions to several billion web pages on computers connected to the Internet, depending on whom you ask and the time of day. As of this writing, the google.com search engine listed 1,346,966,000 web pages in its database. Add to that email, FTP transactions, virtual private networks and other traffic, and the data volume swells to many terabits per day. We have all learned new standard multiplier prefixes as a result of this explosion. These days, the prefix “mega,” or million, when used in advertising (“Mega Cola”) actually makes the product seem trite. With all these terabits per second flying around the world on copper cable, optical fiber, and microwave links, the question arises: How reliable are these networks? If we lose only 0.001% of the data on a one gigabit per second network link, that amounts to ten thousand bits per second! A typical newspaper story contains 1,000 words, or about 42,000 bits of information. Imagine losing a newspaper story on the wires every four seconds, or 900 stories per hour. Even a small error rate becomes impractical as data rates increase to stratospheric levels as they have over the last decade. Given the fact that all networks corrupt the data sent through them to some extent, is there something that we can do to ensure good data gets through poor networks intact? Enter Claude Shannon In 1948, Dr. -
Error-Correction and the Binary Golay Code
London Mathematical Society Impact150 Stories 1 (2016) 51{58 C 2016 Author(s) doi:10.1112/i150lms/t.0003 e Error-correction and the binary Golay code R.T.Curtis Abstract Linear algebra and, in particular, the theory of vector spaces over finite fields has provided a rich source of error-correcting codes which enable the receiver of a corrupted message to deduce what was originally sent. Although more efficient codes have been devised in recent years, the 12- dimensional binary Golay code remains one of the most mathematically fascinating such codes: not only has it been used to send messages back to earth from the Voyager space probes, but it is also involved in many of the most extraordinary and beautiful algebraic structures. This article describes how the code can be obtained in two elementary ways, and explains how it can be used to correct errors which arise during transmission 1. Introduction Whenever a message is sent - along a telephone wire, over the internet, or simply by shouting across a crowded room - there is always the possibly that the message will be damaged during transmission. This may be caused by electronic noise or static, by electromagnetic radiation, or simply by the hubbub of people in the room chattering to one another. An error-correcting code is a means by which the original message can be recovered by the recipient even though it has been corrupted en route. Most commonly a message is sent as a sequence of 0s and 1s. Usually when a 0 is sent a 0 is received, and when a 1 is sent a 1 is received; however occasionally, and hopefully rarely, a 0 is sent but a 1 is received, or vice versa. -
The Binary Golay Code and the Leech Lattice
The binary Golay code and the Leech lattice Recall from previous talks: Def 1: (linear code) A code C over a field F is called linear if the code contains any linear combinations of its codewords A k-dimensional linear code of length n with minimal Hamming distance d is said to be an [n, k, d]-code. Why are linear codes interesting? ● Error-correcting codes have a wide range of applications in telecommunication. ● A field where transmissions are particularly important is space probes, due to a combination of a harsh environment and cost restrictions. ● Linear codes were used for space-probes because they allowed for just-in-time encoding, as memory was error-prone and heavy. Space-probe example The Hamming weight enumerator Def 2: (weight of a codeword) The weight w(u) of a codeword u is the number of its nonzero coordinates. Def 3: (Hamming weight enumerator) The Hamming weight enumerator of C is the polynomial: n n−i i W C (X ,Y )=∑ Ai X Y i=0 where Ai is the number of codeword of weight i. Example (Example 2.1, [8]) For the binary Hamming code of length 7 the weight enumerator is given by: 7 4 3 3 4 7 W H (X ,Y )= X +7 X Y +7 X Y +Y Dual and doubly even codes Def 4: (dual code) For a code C we define the dual code C˚ to be the linear code of codewords orthogonal to all of C. Def 5: (doubly even code) A binary code C is called doubly even if the weights of all its codewords are divisible by 4. -
Scribe Notes
6.440 Essential Coding Theory Feb 19, 2008 Lecture 4 Lecturer: Madhu Sudan Scribe: Ning Xie Today we are going to discuss limitations of codes. More specifically, we will see rate upper bounds of codes, including Singleton bound, Hamming bound, Plotkin bound, Elias bound and Johnson bound. 1 Review of last lecture n k Let C Σ be an error correcting code. We say C is an (n, k, d)q code if Σ = q, C q and ∆(C) d, ⊆ | | | | ≥ ≥ where ∆(C) denotes the minimum distance of C. We write C as [n, k, d]q code if furthermore the code is a F k linear subspace over q (i.e., C is a linear code). Define the rate of code C as R := n and relative distance d as δ := n . Usually we fix q and study the asymptotic behaviors of R and δ as n . Recall last time we gave an existence result, namely the Gilbert-Varshamov(GV)→ ∞ bound constructed by greedy codes (Varshamov bound corresponds to greedy linear codes). For q = 2, GV bound gives codes with k n log2 Vol(n, d 2). Asymptotically this shows the existence of codes with R 1 H(δ), which is similar≥ to− Shannon’s result.− Today we are going to see some upper bound results, that≥ is,− code beyond certain bounds does not exist. 2 Singleton bound Theorem 1 (Singleton bound) For any code with any alphabet size q, R + δ 1. ≤ Proof Let C Σn be a code with C Σ k. The main idea is to project the code C on to the first k 1 ⊆ | | ≥ | | n k−1 − coordinates. -
The Chromatic Number of the Square of the 8-Cube
The chromatic number of the square of the 8-cube Janne I. Kokkala∗ and Patric R. J. Osterg˚ard¨ † Department of Communications and Networking Aalto University School of Electrical Engineering P.O. Box 13000, 00076 Aalto, Finland Abstract A cube-like graph is a Cayley graph for the elementary abelian group of order 2n. In studies of the chromatic number of cube-like k graphs, the kth power of the n-dimensional hypercube, Qn, is fre- quently considered. This coloring problem can be considered in the k framework of coding theory, as the graph Qn can be constructed with one vertex for each binary word of length n and edges between ver- tices exactly when the Hamming distance between the corresponding k words is at most k. Consequently, a proper coloring of Qn corresponds to a partition of the n-dimensional binary Hamming space into codes with minimum distance at least k + 1. The smallest open case, the 2 chromatic number of Q8, is here settled by finding a 13-coloring. Such 13-colorings with specific symmetries are further classified. 1 Introduction arXiv:1607.01605v1 [math.CO] 6 Jul 2016 A cube-like graph is a Cayley graph for the elementary abelian group of order 2n. One of the original motivations for studying cube-like graphs was the fact that they have only integer eigenvalues [5]. Cube-like graphs also form a generalization of the hypercube. ∗Supported by Aalto ELEC Doctoral School, Nokia Foundation, Emil Aaltonen Foun- dation, and by Academy of Finland Project 289002. †Supported in part by Academy of Finland Project 289002.