Example usage for org.apache.commons.math3.linear RealMatrix copy

Introduction

In this page you can find the example usage for org.apache.commons.math3.linear RealMatrix copy.

Prototype

RealMatrix copy();

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Returns a (deep) copy of this.

Usage

From source file:org.rhwlab.dispim.nucleus.Nucleus.java

private RealMatrix reverseHandedness(RealMatrix m) {
    RealMatrix ret = m.copy();
    for (int c = 0; c < m.getColumnDimension(); ++c) {

        ret.setEntry(0, c, -m.getEntry(0, c));
    }/*from  w  w w .j av  a 2 s. co  m*/
    return ret;
}

From source file:stats.SpearmansCorrelation.java

/**
 * Applies rank transform to each of the columns of <code>matrix</code> using
 * the current <code>rankingAlgorithm</code>.
 *
 * @param matrix/*from  w w  w .  j  a  va 2s.c om*/
 *          matrix to transform
 * @return a rank-transformed matrix
 */
private RealMatrix rankTransform(final RealMatrix matrix) {
    RealMatrix transformed = null;

    if (rankingAlgorithm instanceof NaturalRanking
            && ((NaturalRanking) rankingAlgorithm).getNanStrategy() == NaNStrategy.REMOVED) {
        final Set<Integer> nanPositions = new HashSet<Integer>();
        for (int i = 0; i < matrix.getColumnDimension(); i++) {
            nanPositions.addAll(getNaNPositions(matrix.getColumn(i)));
        }

        // if we have found NaN values, we have to update the matrix size
        if (!nanPositions.isEmpty()) {
            transformed = new BlockRealMatrix(matrix.getRowDimension() - nanPositions.size(),
                    matrix.getColumnDimension());
            for (int i = 0; i < transformed.getColumnDimension(); i++) {
                transformed.setColumn(i, removeValues(matrix.getColumn(i), nanPositions));
            }
        }
    }

    if (transformed == null) {
        transformed = matrix.copy();
    }

    for (int i = 0; i < transformed.getColumnDimension(); i++) {
        transformed.setColumn(i, rankingAlgorithm.rank(transformed.getColumn(i)));
    }

    return transformed;
}