README.md

EphysToolkit

Custom Python modules for handling electrophysiology data produced by the Cang Lab at UVA.

Installation

pip install https://github.com/Elsayedaa/EphysToolkit/archive/refs/heads/main.zip

Documentation

EphysToolkit Documentation

To access the demo

1) create anaconda environment

• If you do not have anaconda installed, click here to download.
• Run anaconda prompt and paste the following commands

conda create -n ephystoolkit python=3.9

conda activate ephystoolkit

2) Install Jupyter Notebook and register the environment

pip install jupyterlab

python -m ipykernel install --user --name ephystoolkit --display-name "Python (ephystoolkit)"

3) Install EphysToolkit and other dependencies

pip install https://github.com/Elsayedaa/EphysToolkit/archive/refs/heads/main.zip  

pip install matplotlib seaborn

4) Download the demo notebook and sample data (932 mb)

• Make sure to download these to the same folder and extract the data zip file into the same folder:
• Demo notebook (GitHub link)
• Dataset (Figshare link)

5) Launch the demo

• Go to the folder where the notebook and the dataset were downloaded
• Run an anaconda prompt from the folder
• Run the command:

jupyter notebook 

• Click the demo notebook