protected void cleanUpEdges(double significanceThreshold, double correlationThreshold) {
for (int x = 0; x < graph.getNumberOfInitialNodes(); x++) {
for (int y = 0; y < graph.getNumberOfInitialNodes(); y++) {
if (graph.getNodeMappedTo(x) == null
|| graph.getNodeMappedTo(y) == null
|| (graph.getBinarySignificance(x, y) < significanceThreshold
&& graph.getBinaryCorrelation(x, y) < correlationThreshold)) {
graph.setBinarySignificance(x, y, 0.0);
graph.setBinaryCorrelation(x, y, 0.0);
}
}
}
}
protected boolean shouldMergeWith(Node node, ClusterNode cluster) {
if (cluster.getPrimitives().size() == 0) {
return true; // always add first node
}
if (cluster.isDirectlyConnectedTo(node) == true && cluster.contains(node) == false) {
double ownSignificance = 0.0;
double otherSignificance = 0.0;
double ownCorrelation = 0.0;
double otherCorrelation = 0.0;
// aggregate correlation and significance of edges between the node
// in
// question and connected nodes, separately for edges to/from
// cluster and
// to/from other nodes.
for (int i = 0; i < graph.getNumberOfInitialNodes(); i++) {
if (i == node.getIndex()) {
continue; // ignore self-references
}
if (cluster.contains(graph.getPrimitiveNode(i))) {
ownSignificance += graph.getBinarySignificance(node.getIndex(), i);
ownSignificance += graph.getBinarySignificance(i, node.getIndex());
ownCorrelation += graph.getBinaryCorrelation(node.getIndex(), i);
ownCorrelation += graph.getBinaryCorrelation(i, node.getIndex());
} else {
otherSignificance += graph.getBinarySignificance(node.getIndex(), i);
otherSignificance += graph.getBinarySignificance(i, node.getIndex());
otherCorrelation += graph.getBinaryCorrelation(node.getIndex(), i);
otherCorrelation += graph.getBinaryCorrelation(i, node.getIndex());
}
}
// make a decision
return (ownCorrelation > otherCorrelation || ownSignificance > otherSignificance);
} else {
// no connection - no merge.
return false;
}
}