Uses of Class
de.lmu.ifi.dbs.elki.math.linearalgebra.Matrix

Packages that use Matrix

de.lmu.ifi.dbs.elki.algorithm.clustering	Package collects clustering algorithms.
de.lmu.ifi.dbs.elki.algorithm.clustering.correlation	Package to collect correlation clustering algorithms suitable as a task for the KDDTask main routine.
de.lmu.ifi.dbs.elki.algorithm.result	Package to collect result classes for the results of algorithms.
de.lmu.ifi.dbs.elki.algorithm.result.clustering	Package to collect result classes for the results of clustering algorithms.
de.lmu.ifi.dbs.elki.data	Package collects basic classes for different data types, database object types and label types.
de.lmu.ifi.dbs.elki.database	Package collects variants of databases and related classes.
de.lmu.ifi.dbs.elki.distance.distancefunction	Package collects distance functions.
de.lmu.ifi.dbs.elki.distance.similarityfunction.kernel	Package collects kernel functions.
de.lmu.ifi.dbs.elki.math.linearalgebra	Linear Algebra package provides classes and computational methods for operations on matrices.
de.lmu.ifi.dbs.elki.math.statistics	Package to support statistical tests and methods.
de.lmu.ifi.dbs.elki.utilities	Package collects various classes and methods of global utility.
de.lmu.ifi.dbs.elki.varianceanalysis	Classes for analysis of variance by different methods.

Uses of Matrix in de.lmu.ifi.dbs.elki.algorithm.clustering

Method parameters in de.lmu.ifi.dbs.elki.algorithm.clustering with type arguments of type Matrix

protected void

EM.assignProbabilitiesToInstances(Database<V> database, List<Double> normDistrFactor, List<V> means, List<Matrix> invCovMatr, List<Double> clusterWeights) Assigns the current probability values to the instances in the database.

Uses of Matrix in de.lmu.ifi.dbs.elki.algorithm.clustering.correlation

Fields in de.lmu.ifi.dbs.elki.algorithm.clustering.correlation declared as Matrix

(package private) Matrix

ORCLUS.Cluster.basis The matrix defining the subspace of this cluster.

Methods in de.lmu.ifi.dbs.elki.algorithm.clustering.correlation that return Matrix

private Matrix	CASH.determineBasis(double[] alpha) Determines a basis defining a subspace described by the specified alpha values.
private Matrix	ORCLUS.findBasis(Database<V> database, ORCLUS.Cluster cluster, int dim) Finds the basis of the subspace of dimensionality dim for the specified cluster.
private Matrix	CASH.runDerivator(Database<ParameterizationFunction> database, int dim, CASHInterval interval, Set<Integer> ids) Runs the derivator on the specified inerval and assigns all points having a distance less then the standard deviation of the derivator model to the model to this model.

Methods in de.lmu.ifi.dbs.elki.algorithm.clustering.correlation with parameters of type Matrix

private Database<ParameterizationFunction>	CASH.buildDB(int dim, Matrix basis, Set<Integer> ids, Database<ParameterizationFunction> database) Builds a dim-1 dimensional database where the objects are projected into the specified subspace.
private ParameterizationFunction	CASH.project(Matrix basis, ParameterizationFunction f) Projects the specified parametrization function into the subspace described by the given basis.

Uses of Matrix in de.lmu.ifi.dbs.elki.algorithm.result

Fields in de.lmu.ifi.dbs.elki.algorithm.result declared as Matrix

private Matrix	CorrelationAnalysisSolution.similarityMatrix The similarity matrix of the pca.
private Matrix	CorrelationAnalysisSolution.strongEigenvectors The strong eigenvectors of the hyperplane induced by the correlation.
private Matrix	CorrelationAnalysisSolution.weakEigenvectors The weak eigenvectors of the hyperplane induced by the correlation.

Methods in de.lmu.ifi.dbs.elki.algorithm.result that return Matrix

Matrix	CorrelationAnalysisSolution.getSimilarityMatrix() Returns the similarity matrix of the pca.
Matrix	CorrelationAnalysisSolution.getStrongEigenvectors() Returns a copy of the strong eigenvectors.
Matrix	CorrelationAnalysisSolution.getWeakEigenvectors() Returns a copy of the weak eigenvectors.

Methods in de.lmu.ifi.dbs.elki.algorithm.result with parameters of type Matrix

private double

CorrelationAnalysisSolution.distance(Matrix p) Returns the distance of Matrix p from the hyperplane underlying this solution.

Constructors in de.lmu.ifi.dbs.elki.algorithm.result with parameters of type Matrix

CorrelationAnalysisSolution(LinearEquationSystem solution, Database<V> db, Matrix strongEigenvectors, Matrix weakEigenvectors, Matrix similarityMatrix, Vector centroid)
Provides a new CorrelationAnalysisSolution holding the specified matrix.

CorrelationAnalysisSolution(LinearEquationSystem solution, Database<V> db, Matrix strongEigenvectors, Matrix weakEigenvectors, Matrix similarityMatrix, Vector centroid, NumberFormat nf)
Provides a new CorrelationAnalysisSolution holding the specified matrix and number format.

Uses of Matrix in de.lmu.ifi.dbs.elki.algorithm.result.clustering

Fields in de.lmu.ifi.dbs.elki.algorithm.result.clustering declared as Matrix

private Matrix

EMModel.covarianceMatrix

Constructors in de.lmu.ifi.dbs.elki.algorithm.result.clustering with parameters of type Matrix

EMModel(Database<V> db, V mean, Matrix covarianceMatrix)
todo comment

Uses of Matrix in de.lmu.ifi.dbs.elki.data

Methods in de.lmu.ifi.dbs.elki.data that return Matrix

Matrix	DoubleVector.getRowVector()
Matrix	FeatureVector.getRowVector() Returns a Matrix representing in one row and getDimensionality() columns the values of this FeatureVector.
Matrix	SparseDoubleVector.getRowVector()
Matrix	BitVector.getRowVector()
Matrix	FloatVector.getRowVector()

Constructors in de.lmu.ifi.dbs.elki.data with parameters of type Matrix

DoubleVector(Matrix columnMatrix)
Expects a matrix of one column.

Uses of Matrix in de.lmu.ifi.dbs.elki.database

Fields in de.lmu.ifi.dbs.elki.database with type parameters of type Matrix

static AssociationID<Matrix>	AssociationID.CACHED_MATRIX The association id to associate an arbitrary matrix of an object.
static AssociationID<Matrix>	AssociationID.LOCALLY_WEIGHTED_MATRIX The association id to associate the locally weighted matrix of an object for the locally weighted distance function.
static AssociationID<Matrix>	AssociationID.STRONG_EIGENVECTOR_MATRIX The association id to associate the strong eigencvector weighted matrix of an object.

Uses of Matrix in de.lmu.ifi.dbs.elki.distance.distancefunction

Fields in de.lmu.ifi.dbs.elki.distance.distancefunction declared as Matrix

private Matrix

WeightedDistanceFunction.weightMatrix The weight matrix.

Methods in de.lmu.ifi.dbs.elki.distance.distancefunction with parameters of type Matrix

private void

PCABasedCorrelationDistanceFunction.adjust(Matrix v, Matrix e_czech, Matrix vector, int corrDim) Inserts the specified vector into the given orthonormal matrix v at column corrDim.

Constructors in de.lmu.ifi.dbs.elki.distance.distancefunction with parameters of type Matrix

WeightedDistanceFunction(Matrix weightMatrix)
Provides the Weighted distance for feature vectors.

Uses of Matrix in de.lmu.ifi.dbs.elki.distance.similarityfunction.kernel

Fields in de.lmu.ifi.dbs.elki.distance.similarityfunction.kernel declared as Matrix

(package private) Matrix

KernelMatrix.kernel The kernel matrix

Methods in de.lmu.ifi.dbs.elki.distance.similarityfunction.kernel that return Matrix

static Matrix	KernelMatrix.centerKernelMatrix(KernelMatrix<? extends RealVector<?,? extends Number>> kernelMatrix) Centers the Kernel Matrix in Feature Space according to Smola et.
static Matrix	KernelMatrix.centerMatrix(Matrix matrix) Centers the matrix in feature space according to Smola et.
Matrix	KernelMatrix.getKernel()
Matrix	KernelMatrix.getSubColumn(int i, List<Integer> ids) Returns the ith kernel matrix column for all objects in ids
Matrix	KernelMatrix.getSubMatrix(Collection<Integer> ids) Returns a sub kernel matrix for all objects in ids

Methods in de.lmu.ifi.dbs.elki.distance.similarityfunction.kernel with parameters of type Matrix

static Matrix

KernelMatrix.centerMatrix(Matrix matrix) Centers the matrix in feature space according to Smola et.

Constructors in de.lmu.ifi.dbs.elki.distance.similarityfunction.kernel with parameters of type Matrix

KernelMatrix(Matrix matrix)
Makes a new kernel matrix from matrix.

Uses of Matrix in de.lmu.ifi.dbs.elki.math.linearalgebra

Subclasses of Matrix in de.lmu.ifi.dbs.elki.math.linearalgebra

class

Vector Provides a vector object that encapsulates an m x 1 - matrix object.

Fields in de.lmu.ifi.dbs.elki.math.linearalgebra declared as Matrix

private Matrix

EigenPair.eigenvector The eigenvector as a matrix.

Methods in de.lmu.ifi.dbs.elki.math.linearalgebra that return Matrix

Matrix	Matrix.appendColumns(Matrix columns) Returns a matrix which consists of this matrix and the specified columns.
Matrix	Matrix.arrayLeftDivide(Matrix B) Element-by-element left division, C = A.
Matrix	Matrix.arrayLeftDivideEquals(Matrix B) Element-by-element left division in place, A = A.
Matrix	Matrix.arrayRightDivide(Matrix B) Element-by-element right division, C = A.
Matrix	Matrix.arrayRightDivideEquals(Matrix B) Element-by-element right division in place, A = A.
Matrix	Matrix.arrayTimes(Matrix B) Element-by-element multiplication, C = A.
Matrix	Matrix.arrayTimesEquals(Matrix B) Element-by-element multiplication in place, A = A.
Matrix	Matrix.cheatToAvoidSingularity(double constant) Adds a given value to the diagonal entries if the entry is smaller than the constant.
Matrix	Matrix.completeBasis() Completes this d x c basis of a subspace of R^d to a d x d basis of R^d, i.e. appends c-d columns to this basis.
Matrix	Matrix.completeToOrthonormalBasis() Completes this d x c basis of a subspace of R^d to a d x d basis of R^d, i.e. appends c-d columns to this basis.
static Matrix	Matrix.constructWithCopy(double[][] A) Construct a matrix from a copy of a 2-D array.
Matrix	Matrix.copy() Make a deep copy of a matrix.
static Matrix	Matrix.diagonal(double[] diagonal) Returns a quadratic Matrix consisting of zeros and of the given values on the diagonal.
static Matrix	Matrix.diagonal(Vector diagonal) Returns a quadratic Matrix consisting of zeros and of the given values on the diagonal.
Matrix	SortedEigenPairs.eigenVectors() Returns the sorted eigenvectors.
Matrix	SortedEigenPairs.eigenVectors(int n) Returns the first n sorted eigenvectors as a matrix.
Matrix	Matrix.exactGaussJordanElimination() Returns a matrix derived by Gauss-Jordan-elimination using RationalNumbers for the transformations.
private Matrix	Matrix.gaussElimination() Recursive gauss-elimination (non-reduced form).
Matrix	Matrix.gaussJordanElimination() Deprecated. use LinearEquationSystem instead
Matrix	Matrix.getColumn(int j) Returns the jth column of this matrix.
Matrix	EigenvalueDecomposition.getD() Return the block diagonal eigenvalue matrix
Matrix	EigenPair.getEigenvector() Returns the eigenvector.
Matrix	QRDecomposition.getH() Return the Householder vectors
Matrix	LUDecomposition.getL() Return lower triangular factor
Matrix	CholeskyDecomposition.getL() Return triangular factor.
Matrix	Matrix.getMatrix(int[] r, int[] c) Get a submatrix.
Matrix	Matrix.getMatrix(int[] r, int j0, int j1) Get a submatrix.
Matrix	Matrix.getMatrix(int i0, int i1, int[] c) Get a submatrix.
Matrix	Matrix.getMatrix(int i0, int i1, int j0, int j1) Get a submatrix.
Matrix	QRDecomposition.getQ() Generate and return the (economy-sized) orthogonal factor
Matrix	QRDecomposition.getR() Return the upper triangular factor
Matrix	Matrix.getRow(int i) Returns the ith row of this matrix.
Matrix	SingularValueDecomposition.getS() Return the diagonal matrix of singular values
Matrix	LUDecomposition.getU() Return upper triangular factor
Matrix	SingularValueDecomposition.getU() Return the left singular vectors
Matrix	EigenvalueDecomposition.getV() Return the eigenvector matrix
Matrix	SingularValueDecomposition.getV() Return the right singular vectors
static Matrix	Matrix.identity(int m, int n) Generate identity matrix
Matrix	Matrix.inverse() Matrix inverse or pseudoinverse
Matrix	Matrix.minus(Matrix B) C = A - B
Matrix	Matrix.minusEquals(Matrix B) A = A - B
Matrix	Matrix.orthonormalize() Returns an orthonormalization of this matrix.
Matrix	Matrix.plus(Matrix B) C = A + B
Matrix	Matrix.plusEquals(Matrix B) A = A + B
Matrix	Matrix.projection(Matrix v) Projects this row vector into the subspace formed by the specified matrix v.
static Matrix	Matrix.random(int m, int n) Generate matrix with random elements
static Matrix	Matrix.read(BufferedReader input) Read a matrix from a stream.
Matrix	LUDecomposition.solve(Matrix B) Solve A*X = B
Matrix	QRDecomposition.solve(Matrix B) Least squares solution of A*X = B
Matrix	CholeskyDecomposition.solve(Matrix B) Solve A*X = B
Matrix	Matrix.solve(Matrix B) Solve A*X = B
Matrix	Matrix.solveTranspose(Matrix B) Solve X*A = B, which is also A'*X' = B'
Matrix	Matrix.times(double s) Multiply a matrix by a scalar, C = s*A
Matrix	Matrix.times(Matrix B) Linear algebraic matrix multiplication, A * B
Matrix	Matrix.timesEquals(double s) Multiply a matrix by a scalar in place, A = s*A
Matrix	Matrix.transpose() Matrix transpose.
Matrix	Matrix.uminus() Unary minus
static Matrix	Matrix.unitMatrix(int dim) Returns the unit matrix of the specified dimension.
static Matrix	Matrix.zeroMatrix(int dim) Returns the zero matrix of the specified dimension.

Methods in de.lmu.ifi.dbs.elki.math.linearalgebra with parameters of type Matrix

double	Matrix.angle(int colA, Matrix B, int colB) Returns the angle of the colA col of this and the colB col of B.
Matrix	Matrix.appendColumns(Matrix columns) Returns a matrix which consists of this matrix and the specified columns.
Matrix	Matrix.arrayLeftDivide(Matrix B) Element-by-element left division, C = A.
Matrix	Matrix.arrayLeftDivideEquals(Matrix B) Element-by-element left division in place, A = A.
Matrix	Matrix.arrayRightDivide(Matrix B) Element-by-element right division, C = A.
Matrix	Matrix.arrayRightDivideEquals(Matrix B) Element-by-element right division in place, A = A.
Matrix	Matrix.arrayTimes(Matrix B) Element-by-element multiplication, C = A.
Matrix	Matrix.arrayTimesEquals(Matrix B) Element-by-element multiplication in place, A = A.
private void	Matrix.checkMatrixDimensions(Matrix B) Check if size(A) == size(B) *
double	Matrix.distanceCov(Matrix B) distanceCov returns distance of two Matrices A and B, i.e. the root of the sum of the squared distances Aij-Bij.
boolean	Matrix.linearlyIndependent(Matrix columnMatrix) Returns true if the specified column matrix a is linearly independent to the columns of this matrix.
Matrix	Matrix.minus(Matrix B) C = A - B
Matrix	Matrix.minusEquals(Matrix B) A = A - B
Matrix	Matrix.plus(Matrix B) C = A + B
Matrix	Matrix.plusEquals(Matrix B) A = A + B
Matrix	Matrix.projection(Matrix v) Projects this row vector into the subspace formed by the specified matrix v.
double	Matrix.scalarProduct(int colA, Matrix B, int colB) Returns the scalar product of the colA cols of this and the colB col of B.
void	Matrix.setColumn(int j, Matrix column) Sets the jth column of this matrix to the specified column.
void	Matrix.setMatrix(int[] r, int[] c, Matrix X) Set a submatrix.
void	Matrix.setMatrix(int[] r, int j0, int j1, Matrix X) Set a submatrix.
void	Matrix.setMatrix(int i0, int i1, int[] c, Matrix X) Set a submatrix.
void	Matrix.setMatrix(int i0, int i1, int j0, int j1, Matrix X) Set a submatrix.
Matrix	LUDecomposition.solve(Matrix B) Solve A*X = B
Matrix	QRDecomposition.solve(Matrix B) Least squares solution of A*X = B
Matrix	CholeskyDecomposition.solve(Matrix B) Solve A*X = B
Matrix	Matrix.solve(Matrix B) Solve A*X = B
Matrix	Matrix.solveTranspose(Matrix B) Solve X*A = B, which is also A'*X' = B'
Matrix	Matrix.times(Matrix B) Linear algebraic matrix multiplication, A * B

Constructors in de.lmu.ifi.dbs.elki.math.linearalgebra with parameters of type Matrix

CholeskyDecomposition(Matrix Arg)
Cholesky algorithm for symmetric and positive definite matrix.

EigenPair(Matrix eigenvector, double eigenvalue)
Creates a new EigenPair object.

EigenvalueDecomposition(Matrix Arg)
Check for symmetry, then construct the eigenvalue decomposition

LUDecomposition(Matrix A)
LU Decomposition

QRDecomposition(Matrix A)
QR Decomposition, computed by Householder reflections.

SingularValueDecomposition(Matrix Arg)
Construct the singular value decomposition

Uses of Matrix in de.lmu.ifi.dbs.elki.math.statistics

Fields in de.lmu.ifi.dbs.elki.math.statistics declared as Matrix

private Matrix	MultipleLinearRegression.x The (n x p+1)-matrix holding the x-values, where the i-th row has the form (1 x1i ... x1p).
private Matrix	MultipleLinearRegression.xx_inverse Holds the matrix (x'x)^-1.

Methods in de.lmu.ifi.dbs.elki.math.statistics that return Matrix

private static Matrix

PolynomialRegression.xMatrix(Vector x, int p)

Methods in de.lmu.ifi.dbs.elki.math.statistics with parameters of type Matrix

double

MultipleLinearRegression.estimateY(Matrix x) Performes an estimatation of y on the specified matrix.

Constructors in de.lmu.ifi.dbs.elki.math.statistics with parameters of type Matrix

MultipleLinearRegression(Vector y, Matrix x)
Provides a new multiple linear regression model with the specified parameters.

Uses of Matrix in de.lmu.ifi.dbs.elki.utilities

Methods in de.lmu.ifi.dbs.elki.utilities that return Matrix

static <O extends RealVector<O,?>> Matrix	Util.covarianceMatrix(Database<O> database) Determines the covariance matrix of the objects stored in the given database.
static <V extends RealVector<V,?>> Matrix	Util.covarianceMatrix(Database<V> database, Collection<Integer> ids) Determines the covariance matrix of the objects stored in the given database.
static Matrix	Util.covarianceMatrix(Matrix data) Determines the d x d covariance matrix of the given n x d data matrix.

Methods in de.lmu.ifi.dbs.elki.utilities with parameters of type Matrix

static Vector	Util.centroid(Matrix data) Returns the centroid as a Vector object of the specified data matrix.
static Matrix	Util.covarianceMatrix(Matrix data) Determines the d x d covariance matrix of the given n x d data matrix.

Uses of Matrix in de.lmu.ifi.dbs.elki.varianceanalysis

Fields in de.lmu.ifi.dbs.elki.varianceanalysis declared as Matrix

private Matrix	LocalPCA.adapatedStrongEigenvectors The diagonal matrix of adapted strong eigenvalues: eigenvectors * e_czech.
private Matrix	GlobalPCA.covarianceMatrix Holds the covariance matrix.
private Matrix	LocalPCA.e_czech The selection matrix of the strong eigenvectors.
private Matrix	LocalPCA.e_hat The selection matrix of the weak eigenvectors.
private Matrix	AbstractPCA.eigenvectors The eigenvectors in decreasing order to their corresponding eigenvalues.
private Matrix	LocalPCA.m_czech The dissimilarity matrix.
private Matrix	LocalPCA.m_hat The similarity matrix.
private Matrix	AbstractPCA.strongEigenvectors The strong eigenvectors to their corresponding filtered eigenvalues.
private Matrix	AbstractPCA.weakEigenvectors The weak eigenvectors to their corresponding filtered eigenvalues.

Methods in de.lmu.ifi.dbs.elki.varianceanalysis that return Matrix

Matrix	LocalPCA.adapatedStrongEigenvectors() Returns a copy of the adapted strong eigenvectors.
Matrix	LocalPCA.dissimilarityMatrix() Returns a copy of the dissimilarity matrix (M_czech) of this LocalPCA.
Matrix	GlobalPCA.getCovarianceMatrix() Returns the covariance matrix.
Matrix	AbstractPCA.getEigenvectors() Returns a copy of the matrix of eigenvectors of the object to which this PCA belongs to.
Matrix	PCA.getEigenvectors() Returns a copy of the matrix of eigenvectors of the object to which this PCA belongs to.
Matrix	AbstractPCA.getStrongEigenvectors() Returns a copy of the matrix of strong eigenvectors after passing the eigen pair filter.
Matrix	PCA.getStrongEigenvectors() Returns a copy of the matrix of strong eigenvectors after passing the eigen pair filter.
Matrix	AbstractPCA.getWeakEigenvectors() Returns a copy of the matrix of weak eigenvectors after passing the eigen pair filter.
Matrix	PCA.getWeakEigenvectors() Returns a copy of the matrix of weak eigenvectors after passing the eigen pair filter.
protected Matrix	LocalKernelPCA.pcaMatrix(Database<V> database, Collection<Integer> ids) Returns the local kernel matrix of the specified ids.
protected Matrix	LinearLocalPCA.pcaMatrix(Database<V> database, Collection<Integer> ids) Returns the covariance matrix of the specified ids.
protected abstract Matrix	LocalPCA.pcaMatrix(Database<V> database, Collection<Integer> ids) Determines and returns the matrix that is used for performaing the pca.
Matrix	LocalPCA.selectionMatrixOfStrongEigenvectors() Returns a copy of the selection matrix of the strong eigenvectors (E_czech) of this LocalPCA.
Matrix	LocalPCA.selectionMatrixOfWeakEigenvectors() Returns a copy of the selection matrix of the weak eigenvectors (E_hat) of the object to which this PCA belongs to.
Matrix	LocalPCA.similarityMatrix() Returns a copy of the similarity matrix (M_hat) of this LocalPCA.

Methods in de.lmu.ifi.dbs.elki.varianceanalysis with parameters of type Matrix

protected void	AbstractPCA.determineEigenPairs(Matrix pcaMatrix) Determines the (strong and weak) eigenpairs (i.e. the eigenvectors and their corresponding eigenvalues) sorted in descending order of their eigenvalues of the specified matrix.
void	GlobalPCA.run(Matrix matrix) Computes the principal components for objects of the given matrix.