Examples with Node edu.cmu.tetrad.graph.Node used on opensource projects

Example 61 with Node

use of edu.cmu.tetrad.graph.Node in project tetrad by cmu-phil.

the class IndTestFisherZConcatenateResiduals method residuals.

private double[] residuals(Node node, List<Node> parents) {
    List<Double> _residuals = new ArrayList<>();
    Node target = dataSets.get(0).getVariable(node.getName());
    List<Node> regressors = new ArrayList<>();
    for (Node _regressor : parents) {
        Node variable = dataSets.get(0).getVariable(_regressor.getName());
        regressors.add(variable);
    }
    for (int m = 0; m < dataSets.size(); m++) {
        RegressionResult result = regressions.get(m).regress(target, regressors);
        double[] residualsSingleDataset = result.getResiduals().toArray();
        double mean = StatUtils.mean(residualsSingleDataset);
        for (int i2 = 0; i2 < residualsSingleDataset.length; i2++) {
            residualsSingleDataset[i2] = residualsSingleDataset[i2] - mean;
        }
        for (double d : residualsSingleDataset) {
            _residuals.add(d);
        }
    }
    double[] _f = new double[_residuals.size()];
    for (int k = 0; k < _residuals.size(); k++) {
        _f[k] = _residuals.get(k);
    }
    return _f;
}

Example 62 with Node

use of edu.cmu.tetrad.graph.Node in project tetrad by cmu-phil.

the class IndTestFisherZFisherPValue method getVariableNames.

/**
 * @return the list of variable varNames.
 */
public List<String> getVariableNames() {
    List<Node> variables = getVariables();
    List<String> variableNames = new ArrayList<>();
    for (Node variable1 : variables) {
        variableNames.add(variable1.getName());
    }
    return variableNames;
}

Example 63 with Node

use of edu.cmu.tetrad.graph.Node in project tetrad by cmu-phil.

the class IndTestFisherZFisherPValue method getAvailablePValues.

private static List<Double> getAvailablePValues(List<IndependenceTest> independenceTests, Node x, Node y, List<Node> condSet) {
    List<Double> allPValues = new ArrayList<>();
    for (IndependenceTest test : independenceTests) {
        // if (missingVariable(x, y, condSet, test)) continue;
        List<Node> localCondSet = new ArrayList<>();
        for (Node node : condSet) {
            localCondSet.add(test.getVariable(node.getName()));
        }
        try {
            test.isIndependent(test.getVariable(x.getName()), test.getVariable(y.getName()), localCondSet);
            allPValues.add(test.getPValue());
        } catch (Exception e) {
        // Skip that test.
        }
    }
    return allPValues;
}

Example 64 with Node

use of edu.cmu.tetrad.graph.Node in project tetrad by cmu-phil.

the class IndTestFisherZRecursive method indTestSubset.

// ==========================PUBLIC METHODS=============================//
/**
 * Creates a new independence test instance for a subset of the variables.
 */
public IndependenceTest indTestSubset(List<Node> vars) {
    if (vars.isEmpty()) {
        throw new IllegalArgumentException("Subset may not be empty.");
    }
    for (Node var : vars) {
        if (!variables.contains(var)) {
            throw new IllegalArgumentException("All vars must be original vars");
        }
    }
    int[] indices = new int[vars.size()];
    for (int i = 0; i < indices.length; i++) {
        indices[i] = indexMap.get(vars.get(i));
    }
    ICovarianceMatrix newCovMatrix = covMatrix.getSubmatrix(indices);
    double alphaNew = getAlpha();
    return new IndTestFisherZRecursive(newCovMatrix, alphaNew);
}

Example 65 with Node

use of edu.cmu.tetrad.graph.Node in project tetrad by cmu-phil.

the class IndTestHsic method getVariableNames.

/**
 * @return the list of variable varNames.
 */
public List<String> getVariableNames() {
    List<Node> variables = getVariables();
    List<String> variableNames = new ArrayList<>();
    for (Node variable1 : variables) {
        variableNames.add(variable1.getName());
    }
    return variableNames;
}