The purpose of this template is to be a foundation for creating a new research project, specifically for data/network science research in the NERDS research group - but feel free to use it in any way. The template comes with a basic folder structure and a workflow adapted for programming using Python.
This is the source code for the scientific paper/project PROJECTNAME by AUTHOR1, AUTHOR2, and AUTHOR3. The code SHORTEXPLANATION.
Preprint: arXiv:XXXX.XXXXX
Data repository: zenodo.XXXXXXX
First clone the repository:
git clone https://github.com/USER/REPO.git
Go to the cloned folder and create a new virtual environment. You can either create a new virtual environment then install the necessary dependencies with pip using the requirements.txt file:
pip install -r requirements.txt
Or create a new environment with the dependencies with conda or mamba using the environment.yml file:
mamba env create -f environment.yml
Then, install the virtual environment's kernel in Jupyter:
mamba activate ENVNAME
ipython kernel install --user --name=ENVNAME
mamba deactivate
You can now run jupyter lab with kernel ENVNAME (Kernel > Change Kernel > ENVNAME).
├── data
│ ├── processed <- Modified data
│ └── raw <- Original, immutable data
├── notebooks <- Jupyter notebooks
├── plots <- Generated figures
├── scripts <- Scripts to execute
├── .gitignore <- Files and folders ignored by git
├── .pre-commit-config.yaml <- Pre-commit hooks used
├── CITATION.cff <- Citation file (template)
├── README.md
├── TEMPLATE.md <- Explanation for the template, delete it after use
├── environment.yml <- Environment file to set up the environment using conda/mamba
└── requirements.txt <- Requirements file to set up the environment using pip
Please cite as: AUTHOR1, AUTHOR2, and AUTHOR3, PROJECTNAME, JOURNAL (YYYY), DOIURL
Development of PROJECTNAME was supported by FUNDER.