All of the software we develop is open-source and available under Gnu public license.

NERDSS: Nonequilibrium Reaction-diffusion self-assembly simulator (2020)

Assembly Kinetics with Automatic Differentiation (2024)

SBOPN: Stoichiometric Balance Optimized for Protein Networks (2018)

FPR : Structure resolved reaction-diffusion simulator using the Free-propagator Reweighting (FPR) algorithm (2018)

IIN Sampling: Monte Carlo sampling of Interface Interaction Networks (IIN) for a defined protein network (2017)

• Example networks and Cytoscape files: David Holland 2017

Check out some movies of biological simulations