git clone <this-github-url>
pip install -r requirements.txt
The dataset in this project is from the Flatiron Institute, distributed to test CaImAn Givannucci et al, 2019:
- Giovannucci A., Friedrich J., Gunn P., Kalfon J., Koay S.A., Taxidis J., Najafi F., Gauthier J.L., Zhou P., Tank D.W., Chklovskii D.B., Pnevmatikakis E.A. (2018). CaImAn: An open source tool for scalable Calcium Imaging data Analysis. eLife 2019;8:e38173.
- Link to the N.03.00.t dataset: https://users.flatironinstitute.org/~neuro/caiman_paper/N.03.00.t.html
- Link to the CaImAn package: https://github.com/flatironinstitute/CaImAn
Once the python packages are installed, the data can be downloaded to the data/raw folder via DVC:
dvc pull
```or
python -m dvc pull
pip install --upgrade jupyterlab --user pip show jupyterlab