ClinicaDL

Open-source Python library for reproducible deep learning in neuroimaging

About the project

ClinicaDL is a Python library to build end-to-end reproducible deep learning pipelines for neuroimaging studies. It works with data following the BIDS standard, or preprocessed outputs of Clinica.

It relies on the medical imaging frameworks MONAI and TorchIO.

To access the full documentation of the project, follow this link.

Installation

See the installation guidelines.

Getting started

For a quick overview of ClinicaDL, read the Quickstart section of the documentation.

Contributing

See the contribution guidelines.

Related Repositories

• Clinica: Software platform for clinical neuroimaging studies
• AD-DL: Convolutional neural networks for classification of Alzheimer's disease: Overview and reproducible evaluation
• AD-ML: Framework for the reproducible classification of Alzheimer's disease using machine learning

Citing us

• Thibeau-Sutre, E., Díaz, M., Hassanaly, R., Routier, A., Dormont, D., Colliot, O., Burgos, N.: ClinicaDL: an open-source deep learning software for reproducible neuroimaging processing, 2021. doi:10.1016/j.cmpb.2022.106818 Open Access version
• Routier, A., Burgos, N., Díaz, M., Bacci, M., Bottani, S., El-Rifai O., Fontanella, S., Gori, P., Guillon, J., Guyot, A., Hassanaly, R., Jacquemont, T., Lu, P., Marcoux, A., Moreau, T., Samper-González, J., Teichmann, M., Thibeau-Sutre, E., Vaillant G., Wen, J., Wild, A., Habert, M.-O., Durrleman, S., and Colliot, O.: Clinica: An Open Source Software Platform for Reproducible Clinical Neuroscience Studies, 2021. doi:10.3389/fninf.2021.689675 Open Access version