fern.example
Class DecayingDimerizingHistogramDistances

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

public class DecayingDimerizingHistogramDistances
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. This reproduces the values of Fig. 10 of [3]. Running it the first time will cost some time, the results are saved and then loaded in further runs.

For references see [1] Gillespie D.T., J. Comput. Phys. 22, 403 (1976), [2] D.Gillespie, J.Chem.Phys. 115, 1716 (2001), [3] Cao Y., J. Chem. Phys. 124, 044109 (2006) , [4] Cao Y. and Petzold L., J. Comp. Phys. 212, 6�24 (2006).

Author:
Florian Erhard

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

Constructor Detail

DecayingDimerizingHistogramDistances

public DecayingDimerizingHistogramDistances()
Method Detail

main

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