functional-connectivity implements a set of tools to detect and sense changes in a functional network from spike counts
This is the software repository behind the paper:
- Tzu-Chi Yen and Yi-Yun Ho, Mapping functional neuronal networks to behavioral states, in preparation (2024).
Read it on: arXiv.
- For full documentation, please visit this site.
- For general Q&A, ideas, or other things, please visit Discussions.
- For software-related bugs, issues, or suggestions, please use Issues.
functional-connectivity is available on PyPI:
pip install functional-connectivity
The dependencies needed to interact with Dandi are not installed by default. You will need to run:
pip install --ignore-installed --no-binary=h5py h5py scipy numba
Remember that ./docs contains the documentation of this library.
You would need AWS credentials to be able to execute ./docs/deploy.sh.
To install the dependencies, use the following snippets.
pip install toml
python scripts/pyproject2req.py
pip install -r requirements.txt
The functional-connectivity library is supported by The Kavli Foundation. TCY wants to thank Rebecca Morrison (@rebeccaem) and Stephen Becker (@stephenbeckr) for inspirations.
We also want to thank the authors in these software implementations:
- cvxgrp/strat_models
- GalSha/GLASSO_Framework: arXiv (2023)
- tpetaja1/tvgl: KDD (2017), time-varying GGM using ADMM and Python 2.7.
functional-connectivity is open-source and licensed under the GNU Lesser General Public License v3.0.