Note: [*] denotes the example is missing.

Morphology Examples

Example 1. Creating morphologies from python dictionaries
Example 2. Loading from SWC and rendering with Matplotlib
Example 3. Load SWC data from a string directly into a MorphologyArray
Example 4. Converting between the morphology representations
Example 5. Load morphologies from MorphML, and plot using MayaVI
Example 6. Simple morphology analysis

Single Cell Simulation Examples

Example 7. The response of a single compartment neuron with leak channels to step current injection
Example 8. Hodgkin-Huxley ‘52 neuron simulation
Example 9. Hodgkin-Huxley ‘52 neuron simulation with automatic summary pdf generation
Example 10. Investigating the rheobase of a neuron with a parameter sweep
Example 11. Demonstrate using NEURON mod files directly in a simulation
Example 12. Visualising action potential propagation along an axon
Example 13. Using a channel library to reduce duplication
Example 14. Visualising the internal states of a neuron
Example 15. Applying different channel densities over a cell
Example 16. Compartmentalisation of neuron
Example 17. Specifying the different types of current clamps

Multiple Cell Simulation Examples

NeuronPopulations

Stochasitic connections (Neuron+GSL)

Example 18. 2 cells connected with an AMPA synapse
Example 19. The responses of two cells connected by a gap junction to a step current injection into the first
Example 20. Defining populations of neurons

Assorted Examples

In this example, we show how channels can be specified using MODL files, NeuroUnits, Python classes and NeuroML files to simulate a Hodgkin-Huxley type neuron.

Example 21. Comparing simulations: the Hodgkin-Huxley ‘52 channels
Example 24. Summarise the various plugins of the environment

From OCNS-2012 Poster

Example 22. Simulation of a HodgkinHuxley-type neuron specified through NeuroUnits
Example 23. Action potential propagation and synaptic transmission

(To Add)

Using the MorphologyTree object model (motivation; finding branch points?)

Steves analysis example

Loading in a XY file and adding the Z coordinate

Pulling out traces by hand and plotting with matplotlib

Using Randomness

Using Units

Trace & Event Sets?

Sin-wave current clamp injection

Specifying the compartmentalisation of neurons

Configuring the TagViewer

Writing an new maths channel

Working with traces

Small CPG network [Sautoius et al?]

Working with traces & component libraries