.gitignore
CHANGELOG.md
Dockerfile_CPU
Dockerfile_GPU
LICENSE
Readme.md
setup.py
tests.sh
.github/workflows/run_tests.yml
TractSeg.egg-info/PKG-INFO
TractSeg.egg-info/SOURCES.txt
TractSeg.egg-info/dependency_links.txt
TractSeg.egg-info/not-zip-safe
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resources/Tractometry_results_example_3D.png
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tests/reference_files/endings_segmentations/ST_PAR_left_b.nii.gz
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tests/reference_files/endings_segmentations/ST_PAR_right_b.nii.gz
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tests/reference_files/endings_segmentations/ST_POSTC_left_b.nii.gz
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tests/reference_files/endings_segmentations/ST_PREC_right_b.nii.gz
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tests/reference_files/endings_segmentations/ST_PREF_left_b.nii.gz
tests/reference_files/endings_segmentations/ST_PREF_left_e.nii.gz
tests/reference_files/endings_segmentations/ST_PREF_right_b.nii.gz
tests/reference_files/endings_segmentations/ST_PREF_right_e.nii.gz
tests/reference_files/endings_segmentations/ST_PREM_left_b.nii.gz
tests/reference_files/endings_segmentations/ST_PREM_left_e.nii.gz
tests/reference_files/endings_segmentations/ST_PREM_right_b.nii.gz
tests/reference_files/endings_segmentations/ST_PREM_right_e.nii.gz
tests/reference_files/endings_segmentations/T_OCC_left_b.nii.gz
tests/reference_files/endings_segmentations/T_OCC_left_e.nii.gz
tests/reference_files/endings_segmentations/T_OCC_right_b.nii.gz
tests/reference_files/endings_segmentations/T_OCC_right_e.nii.gz
tests/reference_files/endings_segmentations/T_PAR_left_b.nii.gz
tests/reference_files/endings_segmentations/T_PAR_left_e.nii.gz
tests/reference_files/endings_segmentations/T_PAR_right_b.nii.gz
tests/reference_files/endings_segmentations/T_PAR_right_e.nii.gz
tests/reference_files/endings_segmentations/T_POSTC_left_b.nii.gz
tests/reference_files/endings_segmentations/T_POSTC_left_e.nii.gz
tests/reference_files/endings_segmentations/T_POSTC_right_b.nii.gz
tests/reference_files/endings_segmentations/T_POSTC_right_e.nii.gz
tests/reference_files/endings_segmentations/T_PREC_left_b.nii.gz
tests/reference_files/endings_segmentations/T_PREC_left_e.nii.gz
tests/reference_files/endings_segmentations/T_PREC_right_b.nii.gz
tests/reference_files/endings_segmentations/T_PREC_right_e.nii.gz
tests/reference_files/endings_segmentations/T_PREF_left_b.nii.gz
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tests/reference_files/endings_segmentations/T_PREF_right_b.nii.gz
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tests/reference_files/endings_segmentations/T_PREM_left_b.nii.gz
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tests/reference_files/endings_segmentations/T_PREM_right_b.nii.gz
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tests/reference_files/endings_segmentations/UF_left_b.nii.gz
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tests/reference_files/endings_segmentations/UF_right_b.nii.gz
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tests/reference_files/tractometry/Tractometry_h1.csv
tests/reference_files/tractometry/Tractometry_h2.csv
tests/reference_files/tractometry/Tractometry_h3.csv
tests/reference_files/tractometry/Tractometry_s1.csv
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tests/reference_files/tractometry/Tractometry_s3.csv
tests/reference_files/tractometry/tractometry_result_correlation.png.csv
tests/reference_files/tractometry/tractometry_result_group.png.csv
tractseg/__init__.py
tractseg/python_api.py
tractseg/data/DLDABG_standalone.py
tractseg/data/__init__.py
tractseg/data/check_data.py
tractseg/data/custom_transformations.py
tractseg/data/data_loader_inference.py
tractseg/data/data_loader_precomputed.py
tractseg/data/data_loader_training.py
tractseg/data/data_loader_training_3D.py
tractseg/data/dataset_specific_utils.py
tractseg/data/preprocessing.py
tractseg/data/spatial_transform_custom.py
tractseg/data/spatial_transform_peaks.py
tractseg/data/subjects.py
tractseg/experiments/__init__.py
tractseg/experiments/base.py
tractseg/experiments/dm_reg.py
tractseg/experiments/dm_reg_lowres.py
tractseg/experiments/endings_seg.py
tractseg/experiments/endings_seg_lowres.py
tractseg/experiments/peak_reg.py
tractseg/experiments/peak_reg_angle.py
tractseg/experiments/peak_reg_lowres.py
tractseg/experiments/run_multiple.sh
tractseg/experiments/tract_seg.py
tractseg/experiments/tract_seg_lowres.py
tractseg/experiments/backup/TractSeg_BX.py
tractseg/experiments/backup/TractSeg_HR_DAug_Fast_TEST.py
tractseg/experiments/base_legacy/__init__.py
tractseg/experiments/base_legacy/dm_reg_legacy.py
tractseg/experiments/base_legacy/dm_reg_lowres_legacy.py
tractseg/experiments/base_legacy/endings_seg_legacy.py
tractseg/experiments/base_legacy/endings_seg_lowres_legacy.py
tractseg/experiments/base_legacy/peak_reg_legacy.py
tractseg/experiments/base_legacy/peak_reg_lowres_legacy.py
tractseg/experiments/base_legacy/tract_seg_legacy.py
tractseg/experiments/base_legacy/tract_seg_lowres_legacy.py
tractseg/experiments/custom/my_custom_experiment.py
tractseg/experiments/pretrained_models/DmReg.py
tractseg/experiments/pretrained_models/DmReg_All_BXTensAg_aPTX_platLR20_noMiss.py
tractseg/experiments/pretrained_models/DmReg_All_xtract_PeakRot4.py
tractseg/experiments/pretrained_models/EndingsSeg_PeakRot4.py
tractseg/experiments/pretrained_models/Peaks_AngL.py
tractseg/experiments/pretrained_models/TractSeg72_888.py
tractseg/experiments/pretrained_models/TractSeg_All_BXTensAg_aPTX_platLR20.py
tractseg/experiments/pretrained_models/TractSeg_All_xtract_PeakRot4.py
tractseg/experiments/pretrained_models/TractSeg_BXTensAg.py
tractseg/experiments/pretrained_models/TractSeg_HR_3D_DAug.py
tractseg/experiments/pretrained_models/TractSeg_PeakRot4.py
tractseg/experiments/pretrained_models/TractSeg_T1_125mm_DAugAll.py
tractseg/experiments/pretrained_models/TractSeg_T1_12g90g270g_125mm_DAugAll.py
tractseg/experiments/pretrained_models/__init__.py
tractseg/experiments/pretrained_models/old_1/EndingsSeg_12g90g270g_125mm_DAugAll.py
tractseg/experiments/pretrained_models/old_1/Peaks20_12g90g270g_125mm.py
tractseg/experiments/pretrained_models/old_1/Peaks20_12g90g270g_125mm_DS_DAugAll.py
tractseg/experiments/pretrained_models/old_1/Peaks20_270g_125mm.py
tractseg/experiments/pretrained_models/old_1/Peaks_12g90g270g_125mm_DS_DAugAll.py
tractseg/experiments/pretrained_models/old_1/TractSeg_12g90g270g_125mm_DAugAll_Dropout.py
tractseg/experiments/pretrained_models/old_1/__init__.py
tractseg/experiments/pretrained_models/old_2/DmReg_12g90g270g_125mm_DAugAll.py
tractseg/experiments/pretrained_models/old_2/EndingsSeg_12g90g270g_125mm_DS_DAugAll.py
tractseg/experiments/pretrained_models/old_2/TractSeg_12g90g270g_125mm_DS_DAugAll.py
tractseg/experiments/pretrained_models/old_2/TractSeg_12g90g270g_125mm_DS_DAugAll_Dropout.py
tractseg/experiments/pretrained_models/old_2/__init__.py
tractseg/libs/AFQ_MultiCompCorrection.py
tractseg/libs/__init__.py
tractseg/libs/create_endpoints_mask_with_clustering.py
tractseg/libs/data_utils.py
tractseg/libs/direction_merger.py
tractseg/libs/exp_utils.py
tractseg/libs/fiber_utils.py
tractseg/libs/img_utils.py
tractseg/libs/metric_utils.py
tractseg/libs/peak_utils.py
tractseg/libs/plot_utils.py
tractseg/libs/preprocessing.py
tractseg/libs/pytorch_einsum.py
tractseg/libs/pytorch_utils.py
tractseg/libs/system_config.py
tractseg/libs/tracking.py
tractseg/libs/tractometry.py
tractseg/libs/tractseg_prob_tracking.py
tractseg/libs/trainer.py
tractseg/libs/utils.py
tractseg/libs/vtk_utils.py
tractseg/models/__init__.py
tractseg/models/base_model.py
tractseg/models/unet3d_pytorch_deepsup_sm.py
tractseg/models/unet_pytorch.py
tractseg/models/unet_pytorch_deepsup.py
tractseg/models/unet_pytorch_deepsup_test.py
tractseg/resources/MNI_FA_template.nii.gz
tractseg/resources/__init__.py
tractseg/resources/random_forest_peak_orientation_detection.pkl