umcg.genetica.math

Class PCA

java.lang.Object

umcg.genetica.math.PCA

public class PCA
extends Object

Author:

harmjan

Constructor Summary

Constructors

Constructor and Description
PCA()

Method Summary

Modifier and Type	Method and Description
static Jama.EigenvalueDecomposition	eigenValueDecomposition(double[][] data)
void	eigenValueDecomposition(double[][] data, int numPCAs)
double[][]	getDataMatrixPCScores(double[][] dataMatrix, int size, int sampleCount)
static double	getEigenValueVar(double[] eigenValues, int pca)
static double[]	getEigenVector(Jama.EigenvalueDecomposition eig, double[] eigenValues, int pca)
static double[]	getEigenVector(Jama.EigenvalueDecomposition eig, int pca)
static double[]	getEigenVectorSVD(Jama.SingularValueDecomposition svd, double[] singularValues, int pca)
double[]	getRealEigenvalues()
static double[]	getRealEigenvalues(Jama.EigenvalueDecomposition eig)
void	PCA()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

PCA

public PCA()

Method Detail

PCA

public void PCA()

eigenValueDecomposition

public static Jama.EigenvalueDecomposition eigenValueDecomposition(double[][] data)

getRealEigenvalues

public static double[] getRealEigenvalues(Jama.EigenvalueDecomposition eig)

getEigenVector

public static double[] getEigenVector(Jama.EigenvalueDecomposition eig,
                                      double[] eigenValues,
                                      int pca)

getEigenVector

public static double[] getEigenVector(Jama.EigenvalueDecomposition eig,
                                      int pca)

getEigenValueVar

public static double getEigenValueVar(double[] eigenValues,
                                      int pca)

getEigenVectorSVD

public static double[] getEigenVectorSVD(Jama.SingularValueDecomposition svd,
                                         double[] singularValues,
                                         int pca)

eigenValueDecomposition

public void eigenValueDecomposition(double[][] data,
                                    int numPCAs)

getDataMatrixPCScores

public double[][] getDataMatrixPCScores(double[][] dataMatrix,
                                        int size,
                                        int sampleCount)

getRealEigenvalues

public double[] getRealEigenvalues()