fern.example
Class DecayingDimerizingPlots

java.lang.Object
  extended by fern.example.DecayingDimerizingPlots

Deprecated.

@Deprecated
public class DecayingDimerizingPlots
extends Object

Demonstration of performance and accuracy differences of the different simulation algorithms. The reaction network proposed in [1] are used to calculate histograms and the histogram distances [4] of the amount of some molecular species at a special time point in order to compare results of different algorithms. Here, Fig. 3 of [3] is reproduced and the gain of accuracy when using a species bounded tau leaping procedure without loss of performance is shown.

For references see [1] Gillespie D.T., J. Comput. Phys. 22, 403 (1976), [2] D.Gillespie, J.Chem.Phys. 115, 1716 (2001), [3] D.Gillespie and L.Petzold, J.Chem.Phys. 119, 8229 (2003), [4] Cao Y. and Petzold L., J. Comp. Phys. 212, 6�24 (2006).


Constructor Summary
DecayingDimerizingPlots()
          Deprecated.  
 
Method Summary
static void main(String[] args)
          Deprecated.  
 
Methods inherited from class java.lang.Object
equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Constructor Detail

DecayingDimerizingPlots

public DecayingDimerizingPlots()
Deprecated. 
Method Detail

main

public static void main(String[] args)
                 throws IOException,
                        org.jdom.JDOMException
Deprecated. 
Throws:
IOException
org.jdom.JDOMException