├── .github └── workflows │ ├── non-omv.yml │ └── omv-ci.yml ├── .gitignore ├── .openworm.yml ├── .readthedocs.yaml ├── .travis.yml ├── CITATION.md ├── LICENSE ├── README.md ├── Tutorial ├── Makefile ├── Source │ ├── GEPPETTO.md │ ├── GEPPETTO.ses.js │ ├── GEPPETTO.singleap.ses.js │ ├── GEPPETTO.vclamp.ses.js │ ├── HHCellNetwork.net.nml │ ├── HHCellSingleAP.net.nml │ ├── HHCellVClamp.net.nml │ ├── HodgkinHuxley.py │ ├── LEMS_HH_Simulation.xml │ ├── LEMS_HH_SingleAP.xml │ ├── LEMS_HH_VClamp.xml │ ├── __init__.py │ ├── hhcell.cell.nml │ ├── jNeuroML-0.7.2-jar-with-dependencies.jar │ ├── kChan.channel.nml │ ├── naChan.channel.nml │ ├── passiveChan.channel.nml │ ├── run.bat │ ├── run.sh │ ├── test │ │ ├── .test.jnml.omt │ │ ├── .test.jnmlnetpyne.omt │ │ ├── .test.jnmlnrn.omt │ │ ├── .test.mep │ │ ├── .test.python.omt │ │ ├── .test.short.mep │ │ ├── .test.short.python.omt │ │ ├── .test.singleap.jnmlbrian2.omt │ │ ├── .test.singleap.jnmleden.omt │ │ ├── .test.singleap.jnmlmoose.omt │ │ ├── .test.singleap.jnmlnrn.omt │ │ ├── .test.singleap.jnmlpynnnrn.omt │ │ ├── .test.singleap.mep │ │ ├── .test.validate.omt │ │ ├── .test.vclamp.jnml.omt │ │ ├── .test.vclamp.jnmlnrn.omt │ │ └── TestShortPulse.py │ └── vclamp.xml ├── __init__.py ├── _media │ ├── HH_Jupyter.png │ ├── equivalentCircuit.png │ ├── equivalentCircuitWhiteBg.png │ ├── fig_1_voltage_steps.png │ ├── fig_2_current_vs_time.png │ ├── fig_3_peak_iv_curve.png │ ├── fig_4_steady_state_iv_curve.png │ ├── figure_1.png │ └── jNeuroML.png ├── _toc │ ├── Electrophysiology.rst │ ├── Exercises.rst │ ├── HHCellNetwork.rst │ ├── Hodgkin Huxley.rst │ ├── LEMS_HH_Simulation.rst │ ├── Source.rst │ ├── Tutorial.rst │ ├── hhcell.rst │ ├── iv_curve.rst │ ├── kChan.rst │ ├── naChan.rst │ ├── passiveChan.rst │ ├── run.rst │ └── run_bat.rst ├── conf.py ├── index.rst └── live.py ├── Tutorial2 └── NeuroML2 │ ├── HHTutorial.net.nml │ ├── LEMS_HHTutorial.xml │ ├── README.md │ ├── hhneuron.cell.nml │ ├── images │ └── HH_OSB.png │ ├── 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