Example usage for org.apache.commons.math.linear RealMatrix setEntry

Introduction

In this page you can find the example usage for org.apache.commons.math.linear RealMatrix setEntry.

Prototype

void setEntry(int row, int column, double value) throws MatrixIndexException;

Source Link

Document

Set the entry in the specified row and column.

Usage

From source file:fi.smaa.libror.r.RHelper.java

public static RealMatrix rArrayMatrixToRealMatrix(double[] matrix, int nRows) {
    if (nRows < 1) {
        throw new IllegalArgumentException("PRECOND violation: nRows < 1");
    }/*from  w  w w . j a va  2s.c  o  m*/
    int nCols = matrix.length / nRows;
    if (matrix.length != nRows * nCols) {
        throw new IllegalArgumentException("PRECOND violation: matrix.length != nRows * nCols");
    }
    RealMatrix perfMatrix = new Array2DRowRealMatrix(nRows, nCols);
    for (int i = 0; i < nRows; i++) {
        for (int j = 0; j < nCols; j++) {
            perfMatrix.setEntry(i, j, matrix[j * nRows + i]);
        }
    }
    return perfMatrix;
}

From source file:MathFunctions.java

private static void insertPoint2DInMatrix(RealMatrix m, Point2D.Double pt, int row) {
    // Set row to [x,y,1]:
    m.setEntry(row, 0, pt.x);
    m.setEntry(row, 1, pt.y);/*ww  w  .  ja  va2  s . c  o m*/
    m.setEntry(row, 2, 1);
}

From source file:math2605.gn_rat.java

private static void setR(List<String[]> pairs, double a, double b, double c, RealMatrix r) {
    int row = 0;/*  w w w . j a v  a 2 s  .  c o m*/
    for (String[] p : pairs) {
        double x = Double.parseDouble(p[0]);
        double fx = (a * x) / (x + b) + c;
        double y = Double.parseDouble(p[1]);
        double resid = y - fx;
        r.setEntry(row, 0, resid);
        row++;
    }
}

From source file:math2605.gn_log.java

private static void setR(List<String[]> pairs, double a, double b, double c, RealMatrix r) {
    int row = 0;/*from   w w w .j  a  v  a2 s . com*/
    for (String[] p : pairs) {
        double x = Double.parseDouble(p[0]);
        double fx = a * Math.log10(x + b) + c;
        double y = Double.parseDouble(p[1]);
        double resid = y - fx;
        r.setEntry(row, 0, resid);
        row++;
    }
}

From source file:math2605.gn_qua.java

private static void setR(List<String[]> pairs, double a, double b, double c, RealMatrix r) {
    int row = 0;//  w  w  w.  j  a  va 2 s.co  m
    for (String[] p : pairs) {
        double x = Double.parseDouble(p[0]);
        double fx = a * Math.pow(x, 2) + b * x + c;
        double y = Double.parseDouble(p[1]);
        double resid = y - fx;
        r.setEntry(row, 0, resid);
        row++;
    }
}

From source file:math2605.gn_exp.java

private static void setR(List<String[]> pairs, double a, double b, double c, RealMatrix r) {
    int row = 0;//from   w  w w. j a  v a  2  s. c o  m
    for (String[] p : pairs) {
        double x = Double.parseDouble(p[0]);
        double fx = a * Math.pow(Math.E, b * x) + c;
        double y = Double.parseDouble(p[1]);
        double resid = y - fx;
        r.setEntry(row, 0, resid);
        row++;
    }
}

From source file:edu.valelab.GaussianFit.CoordinateMapper.java

/**
 * Helper function for generateAffineTransformFromPointPairs
 * @param m//w w  w .  j a  va  2s.  co m
 * @param pt
 * @param row 
 */
private static void insertPoint2DInMatrix(RealMatrix m, Point2D.Double pt, int row) {
    // Set row to [x,y,1]:
    m.setEntry(row, 0, pt.x);
    m.setEntry(row, 1, pt.y);
    m.setEntry(row, 2, 1);
}

From source file:juicebox.tools.utils.juicer.arrowhead.DynamicProgrammingUtils.java

/**
 * Dynamic programming to calculate "right" matrix
 * Initialize by setting the diagonal to the diagonal of original
 * Iterate to the right and up./*from   w w w . j a  v a  2  s . c  o m*/
 *
 * @param matrix
 * @param maxSize
 * @return rightMatrix
 */
public static RealMatrix right(RealMatrix matrix, int maxSize) {

    RealMatrix rightMatrix = MatrixTools.extractDiagonal(matrix);
    int n = rightMatrix.getRowDimension();

    // j is column, i is row
    for (int j = 1; j < n; j++) {
        int endPoint = Math.max(j - 1 - maxSize, 0);
        for (int i = j - 1; i >= endPoint; i--) {
            rightMatrix.setEntry(i, j, matrix.getEntry(i, j) + rightMatrix.getEntry(i + 1, j));
        }
    }
    return rightMatrix;
}

From source file:juicebox.tools.utils.juicer.arrowhead.DynamicProgrammingUtils.java

/**
 * Dynamic programming to calculate "upper" matrix
 * Initialize by setting the diagonal to the diagonal of original
 * Iterate down (for each row) and to the left.
 *
 * @param matrix//from   w  ww.j av a  2s. c  o m
 * @param maxSize
 * @return upperMatrix
 */
public static RealMatrix upper(RealMatrix matrix, int maxSize) {

    RealMatrix upperMatrix = MatrixTools.extractDiagonal(matrix);
    int n = upperMatrix.getRowDimension();

    // j is column, i is row
    for (int i = 0; i < n; i++) {
        int endPoint = Math.min(i + 1 + maxSize, n - 1);
        for (int j = i + 1; j <= endPoint; j++) {
            upperMatrix.setEntry(i, j, matrix.getEntry(i, j) + upperMatrix.getEntry(i, j - 1));
        }
    }
    return upperMatrix;
}

From source file:juicebox.tools.utils.juicer.apa.APAUtils.java

/**
 * @param data//  w  w  w.j  a  va  2  s  .co m
 * @return
 */
public static RealMatrix rankPercentile(RealMatrix data) {
    int n = data.getColumnDimension();
    StatPercentile percentile = new StatPercentile(MatrixTools.flattenedRowMajorOrderMatrix(data));

    RealMatrix matrix = new Array2DRowRealMatrix(n, n);
    for (int r = 0; r < n; r++) {
        for (int c = 0; c < n; c++) {
            double currValue = data.getEntry(r, c);
            if (currValue == 0) {
                matrix.setEntry(r, c, 0);
            } else {
                matrix.setEntry(r, c, percentile.evaluate(currValue));
            }
            //matrix.setEntry(r, c, percentile.evaluate());
        }
    }
    return matrix;
}