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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 (where the number of steps in the path is bounded). [2]
In mathematics, a Euclidean distance matrix is an n×n matrix representing the spacing of a set of n points in Euclidean space. For points x 1 , x 2 , … , x n {\displaystyle x_{1},x_{2},\ldots ,x_{n}} in k -dimensional space ℝ k , the elements of their Euclidean distance matrix A are given by squares of distances between them.
The distance (or perpendicular distance) from a point to a line is the shortest distance from a fixed point to any point on a fixed infinite line in Euclidean geometry. It is the length of the line segment which joins the point to the line and is perpendicular to the line. The formula for calculating it can be derived and expressed in several ways.
Beyond its application to distance comparison, squared Euclidean distance is of central importance in statistics, where it is used in the method of least squares, a standard method of fitting statistical estimates to data by minimizing the average of the squared distances between observed and estimated values, [17] and as the simplest form of ...
For a fixed length n, the Hamming distance is a metric on the set of the words of length n (also known as a Hamming space), as it fulfills the conditions of non-negativity, symmetry, the Hamming distance of two words is 0 if and only if the two words are identical, and it satisfies the triangle inequality as well: [2] Indeed, if we fix three words a, b and c, then whenever there is a ...
The latter may occur even if the distance in the other direction between the same two vertices is defined. In the mathematical field of graph theory, the distance between two vertices in a graph is the number of edges in a shortest path (also called a graph geodesic) connecting them. This is also known as the geodesic distance or shortest-path ...
Computing the Levenshtein distance is based on the observation that if we reserve a matrix to hold the Levenshtein distances between all prefixes of the first string and all prefixes of the second, then we can compute the values in the matrix in a dynamic programming fashion, and thus find the distance between the two full strings as the last ...
Distance matrices are used in phylogeny as non-parametric distance methods and were originally applied to phenetic data using a matrix of pairwise distances. These distances are then reconciled to produce a tree (a phylogram , with informative branch lengths).