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  2. Position weight matrix - Wikipedia

    en.wikipedia.org/wiki/Position_weight_matrix

    Most often the elements in PWMs are calculated as log odds. That is, the elements of a PPM are transformed using a background model so that: , = (, /). describes how an element in the PWM (left), ,, can be calculated. The simplest background model assumes that each letter appears equally frequently in the dataset.

  3. Matrix multiplication - Wikipedia

    en.wikipedia.org/wiki/Matrix_multiplication

    Matrix multiplication shares some properties with usual multiplication. However, matrix multiplication is not defined if the number of columns of the first factor differs from the number of rows of the second factor, and it is non-commutative, [10] even when the product remains defined after changing the order of the factors. [11] [12]

  4. List of open-source software for mathematics - Wikipedia

    en.wikipedia.org/wiki/List_of_open-source...

    PARI/GP is a computer algebra system that facilitates number-theory computation. Besides support of factoring, algebraic number theory, and analysis of elliptic curves, it works with mathematical objects like matrices, polynomials, power series, algebraic numbers, and transcendental functions. [3]

  5. SymPy - Wikipedia

    en.wikipedia.org/wiki/SymPy

    SymPy is an open-source Python library for symbolic computation. It provides computer algebra capabilities either as a standalone application, as a library to other applications, or live on the web as SymPy Live [2] or SymPy Gamma. [3] SymPy is simple to install and to inspect because it is written entirely in Python with few dependencies.

  6. Vectorization (mathematics) - Wikipedia

    en.wikipedia.org/wiki/Vectorization_(mathematics)

    Vectorization is used in matrix calculus and its applications in establishing e.g., moments of random vectors and matrices, asymptotics, as well as Jacobian and Hessian matrices. [5] It is also used in local sensitivity and statistical diagnostics.

  7. Distance matrix - Wikipedia

    en.wikipedia.org/wiki/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. [1] Depending upon the application involved, the distance being used to define this matrix may or may not be a metric .

  8. Euclidean distance matrix - Wikipedia

    en.wikipedia.org/wiki/Euclidean_distance_matrix

    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.

  9. Computing the permanent - Wikipedia

    en.wikipedia.org/wiki/Computing_the_permanent

    The best known [1] general exact algorithm is due to H. J. Ryser ().Ryser's method is based on an inclusion–exclusion formula that can be given [2] as follows: Let be obtained from A by deleting k columns, let () be the product of the row-sums of , and let be the sum of the values of () over all possible .