These exercises are adapted from the 2018 NEURON summer course given in Atlanta, Georgia. You can also download the course archive.
- Introduction to the GUI
Lipid bilayer model
- Interactive modeling
Squid axon model
- The CellBuilder
Constructing a ball and stick model, saving session files
- Using morphometric data
The Import3D tool
- Scripting NEURON with Python
- Using NMODL files
Single compartment model with HHk mechanism
- Using ModelDB and ModelView
Neuroinformatics tools for finding and understanding models
- Reaction-diffusion
- Specifying inhomogeneous channel distributions
with the CellBuilder
- Custom initialization
- Introduction to the linear circuit builder
A two-electrode voltage clamp
- State and parameter discontinuities
- Bulletin board parallelization
Speed up embarrassingly parallel tasks
- HOC exercises
Introduction to the HOC programming language
- Multithread parallelization
- Networks: discrete event simulations with artificial cells
Introduction to the Network Builder
- Networks: continuous simulation of nets with biophysical model cells
Network ready cells from the CellBuilder
- Hopfield-Brody network in Python
- MPI Parallelization
- Using the Neuroscience Gateway Portal
- Numerical Methods Exercises
- Electrotonic Analysis