Some tips here were extracted from the [[http://cytoscape.org/community.php|cytoscape-discuss]] list.

<<TableOfContents>>

== Getting information about neighbors ==

If you are working with a undirected network, you can use the {{{neighborsList()}}} method from {{{GraphPerspective}}}. 

For directed networks, you can use {{{GraphPerspective.getAdjacentEdgeIndicesArray}}}. Here an example (as used in the ShortestPathPlugin).

First, create some methods to set if your network is directed or not:

{{{#!java
public void setUndirected() {
	undirected = true;
	incoming = true;
	outcoming = true;
}

public void setDirected() {
	undirected = false;
	incoming = false;
	outcoming = true;
}
}}}

Then, you can call them from your main code:

{{{#!java
if (directed) {
	setDirected();
}
else {
	setUndirected();
}
}}}

Now, all you need to get the neighbors is:

(obs: {{{nodeIndex}}} is the node index of the node you want to find the neighbors)

{{{#!java
int[] adjEdges = network.getAdjacentEdgeIndicesArray(nodeIndex,undirected,incoming,outcoming);
int[] adjNodes = new int[adjEdges.length];
for (int i = 0; i < adjNodes.length; i++) {
	int node = network.getEdgeSourceIndex(adjEdges[i]);
	if (node == nodeIndex) 
		node = network.getEdgeTargetIndex(adjEdges[i]);
	adjNodes[i] = node;
}
}}}

== Getting information about inner nodes in a MetaNode ==

(from a post from Iliana):

For every node in a CyNetwork, there is a method called
{{{getGraphPerspective()}}}. This GraphPerspective is the graph inside the
node (if any).

{{{#!java
GraphPerspective insideGraph = metaNode.getGraphPerspective();
if(insideGraph != null){
   int numNodes = insideGraph.getNodeCount();

} 
}}}