https://github.com/neuroml/nml2_lems_examples
https://github.com/neuroml/nml2_lems_examples
Last synced: about 1 year ago
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- Host: GitHub
- URL: https://github.com/neuroml/nml2_lems_examples
- Owner: NeuroML
- Created: 2014-04-23T11:30:52.000Z (about 12 years ago)
- Default Branch: master
- Last Pushed: 2021-03-26T10:44:39.000Z (about 5 years ago)
- Last Synced: 2025-02-06T09:25:47.182Z (over 1 year ago)
- Language: Python
- Size: 941 KB
- Stars: 0
- Watchers: 8
- Forks: 1
- Open Issues: 0
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Metadata Files:
- Readme: README.md
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README
Examples of LEMS & NeuroML2
===========================
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](http://journal.frontiersin.org/Journal/10.3389/fninf.2014.00079/abstract), 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
jLEMS
-----
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](https://docs.neuroml.org/Userdocs/Software/jNeuroML.html)**, 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
PyLEMS
------
Run the examples using the included version of PyLEMS:
python pylems Figure3_HHcell.xml
[](https://travis-ci.com/NeuroML/NML2_LEMS_Examples)