In this tutorial we will use the built-in demos in
xolotl to see what
it can do, and to play with some models. We assume that you have installed
xolotl correctly, and have verified your installation. If you haven't
done that already, click here and complete the steps on that page first.
How to use the demos¶
First, let's go to the folder that contains the demos:
Once there, you can run any of the scripts there to launch that demo. For example:
You should see this plot appear:
If this didn't work, see our troubleshooting page.
You can also try running:
cpplab.rebuildCache in MATLAB.
You can see what effect changing the maximal conductances has on the voltage dynamics by running:
This GUI will appear with sliders for maximal conductances of all the channels in the model. Try moving them around and seeing what happens with the voltage dynamics.
Xolotl comes with several example scripts that illustrate various features of the simulator. They're all in a folder called "examples", and you can jump into this folder from anywhere using
xolotl.go_to_examples. Once there, run any one of these scripts by typing its name.
|Demo name||What this demonstrates|
|demo_adaptive_sampling||This example shows you how to use
|demo_approx||This example shows you how to use the
|demo_bursting_neuron||This example sets up a simple bursting neuron. It demonstrates how to use relational parameters to specify parameters that depend on other parameters in the model.|
|demo_clamp||This example shows you how to voltage clamp a compartment, and simulate the process of estimating the I-V curve of a conductance|
|demo_clamp_rk4||This demo is the same as
|demo_conductance||This script shows you how to use the conductance class to generate new C++ files for your own channels|
|demo_controlling_integration||This example shows you how to use the
|demo_integral_control||This example shows you how to work with
|demo_manipulate||This demo shows you how to use the manipulate method|
|demo_multi_compartment||This example sets up a multi-compartment model, where different compartments have different levels of channels|
|demo_finite_size||This example varies the size of a neuron, and shows that smaller neurons are more dominated by noise due to the finite number of ion channels|
|demo_rk4||This demo shows you how to use the
|demo_stg||In this example, we set up a small network of three neurons, demonstrating how synapses work in xolotl|
|demo_stg_temperature||Here, we vary the temperature of the simulation, showing how we can make the model sensitive to temperature.|