├── .gitignore ├── CITATION.CFF ├── LICENSE ├── README.md ├── Singularity ├── _version.py ├── doc ├── flowchart.png ├── meanFAstat_ebarplot.png └── pnl-bwh-hms.png ├── environment.yml ├── lib ├── __init__.py ├── antsMultivariateTemplateConstruction2_fixed_random_seed.sh ├── buildTemplate.py ├── bvalMap.py ├── config.ini ├── debug_fa.py ├── denoising.py ├── determineNshm.py ├── dti.py ├── fileUtil.py ├── findBshells.py ├── harm_plot.py ├── harmonization.py ├── local_med_filter.py ├── normalize.py ├── preprocess.py ├── reconstSignal.py ├── resampling.py ├── rish.py ├── spm_bspline_exec │ ├── bspline │ ├── bspline.m │ ├── readme.txt │ └── run_bspline.sh ├── tests │ ├── __init__.py │ ├── compute_volumwise_diff.py │ ├── compute_volumwise_diff.py.example │ ├── download_data.py │ ├── fa_skeleton_test.py │ ├── pipeline_test.sh │ ├── rish_diff_map.py │ ├── test_bvalMap.py │ ├── test_denoise.py │ ├── test_dti.py │ ├── test_resample.py │ ├── test_rish.py │ └── test_util.py └── util.py └── 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