fern.example

Class DecayingDimerizingHistogramDistances

java.lang.Object

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

Constructors

Constructor and Description
DecayingDimerizingHistogramDistances()

Method Summary

Modifier and Type	Method and Description
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