Handbook for the Brain Dynamics Toolbox: Version 2020

The official guide to the Brain Dynamics Toolbox
The Brain Dynamics Toolbox is open-source software for simulating non-linear dynamical systems in Matlab. It is intended for students and researchers in computational neuroscience but can be applied to any domain. It specifically solves initial-value problems in systems of Ordinary Differential Equations (ODEs), Delay Differential Equations (DDEs) and Stochastic Differential Equations (SDEs). Each of which can be extended to a system of Partial Differential Equations (PDEs).

The toolbox allows new dynamical systems to be rapidly prototyped and explored in an intuitive graphical application. Its hub-and-spoke software architecture allows interchangeable solver algorithms and plotting tools to be applied with no additional programming effort. Large-scale simulations can be run in user-defined scripts and the code for the model can be published independently of the toolbox.

1st Prize Winner 2018 Competition for Software on Dynamical Systems Theory and its Applications. Junior Faculty Category. Society for Industrial and Applied Mathematics (SIAM)

Honorable Mention 2019 Competition for Tutorials on Dynamical Systems Software. Junior Faculty Category. Society for Industrial and Applied Mathematics (SIAM)

Dr Stewart Heitmann is a Senior Staff Scientist at the Victor Chang Cardiac Research Institute and Visiting Scientist at QIMR Berghofer Medical Research Institute. He combines Software Engineering with Computational and Mathematical Neuroscience.

Professor Michael Breakspear is Head of the Systems Neuroscience Group at the University of Newcastle, Australia. He studies the principles of adaptive large-scale brain dynamics in health, and the impact of their disturbance in brain disorders.

"A fantastic (and open) resource for all interested in simulating dynamical systems in neuroscience"
-- Olaf Sporns, Indiana University

Dr Stewart Heitmann is a Senior Staff Scientist at the Victor Chang Cardiac Research Institute and Visiting Scientist at QIMR Berghofer Medical Research Institute. He combines Software Engineering with Computational and Mathematical Neuroscience.

Professor Michael Breakspear is Head of the Systems Neuroscience Group at the University of Newcastle, Australia. He studies the principles of adaptive large-scale brain dynamics in health, and the impact of their disturbance in brain disorders.