Tractography analysis with the scilpy toolbox
We present scilpy, an open-source Python library for diffusion magnetic resonance imaging (dMRI) and tractography. It provides a large collection of well-documented, user-friendly scripts that support nearly every stage of the dMRI processing pipeline, from preprocessing (such as denoising, registration, and local fiber reconstruction) to tractography and post-processing of tractograms, including connectivity and bundle analyses. Scilpy leverages the strength of DIPY, is well-tested through modern continuous integration practices, and is actively maintained.
Authors
- Gabrielle Grenier
- Emmanuelle Renauld (ORCID: https://orcid.org/0000-0003-1292-5097)
- Graham Little (ORCID: https://orcid.org/0000-0002-2511-6945)
- Etienne St‐Onge (ORCID: https://orcid.org/0000-0002-9734-4947)
- Philippe Poulin (ORCID: https://orcid.org/0000-0002-0116-4352)
- Vincent Beaudoin
- Arnaud Boré (ORCID: https://orcid.org/0000-0002-4822-1211)
- Charles Poirier (ORCID: https://orcid.org/0000-0001-5677-7474)
- Guillaume Theaud (ORCID: https://orcid.org/0000-0002-8440-1009)
- Philippe Karan (ORCID: https://orcid.org/0009-0007-3320-2011)
- Antoine Théberge (ORCID: https://orcid.org/0000-0002-3959-8316)
- Maxime Descôteaux
- Anthony Gagnon (ORCID: https://orcid.org/0000-0002-4468-0269)
- Mario Ocampo Pineda
- Laurent Petit (ORCID: https://orcid.org/0000-0001-9941-2053)
- François Rheault
- Manon Edde
- Alexandre Joanisse
- Jean-Christophe Houde
- Matteo Battochio
- Stanislas Thoumyre
- Zineb El Yamani
- Gabriel Girard
- Jon Haitz Legarreta
- Alex Valcourt-Caron
Institutions
- University of Verona (IT)
- Brigham and Women's Hospital (US)
- Centre National de la Recherche Scientifique (FR)
- Université de Sherbrooke (CA)
- Harvard University (US)
- Université de Bordeaux (FR)
- University of Basel (CH)
- Université du Québec en Outaouais (CA)
- Centre Émile Durkheim (FR)
- Université de Montréal (CA)
Publication Details
- Journal
- Aperture Neuro
- Published
- 2026-01-08
- DOI
- https://doi.org/10.52294/001c.154022
- Citations
- 2
- Primary Topic
- Advanced Neuroimaging Techniques and Applications
- Type
- article
- Field-Weighted Citation Impact
- 63.85