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chaos-measles

Simulating chaotic dynamics in measles models

This repository contains code to try to reproduce models of chaotic dynamics in epidemiological models using Julia.

bolker1993

This folder contains code written in C using Mumerical Recipes in C, in order to try to reproduce model runs from Bolker and Grenfell (1993).

krylova2013

This folder contains code for the modeling software XPP-AUT, in order to try to reproduce the brute force model runs from Krylova and Earn (2013). The original XPP-AUT code was taken from the supplementary information, which can be found here.

Dependencies

  • A C compiler (edit CC in the Makefile)
  • Make
  • Gnuplot for plotting
  • XPP-AUT
  • Julia with associated libraries
  • The following Numerical Recipes files, for which you will need a license from http://numerical.recipes/
    • nr.h
    • nutil.h
    • nutil.c
    • odeint.c
    • rkck.c
    • rkqs.c

References

  • Bolker, B.M. and Grenfell, B.T. (1993) Chaos and biological complexity in measles dynamics. Proc Biol Sci 22:75-81. doi:10.1098/rspb.1993.0011
  • Krylova, O. and Earn, D.J.D. (2013) Effects of the infectious period distribution on predicted transitions in childhood disease dynamics. J Roy Soc Interface 10:20130098 doi:10.1098/rsif.2013.0098