PyBASC: Bootstrap Analysis of Stable Clusters in Python
PyBASC is an open source , Nipype-based, parcellation package for preprocessed functional MRI data. Designed for use by both novice and expert users, PyBASC allows users to create individual and group level functional parcellations using a wide variety of clustering methods.
Core Dependencies
| Package | Tested version |
|---|---|
| Scikit-learn | 0.18.2 |
| NumPy | 1.13.1 |
| NiBabel | 2.1.0 |
| SciPy | 0.19.1 |
| NiLearn | 0.2.6 |
| NiPype | 0.13.1 |
Installation & Quick Start
- Install from command line using pip
pip install PyBASC - Setup PyBASC from command line
cd /path/to/PyBASC python setup.py installSupport
Please use GitHub issues for questions, bug reports or feature requests.
References
This package is based on the following work:
- Garcia-Garcia, M., Nikolaidis, A., Bellec, P., Craddock, R. C., Cheung, B., Castellanos, F. X., & Milham, M. P. (2017). Detecting stable individual differences in the functional organization of the human basal ganglia. NeuroImage.
- Bellec, P., Rosa-Neto, P., Lyttelton, O. C., Benali, H., & Evans, A. C. (2010). Multi-level bootstrap analysis of stable clusters in resting-state fMRI. Neuroimage, 51(3), 1126-1139.
- Bellec, P., Marrelec, G., & Benali, H. (2008). A bootstrap test to investigate changes in brain connectivity for functional MRI. Statistica Sinica, 1253-1268.