├── .gitignore ├── Dockerfile ├── README.md ├── assets ├── raw_examples │ ├── brain-lesion_T1w.nii.gz │ ├── brain-lesion_T1w_mask.nii.gz │ ├── fsl-open-dev_sub-001_T1w.nii.gz │ ├── listen-task_sub-UTS01_ses-1_T1w.nii.gz │ └── wash-120_sub-001_T1w.nii.gz └── templates │ ├── mni_icbm152_t1_tal_nlin_sym_09a.nii │ └── mni_icbm152_t1_tal_nlin_sym_09a_mask.nii ├── docker-compose.yml ├── notebooks ├── 00_libs_review.ipynb ├── 01_img_orientation.ipynb ├── 02_common_operations.ipynb ├── 03_bias_field_correction.ipynb ├── 04_templates_and_masks.ipynb ├── 05_intensity_normalization.ipynb ├── 06_registration.ipynb ├── 07_registration_and_masks.ipynb ├── 08_brain_extraction_with_antspynet.ipynb ├── 09_brain_extraction_with_template.ipynb └── helpers.py └── requirements.txt /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Angeluz-07/MRI-preprocessing-techniques/HEAD/.gitignore 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