org.gersteinlab.tyna.core.operators
Class CycleMotifMiner

java.lang.Object
  org.gersteinlab.tyna.core.operators.MotifMiner
      org.gersteinlab.tyna.core.operators.CycleMotifMiner

All Implemented Interfaces:

UnaryOperator

public class CycleMotifMiner

extends MotifMiner

	This class defines the cycle motif miner. It takes a graph as input, and
	returns a graph that contains the set of all cycles that satisfy some
	requirements.
	

Version:

1.0 (December 9, 2005) Change History: 1.0 - Initial version

Author:

Kevin Yuk-Lap Yip

Field Summary

protected int	maxSize The maximum size
protected int	minSize The minimum size

Fields inherited from class org.gersteinlab.tyna.core.operators.MotifMiner

INTEGRATED, MAXIMAL, MINIMAL, outputType, SEPARATED

Constructor Summary

CycleMotifMiner(java.lang.String outputType, int minSize, int maxSize)
Create a new cycle motif miner.

Method Summary

Graph

operate(Graph graph) Perform the operation on a graph.

Methods inherited from class org.gersteinlab.tyna.core.operators.MotifMiner

createOutputGraph

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

minSize

protected int minSize

The minimum size

maxSize

protected int maxSize

The maximum size

Constructor Detail

CycleMotifMiner

public CycleMotifMiner(java.lang.String outputType,
                       int minSize,
                       int maxSize)

Create a new cycle motif miner.

Parameters:

outputType - The output type (separated or integrated)

minSize - The minimum size of each cycle

maxSize - The maximum size of each cycle

Method Detail

operate

public Graph operate(Graph graph)
              throws GraphTypeException

Description copied from interface: UnaryOperator

Perform the operation on a graph.

Parameters:

graph - The graph

Returns:

The resulting graph

Throws:

GraphTypeException - If there are problems with the type of the input graph