├── .github └── workflows │ └── python-publish.yml ├── .gitignore ├── .readthedocs.yaml ├── LICENSE ├── README.md ├── Singularity_elikopy ├── docs ├── LICENSE ├── Makefile ├── conf.py ├── contributing.rst ├── elikopy.rst ├── elikopy_project.rst ├── elikopy_usage.rst ├── examples.rst ├── favicon.png ├── index.rst ├── installation.rst ├── introduction.rst ├── license.rst ├── logo.png ├── make.bat ├── metrics.rst ├── other_utils.rst ├── pictures │ ├── APvsT1.jpg │ ├── T1_pipeline_steps.jpg │ ├── folder_structure.jpg │ ├── pipeline_steps.jpg │ ├── preproc_bet.jpg │ ├── preproc_gibbs.jpg │ ├── preproc_mppca.jpg │ ├── preprocessing.PNG │ ├── provisoire.png │ ├── root.png │ └── root_reverse.png ├── preprocessing_T1.rst ├── preprocessing_dmri.rst └── stats.rst ├── elikopy ├── __init__.py ├── core.py ├── individual_subject_processing.py ├── modelSynb0Disco.py ├── registration.py ├── utils.py └── utilsSynb0Disco.py ├── folder_structure.txt └── pyproject.toml 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