| ## Jupyter notebook for the Hodgkin Huxley model |
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| This is an interactive web notebook using [Jupyter technologies](https://jupyter.org/) which can be used to run the HH model, change the parameters of the model and display the dynamical properties of variables. |
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| <p align="center" ><kbd><a href="#running-the-notebook"><img src="../../Tutorial/_media/HH_Jupyter.png" width="600"/></a></kbd></p> |
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| This notebook was developed as part of [Google Summer of Code 2022 by Rahul Sonkar](notebooks/GSoC_2022_Submission/GSoC_Documentation.md). |
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| ## Running the notebook |
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| ### Option 1) Using Open Source Brain version 2 |
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| *Advantage: you can save any changes you make to the notebook in your [OSBv2 workspace](https://docs.opensourcebrain.org/OSBv2/Overview.html), and view/edit other files associated with the model including the [Python implementation of the HH model](https://github.com/openworm/hodgkin_huxley_tutorial/blob/master/Tutorial/Source/HodgkinHuxley.py).* |
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| - Go to [Open Source Brain v2](https://v2.opensourcebrain.org) and [register for a new account](https://docs.opensourcebrain.org/OSBv2/Guided_tour.html#register-sign-in-to-osbv2) and log in. |
| - Go to the Hodgkin Huxley model repository page at https://v2.opensourcebrain.org/repositories/33. |
| - Click on **New workspace from selection** (blue button). |
| - When this has been created, go to the new workspace page and click on **Open with JupyterLab**. |
| - This opens a copy of all the files in the repository in [JupyterLab](https://docs.opensourcebrain.org/OSBv2/JupyterLab.html#osbv2-applications-jupyterlab). |
| - In the left had file browser navigate to the folder `Hodgkin Huxley Tutorials/master/notebooks/Python_HH_version` and double click on `Python_Notebook_HH.ipynb` to open the notebook. |
| - You should be able to run the interactive widget by click the double arrow (▶▶) in the JupyterLab toolbar at the top of the notebook. |
| - Note: the lighter version of the JupyterLab interface shown above can be accessed in the menu: `Settings -> Theme -> JupyterLab Light`. |
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| ### Option 2) Using Binder |
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| *Advantage: quick to start & run, no login required* |
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| - The notebook can also be opened using [Binder](https://mybinder.org/). Click here to open the HH notebook: [](https://mybinder.org/v2/gh/openworm/hodgkin_huxley_tutorial/master?labpath=notebooks%2FPython_HH_version%2FPython_Notebook_HH.ipynb) |
| - You should be able to run the interactive widget by click the double arrow (▶▶) in the JupyterLab toolbar at the top of the notebook. |
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