Cytoscape WikiPlease review the Java-Docs at http://db.systemsbiology.net/cytoscape/grouping/doc/ and comment.
To give you a better idea of how the interfaces work together, here is an example:
Example 1. Algorithm calculated groups:
CyNetwork [] groups = someAlgorithm.calculateGroups(someArgs); groupManager.addGroupsToNetwork(myNetwork); {{{GroupingStrategy collapsingStrategy = GroupingStrategyFactory.createGroupingStrategy(GroupingStrategyFactory.COLLAPSING_STRATEGY); GroupingStrategy stackingStrategy = GrouupingStrategyFactory.createGroupingStrategy(GroupingStrategyFactory.STACKING_STRATEGY);}}} for(int i = 0; i < groups.length; i++){
if(groups[i].nodeCount() > SOME_LIMIT){
- collapsingStrategy.group(myNetwork,groups[i]); // this collapses the groups
- stackingStrategy.group(myNetwork,groups[i]); // this aligns the nodes in a stack
}