- Author:
- David Nickerson <david.nickerson@gmail.com>
- Date:
- 2024-01-11 17:21:14+13:00
- Desc:
- Initial documentation to use in making an exposure
- Permanent Source URI:
- https://models.physiomeproject.org/workspace/af1/rawfile/385e62f157807ba847934cef89d8289f9bb01671/README.rst
Bond graph example: A biochemical reaction with mixed stoichiometry
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Consider a reaction in compartment :math:`c` with two reactants :math:`q_c^1`, :math:`q_c^2` and two products :math:`q_c^3`, :math:`q_c^4`, with the stoichiometry shown below.
.. figure:: fig1.png
:width: 95%
:align: center
:alt: Schematic and bond graph of the model
A biochemical reaction with 2 reactants and 2 products (a), and its bond graph representation (b).
The **Views Available** menu to the right provides various options to explore this model here in the Physiome Model Repository.
Of particular interest is the *Launch with OpenCOR* menu item, which will load the simulation experiment shown below directly into the `OpenCOR`_ desktop application.
.. figure:: fig2.png
:width: 95%
:align: center
:alt: OpenCOR showing simulation experiment.
Showing the result of launching the simulation experiment from this exposure in OpenCOR and executing the simulation.
.. _CellML: https://www.cellml.org/
.. _OpenCOR: https://opencor.ws/
.. _SED-ML: https://sed-ml.org
