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Distance Matrix
In mathematics, computer science and especially graph theory, a distance matrix is a square matrix (two-dimensional array) containing the distances, taken pairwise, between the elements of a set. Depending upon the application involved, the ''distance'' being used to define this matrix may or may not be a metric. If there are elements, this matrix will have size . In graph-theoretic applications the elements are more often referred to as points, nodes or vertices. Non-metric distance matrix In general, a distance matrix is a weighted adjacency matrix of some graph. In a network, a directed graph with weights assigned to the arcs, the distance between two nodes of the network can be defined as the minimum of the sums of the weights on the shortest paths joining the two nodes. This distance function, while well defined, is not a metric. There need be no restrictions on the weights other than the need to be able to combine and compare them, so negative weights are used in some appli ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Mathematics
Mathematics is an area of knowledge that includes the topics of numbers, formulas and related structures, shapes and the spaces in which they are contained, and quantities and their changes. These topics are represented in modern mathematics with the major subdisciplines of number theory, algebra, geometry, and analysis, respectively. There is no general consensus among mathematicians about a common definition for their academic discipline. Most mathematical activity involves the discovery of properties of abstract objects and the use of pure reason to prove them. These objects consist of either abstractions from nature orin modern mathematicsentities that are stipulated to have certain properties, called axioms. A ''proof'' consists of a succession of applications of deductive rules to already established results. These results include previously proved theorems, axioms, andin case of abstraction from naturesome basic properties that are considered true starting points of t ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Real Number
In mathematics, a real number is a number that can be used to measure a ''continuous'' one-dimensional quantity such as a distance, duration or temperature. Here, ''continuous'' means that values can have arbitrarily small variations. Every real number can be almost uniquely represented by an infinite decimal expansion. The real numbers are fundamental in calculus (and more generally in all mathematics), in particular by their role in the classical definitions of limits, continuity and derivatives. The set of real numbers is denoted or \mathbb and is sometimes called "the reals". The adjective ''real'' in this context was introduced in the 17th century by René Descartes to distinguish real numbers, associated with physical reality, from imaginary numbers (such as the square roots of ), which seemed like a theoretical contrivance unrelated to physical reality. The real numbers include the rational numbers, such as the integer and the fraction . The rest of the real ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Ultrametric Tree
In mathematics, an ultrametric space is a metric space in which the triangle inequality is strengthened to d(x,z)\leq\max\left\. Sometimes the associated metric is also called a non-Archimedean metric or super-metric. Although some of the theorems for ultrametric spaces may seem strange at a first glance, they appear naturally in many applications. Formal definition An ultrametric on a set is a real-valued function :d\colon M \times M \rightarrow \mathbb (where denote the real numbers), such that for all : # ; # (''symmetry''); # ; # if then ; # (strong triangle inequality or ultrametric inequality). An ultrametric space is a pair consisting of a set together with an ultrametric on , which is called the space's associated distance function (also called a metric). If satisfies all of the conditions except possibly condition 4 then is called an ultrapseudometric on . An ultrapseudometric space is a pair consisting of a set and an ultrapseudometric on . In the cas ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Molecular Clock
The molecular clock is a figurative term for a technique that uses the mutation rate of biomolecules to deduce the time in prehistory when two or more life forms diverged. The biomolecular data used for such calculations are usually nucleotide sequences for DNA, RNA, or amino acid sequences for proteins. The benchmarks for determining the mutation rate are often fossil or archaeological dates. The molecular clock was first tested in 1962 on the hemoglobin protein variants of various animals, and is commonly used in molecular evolution to estimate times of speciation or radiation. It is sometimes called a gene clock or an evolutionary clock. Early discovery and genetic equidistance The notion of the existence of a so-called "molecular clock" was first attributed to Émile Zuckerkandl and Linus Pauling who, in 1962, noticed that the number of amino acid differences in hemoglobin between different lineages changes roughly linearly with time, as estimated from fossil evi ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Additive Distance Matrix
Additive may refer to: Mathematics * Additive function, a function in number theory * Additive map, a function that preserves the addition operation * Additive set-functionn see Sigma additivity * Additive category, a preadditive category with finite biproducts * Additive inverse, an arithmetic concept Science * Additive color, as opposed to subtractive color * Additive model, a statistical regression model * Additive synthesis, an audio synthesis technique * Additive genetic effects * Additive quantity, a physical quantity that is additive for subsystems; see Intensive and extensive properties Engineering * Feed additive * Gasoline additive, a substance used to improve the performance of a fuel, lower emissions or clean the engine * Oil additive, a substance used to improve the performance of a lubricant * Weakly additive, the quality of preferences in some logistics problems * Polymer additive * Pit additive, a material aiming to reduce fecal sludge build-up and control odor ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Bioinformatics
Bioinformatics () is an interdisciplinary field that develops methods and software tools for understanding biological data, in particular when the data sets are large and complex. As an interdisciplinary field of science, bioinformatics combines biology, chemistry, physics, computer science, information engineering, mathematics and statistics to analyze and interpret the biological data. Bioinformatics has been used for '' in silico'' analyses of biological queries using computational and statistical techniques. Bioinformatics includes biological studies that use computer programming as part of their methodology, as well as specific analysis "pipelines" that are repeatedly used, particularly in the field of genomics. Common uses of bioinformatics include the identification of candidates genes and single nucleotide polymorphisms ( SNPs). Often, such identification is made with the aim to better understand the genetic basis of disease, unique adaptations, desirable properties ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Hamming Distance
In information theory, the Hamming distance between two strings of equal length is the number of positions at which the corresponding symbols are different. In other words, it measures the minimum number of ''substitutions'' required to change one string into the other, or the minimum number of ''errors'' that could have transformed one string into the other. In a more general context, the Hamming distance is one of several string metrics for measuring the edit distance between two sequences. It is named after the American mathematician Richard Hamming. A major application is in coding theory, more specifically to block codes, in which the equal-length strings are vectors over a finite field. Definition The Hamming distance between two equal-length strings of symbols is the number of positions at which the corresponding symbols are different. Examples The symbols may be letters, bits, or decimal digits, among other possibilities. For example, the Hamming distance betwe ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Block Code
In coding theory, block codes are a large and important family of error-correcting codes that encode data in blocks. There is a vast number of examples for block codes, many of which have a wide range of practical applications. The abstract definition of block codes is conceptually useful because it allows coding theorists, mathematicians, and computer scientists to study the limitations of ''all'' block codes in a unified way. Such limitations often take the form of ''bounds'' that relate different parameters of the block code to each other, such as its rate and its ability to detect and correct errors. Examples of block codes are Reed–Solomon codes, Hamming codes, Hadamard codes, Expander codes, Golay codes, and Reed–Muller codes. These examples also belong to the class of linear codes, and hence they are called linear block codes. More particularly, these codes are known as algebraic block codes, or cyclic block codes, because they can be generated using boolean polyno ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Coding Theory
Coding theory is the study of the properties of codes and their respective fitness for specific applications. Codes are used for data compression, cryptography, error detection and correction, data transmission and data storage. Codes are studied by various scientific disciplines—such as information theory, electrical engineering, mathematics, linguistics, and computer science—for the purpose of designing efficient and reliable data transmission methods. This typically involves the removal of redundancy and the correction or detection of errors in the transmitted data. There are four types of coding: # Data compression (or ''source coding'') # Error control (or ''channel coding'') # Cryptographic coding # Line coding Data compression attempts to remove unwanted redundancy from the data from a source in order to transmit it more efficiently. For example, ZIP data compression makes data files smaller, for purposes such as to reduce Internet traffic. Data compression and er ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Min-plus Matrix Multiplication
Min-plus matrix multiplication, also known as distance product, is an operation on matrices. Given two n \times n matrices A = (a_) and B = (b_), their distance product C = (c_) = A \star B is defined as an n \times n matrix such that c_ = \min_^n \. This is standard matrix multiplication for the semi-ring of tropical numbers in the min convention. This operation is closely related to the shortest path problem. If W is an n \times n matrix containing the edge weights of a graph, then W^k gives the distances between vertices using paths of length at most k edges, and W^n is the distance matrix of the graph. References * Uri Zwick. 2002All pairs shortest paths using bridging sets and rectangular matrix multiplication ''J. ACM'' 49, 3 (May 2002), 289–317. * Liam Roditty and Asaf Shapira. 2008All-Pairs Shortest Paths with a Sublinear Additive Error ICALP '08, Part I, LNCS 5125, pp. 622–633, 2008. See also * Floyd–Warshall algorithm * Tropical geometry In mathemat ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Symmetric Matrix
In linear algebra, a symmetric matrix is a square matrix that is equal to its transpose. Formally, Because equal matrices have equal dimensions, only square matrices can be symmetric. The entries of a symmetric matrix are symmetric with respect to the main diagonal. So if a_ denotes the entry in the ith row and jth column then for all indices i and j. Every square diagonal matrix is symmetric, since all off-diagonal elements are zero. Similarly in characteristic different from 2, each diagonal element of a skew-symmetric matrix must be zero, since each is its own negative. In linear algebra, a real symmetric matrix represents a self-adjoint operator represented in an orthonormal basis over a real inner product space. The corresponding object for a complex inner product space is a Hermitian matrix with complex-valued entries, which is equal to its conjugate transpose. Therefore, in linear algebra over the complex numbers, it is often assumed that a symmetric m ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Nonnegative Matrix
In mathematics, a nonnegative matrix, written : \mathbf \geq 0, is a matrix in which all the elements are equal to or greater than zero, that is, : x_ \geq 0\qquad \forall . A positive matrix is a matrix in which all the elements are strictly greater than zero. The set of positive matrices is a subset of all non-negative matrices. While such matrices are commonly found, the term is only occasionally used due to the possible confusion with positive-definite matrices, which are different. A matrix which is both non-negative and is positive semidefinite is called a doubly non-negative matrix. A rectangular non-negative matrix can be approximated by a decomposition with two other non-negative matrices via non-negative matrix factorization. Eigenvalues and eigenvectors of square positive matrices are described by the Perron–Frobenius theorem. Properties *The trace and every row and column sum/product of a nonnegative matrix is nonnegative. Inversion The inverse of any non-si ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
