Stacks Image 4
PyDSTool & PyCont

This is a sophisticated & integrated simulation and analysis environment in Python for dynamical systems models of physical systems (ODEs, DAEs, maps, and hybrid systems). It supports symbolic math, optimization, continuation, data analysis, biological apps, and many others.

* Download:
* Wiki:

* Robert H. Clewley
* William Erik Sherwood
* John Guckenheimer
* M. Drew LaMar
Stacks Image 145
IONTW: Infection On NeTWorks

IONTW uses the NetLogo programming language, which was developed by Uri Wilensky at The Center for Connected Learning and Computer-Based Modeling.

IONTW simulates both discrete and continuous time agent-based models of infectious disease dynamics on networks. It can simulate models of type SEIR, SIR, SEI, SI, SEIS, and SIS.

Supported network types include: complete graphs, empty graphs, Erdös-Rényi, nearest-neighbor (1 and 2 dimensions), small world (1 and 2 dimensions), preferential attachment, generic scale-free, spatially clustered, random regular, trees, as well as approximately uniform realizations from custom degree sequences and custom distributions.

* Software page:
* Accompanying book chapters and teaching modules
* Run on the web (QUBES Hub account required)

* M. Drew LaMar
Stacks Image 148

CSimplex is a plugin for Geomview that allows for the visualization of carrying simplices in n-dimensional competitive Lotka-Volterra systems. This software can compute the carrying simplex, numerical trajectories, and nullclines of the system.

* Download: Contact me
* 3-D Lotka-Volterra Systems
* Lotka-Volterra Equations Through Computer Visualization
* Stephen Baigent

* Mary Lou Zeeman
* M. Drew LaMar