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

Example 11 with GraphNode

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

the class TestSemVarMeans method constructGraph1.

private Graph constructGraph1() {
    Graph graph = new EdgeListGraph();
    Node x1 = new GraphNode("X1");
    Node x2 = new GraphNode("X2");
    Node x3 = new GraphNode("X3");
    Node x4 = new GraphNode("X4");
    Node x5 = new GraphNode("X5");
    // x1.setNodeType(NodeType.LATENT);
    // x2.setNodeType(NodeType.LATENT);
    graph.addNode(x1);
    graph.addNode(x2);
    graph.addNode(x3);
    graph.addNode(x4);
    graph.addNode(x5);
    graph.addDirectedEdge(x1, x2);
    graph.addDirectedEdge(x2, x3);
    graph.addDirectedEdge(x3, x4);
    graph.addDirectedEdge(x1, x4);
    graph.addDirectedEdge(x4, x5);
    return graph;
}

Example 12 with GraphNode

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

the class TestProposition method sampleBayesIm2.

private BayesIm sampleBayesIm2() {
    Node a = new GraphNode("a");
    Node b = new GraphNode("b");
    Node c = new GraphNode("c");
    Dag graph;
    graph = new Dag();
    graph.addNode(a);
    graph.addNode(b);
    graph.addNode(c);
    graph.addDirectedEdge(a, b);
    graph.addDirectedEdge(a, c);
    graph.addDirectedEdge(b, c);
    BayesPm bayesPm = new BayesPm(graph);
    bayesPm.setNumCategories(b, 3);
    BayesIm bayesIm1 = new MlBayesIm(bayesPm);
    bayesIm1.setProbability(0, 0, 0, .3);
    bayesIm1.setProbability(0, 0, 1, .7);
    bayesIm1.setProbability(1, 0, 0, .3);
    bayesIm1.setProbability(1, 0, 1, .4);
    bayesIm1.setProbability(1, 0, 2, .3);
    bayesIm1.setProbability(1, 1, 0, .6);
    bayesIm1.setProbability(1, 1, 1, .1);
    bayesIm1.setProbability(1, 1, 2, .3);
    bayesIm1.setProbability(2, 0, 0, .9);
    bayesIm1.setProbability(2, 0, 1, .1);
    bayesIm1.setProbability(2, 1, 0, .1);
    bayesIm1.setProbability(2, 1, 1, .9);
    bayesIm1.setProbability(2, 2, 0, .5);
    bayesIm1.setProbability(2, 2, 1, .5);
    bayesIm1.setProbability(2, 3, 0, .2);
    bayesIm1.setProbability(2, 3, 1, .8);
    bayesIm1.setProbability(2, 4, 0, .6);
    bayesIm1.setProbability(2, 4, 1, .4);
    bayesIm1.setProbability(2, 5, 0, .7);
    bayesIm1.setProbability(2, 5, 1, .3);
    return bayesIm1;
}

Example 13 with GraphNode

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

the class TestRowSummingUpdater method sampleBayesIm2.

private BayesIm sampleBayesIm2() {
    Node a = new GraphNode("a");
    Node b = new GraphNode("b");
    Node c = new GraphNode("c");
    Dag graph;
    graph = new Dag();
    graph.addNode(a);
    graph.addNode(b);
    graph.addNode(c);
    graph.addDirectedEdge(a, b);
    graph.addDirectedEdge(a, c);
    graph.addDirectedEdge(b, c);
    BayesPm bayesPm = new BayesPm(graph);
    bayesPm.setNumCategories(b, 3);
    BayesIm bayesIm1 = new MlBayesIm(bayesPm);
    bayesIm1.setProbability(0, 0, 0, .3);
    bayesIm1.setProbability(0, 0, 1, .7);
    bayesIm1.setProbability(1, 0, 0, .3);
    bayesIm1.setProbability(1, 0, 1, .4);
    bayesIm1.setProbability(1, 0, 2, .3);
    bayesIm1.setProbability(1, 1, 0, .6);
    bayesIm1.setProbability(1, 1, 1, .1);
    bayesIm1.setProbability(1, 1, 2, .3);
    bayesIm1.setProbability(2, 0, 0, .9);
    bayesIm1.setProbability(2, 0, 1, .1);
    bayesIm1.setProbability(2, 1, 0, .1);
    bayesIm1.setProbability(2, 1, 1, .9);
    bayesIm1.setProbability(2, 2, 0, .5);
    bayesIm1.setProbability(2, 2, 1, .5);
    bayesIm1.setProbability(2, 3, 0, .2);
    bayesIm1.setProbability(2, 3, 1, .8);
    bayesIm1.setProbability(2, 4, 0, .6);
    bayesIm1.setProbability(2, 4, 1, .4);
    bayesIm1.setProbability(2, 5, 0, .7);
    bayesIm1.setProbability(2, 5, 1, .3);
    return bayesIm1;
}

Example 14 with GraphNode

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

the class TestSemEvidence method constructGraph1.

private Graph constructGraph1() {
    Graph graph = new EdgeListGraph();
    Node x1 = new GraphNode("X1");
    Node x2 = new GraphNode("X2");
    Node x3 = new GraphNode("X3");
    Node x4 = new GraphNode("X4");
    Node x5 = new GraphNode("X5");
    graph.addNode(x1);
    graph.addNode(x2);
    graph.addNode(x3);
    graph.addNode(x4);
    graph.addNode(x5);
    graph.addDirectedEdge(x1, x2);
    graph.addDirectedEdge(x2, x3);
    graph.addDirectedEdge(x3, x4);
    graph.addDirectedEdge(x1, x4);
    graph.addDirectedEdge(x4, x5);
    return graph;
}

Example 15 with GraphNode

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

the class EmBayesProperties method setGraph.

public final void setGraph(Graph graph) {
    if (graph == null) {
        throw new NullPointerException();
    }
    List<Node> vars = dataSet.getVariables();
    Map<String, DiscreteVariable> nodesToVars = new HashMap<>();
    for (int i = 0; i < dataSet.getNumColumns(); i++) {
        DiscreteVariable var = (DiscreteVariable) vars.get(i);
        String name = var.getName();
        Node node = new GraphNode(name);
        nodesToVars.put(node.getName(), var);
    }
    Dag dag = new Dag(graph);
    BayesPm bayesPm = new BayesPm(dag);
    List<Node> nodes = bayesPm.getDag().getNodes();
    for (Node node1 : nodes) {
        Node var = nodesToVars.get(node1.getName());
        if (var != null) {
            DiscreteVariable var2 = (DiscreteVariable) var;
            List<String> categories = var2.getCategories();
            bayesPm.setCategories(node1, categories);
        }
    }
    this.graph = graph;
    this.bayesPm = bayesPm;
    this.blankBayesIm = new MlBayesIm(bayesPm);
}