- Author:
- WeiweiAi <wai484@aucklanduni.ac.nz>
- Date:
- 2021-05-11 19:01:25+12:00
- Desc:
- Since include is not supported by the PMR, delete readme.rst;
Modify the relative paths in README.rst because it will be placed at the top level in the workspace by the server.
Since :numref: and :ref: are not supported by the PMR, change them to footnote and implicit hyperlink target.
- Permanent Source URI:
- https://staging.physiomeproject.org/workspace/64f/rawfile/5074b763ad9025abb3013f3983e690e48bfd90e5/doc/experiments.rst
Experiments protocols
---------------------
Following best practices, this model separates the mathematics from the parameterisation of the model. The mathematical model is imported into a specific parameterised instance in order to perform numerical simulations.
The parameterisation would include defining the stimulus protocol to be applied.
This workspace has three sets of experiments:
1. `Periodic stimulation <../experiments/periodic-stimulus.cellml/view>`_
2. `Voltage clamp experiment <../experiments/voltage_clamp_experiment.cellml/view>`_
3. `Action potential propagation along 1D cable model <../experiments/AP_propagation_experiment.cellml/view>`_
Simulation settings
-------------------
Simulation settings are encoded in SED-ML_ documents for experiment execution.
The python scripts to run simulation and reproduce the figures in the original paper are also included.
.. _SED-ML: http://sed-ml.org/
