This repository contains a number of examples of models expressed in LEMS & NeuroML 2. These examples have been used to illustrate the finctionality of LEMS/NeuroML 2 in the publication:
Robert C. Cannon, Padraig Gleeson, Sharon Crook, Gautham Ganapathy, Boris Marin, Eugenio Piasini and R. Angus Silver, LEMS: A language for expressing complex biological models in concise and hierarchical form and its use in underpinning NeuroML 2, Frontiers in Neuroinformatics 2014, doi: 10.3389/fninf.2014.00079
Note: this repository includes snapshots of jLEMS or PyLEMS which can read & execute the example models.
Information about getting the latest versons of jLEMS, PyLEMS and the NeuroML 2 ComponentTypes are at:
- https://docs.neuroml.org/Userdocs/Software/jLEMS.html
- https://docs.neuroml.org/Userdocs/Software/pyLEMS.html
- https://docs.neuroml.org/Userdocs/NeuroMLv2.html
To run these examples with the included version of jLEMS:
./jlems Figure3_HHcell.xml (Linux/Mac)
jlems.bat Figure3_HHcell.xml (Windows)
These examples can alternatively be run using jNeuroML, which also provides export (e.g. -neuron, -brian) and import (-sbml-import) options
Note: full instructions for getting the latest version of jNeuroML can be found at: https://docs.neuroml.org/Userdocs/Software/jNeuroML.html
Run the examples using the included version of PyLEMS:
python pylems Figure3_HHcell.xml
