EBRAINS Connectivity Analysis

This repository holds code to demo how to run a connectivity analysis pipeline with EBRAINS atlases using siibra-python and Nilearn.

Note

You can run this notebook on EBRAINS

Otherwise see instructions below for running the notebook locally.

Requirements

• Python
• Jupyter notebook to edit and run the notebook interactively

Dependencies

• nilearn >= 0.9.0
• siibra == 0.4a77
• matplotlib

You can simply run pip install -r requirements.txt in a python virtual environment (recommended) to install the dependencies.

Nilearn

Nilearn is a Python package providing statistical and machine-learning tools to enable analyses of brain volumes.

The documentation is available here.

The source code is available on GitHub here.

Siibra

Siibra is a Python client for interacting with brain atlases defined across multiple scales and modalities.

The documentation is available here.

The source code is available on Github here.

Quick start

Make sure you have the requirements installed and run the following notebook.

Contacts

For any question you can contact Yasmin Mzayek at [email protected].