LICENSE
MANIFEST.in
README.rst
requirements.txt
requirements_tests.txt
setup.cfg
setup.py
docs/Makefile
docs/adding_models.rst
docs/advanced_usage.rst
docs/auto_gen_cli_index.rst
docs/changelog.rst
docs/cli_index.rst
docs/concepts.rst
docs/conf.py
docs/configuration.rst
docs/developers.rst
docs/faq.rst
docs/getting_started.rst
docs/index.rst
docs/index_latex.rst
docs/index_man.rst
docs/install.rst
docs/make.bat
docs/mdt.cl_routines.mapping.rst
docs/mdt.cl_routines.rst
docs/mdt.cli_scripts.rst
docs/mdt.component_templates.rst
docs/mdt.file_conversions.rst
docs/mdt.gui.maps_visualizer.config_tabs.rst
docs/mdt.gui.maps_visualizer.design.rst
docs/mdt.gui.maps_visualizer.renderers.rst
docs/mdt.gui.maps_visualizer.rst
docs/mdt.gui.model_fit.design.rst
docs/mdt.gui.model_fit.rst
docs/mdt.gui.model_fit.tabs.rst
docs/mdt.gui.rst
docs/mdt.gui.widgets.design.rst
docs/mdt.gui.widgets.rst
docs/mdt.model_building.parameter_functions.rst
docs/mdt.model_building.rst
docs/mdt.models.parsers.rst
docs/mdt.models.rst
docs/mdt.rst
docs/mdt.visualization.maps.rst
docs/mdt.visualization.rst
docs/modules.rst
docs/readme_latex.rst
docs/readme_man.rst
docs/scientific_articles.rst
docs/_advanced_usage/batch_fitting.rst
docs/_advanced_usage/visualization_gui.rst
docs/_dynamic_modules/batch_profiles.rst
docs/_dynamic_modules/cascade_models.rst
docs/_dynamic_modules/compartment_models.rst
docs/_dynamic_modules/composite_models.rst
docs/_dynamic_modules/library_functions.rst
docs/_dynamic_modules/parameters.rst
docs/_getting_started/example_data.rst
docs/_getting_started/hcp_pipeline.rst
docs/_getting_started/model_building.rst
docs/_getting_started/single_subject_analysis.rst
docs/_getting_started/view_maps_gui.rst
mdt/__init__.py
mdt/__version__.py
mdt/batch_utils.py
mdt/components.py
mdt/configuration.py
mdt/deferred_mappings.py
mdt/exceptions.py
mdt/log_handlers.py
mdt/masking.py
mdt/model_fitting.py
mdt/model_sampling.py
mdt/nifti.py
mdt/post_processing.py
mdt/processing_strategies.py
mdt/protocols.py
mdt/shell_utils.py
mdt/simulations.py
mdt/sorting.py
mdt/user_script_info.py
mdt/utils.py
mdt.egg-info/PKG-INFO
mdt.egg-info/SOURCES.txt
mdt.egg-info/dependency_links.txt
mdt.egg-info/entry_points.txt
mdt.egg-info/not-zip-safe
mdt.egg-info/requires.txt
mdt.egg-info/top_level.txt
mdt/cl_routines/__init__.py
mdt/cl_routines/mapping/__init__.py
mdt/cl_routines/mapping/calculate_model_estimates.py
mdt/cl_routines/mapping/dki_measures.py
mdt/cli_scripts/MDT.py
mdt/cli_scripts/__init__.py
mdt/cli_scripts/mdt_apply_mask.py
mdt/cli_scripts/mdt_batch_fit.py
mdt/cli_scripts/mdt_create_bvec_bval.py
mdt/cli_scripts/mdt_create_mask.py
mdt/cli_scripts/mdt_create_protocol.py
mdt/cli_scripts/mdt_create_roi_slice.py
mdt/cli_scripts/mdt_estimate_noise_std.py
mdt/cli_scripts/mdt_get_example_data.py
mdt/cli_scripts/mdt_gui.py
mdt/cli_scripts/mdt_info_img.py
mdt/cli_scripts/mdt_info_protocol.py
mdt/cli_scripts/mdt_init_user_settings.py
mdt/cli_scripts/mdt_list_devices.py
mdt/cli_scripts/mdt_list_models.py
mdt/cli_scripts/mdt_math_img.py
mdt/cli_scripts/mdt_math_protocol.py
mdt/cli_scripts/mdt_model_fit.py
mdt/cli_scripts/mdt_view_maps.py
mdt/cli_scripts/mdt_volume_merge.py
mdt/component_templates/__init__.py
mdt/component_templates/base.py
mdt/component_templates/batch_profiles.py
mdt/component_templates/cascade_models.py
mdt/component_templates/compartment_models.py
mdt/component_templates/composite_models.py
mdt/component_templates/library_functions.py
mdt/component_templates/parameters.py
mdt/component_templates/utils.py
mdt/data/logo.svg
mdt/data/logo_docs.png
mdt/data/logo_gui.png
mdt/data/mdt.conf
mdt/data/components/standard/batch_profiles/general.py
mdt/data/components/standard/batch_profiles/hcp.py
mdt/data/components/standard/cascade_models/ActiveAx.py
mdt/data/components/standard/cascade_models/BallSticks.py
mdt/data/components/standard/cascade_models/CHARMED.py
mdt/data/components/standard/cascade_models/Kurtosis.py
mdt/data/components/standard/cascade_models/NODDI.py
mdt/data/components/standard/cascade_models/Tensor.py
mdt/data/components/standard/cascade_models/relaxometry.py
mdt/data/components/standard/compartment_models/Ball.py
mdt/data/components/standard/compartment_models/CHARMEDRestricted.py
mdt/data/components/standard/compartment_models/CylinderGPD.py
mdt/data/components/standard/compartment_models/Dot.py
mdt/data/components/standard/compartment_models/KurtosisTensor.py
mdt/data/components/standard/compartment_models/NODDI_EC.py
mdt/data/components/standard/compartment_models/NODDI_IC.py
mdt/data/components/standard/compartment_models/S0.py
mdt/data/components/standard/compartment_models/SSFP.py
mdt/data/components/standard/compartment_models/Stick.py
mdt/data/components/standard/compartment_models/SymmetricNonParametricTensor.py
mdt/data/components/standard/compartment_models/Tensor.py
mdt/data/components/standard/compartment_models/TimeDependentZeppelin.py
mdt/data/components/standard/compartment_models/Weights.py
mdt/data/components/standard/compartment_models/Zeppelin.py
mdt/data/components/standard/compartment_models/relaxometry.py
mdt/data/components/standard/composite_models/ActiveAx.py
mdt/data/components/standard/composite_models/BallSticks.py
mdt/data/components/standard/composite_models/CHARMED.py
mdt/data/components/standard/composite_models/Kurtosis.py
mdt/data/components/standard/composite_models/NODDI.py
mdt/data/components/standard/composite_models/SSFP.py
mdt/data/components/standard/composite_models/Tensor.py
mdt/data/components/standard/composite_models/relaxometry.py
mdt/data/components/standard/composite_models/s0s.py
mdt/data/components/standard/library_functions/KurtosisMultiplication.py
mdt/data/components/standard/library_functions/MRIConstants.py
mdt/data/components/standard/library_functions/SSFP.py
mdt/data/components/standard/library_functions/TensorApparentDiffusion.py
mdt/data/components/standard/library_functions/linear_algebra.py
mdt/data/components/standard/library_functions/physical_diffusion_models.py
mdt/data/components/standard/parameters/free.py
mdt/data/components/standard/parameters/protocol.py
mdt/data/mdt_example_data/b1k_b2k/b1k_b2k.bval
mdt/data/mdt_example_data/b1k_b2k/b1k_b2k.bvec
mdt/data/mdt_example_data/b1k_b2k/b1k_b2k.prtcl
mdt/data/mdt_example_data/b1k_b2k/b1k_b2k_example_slices_24_38.nii.gz
mdt/data/mdt_example_data/b1k_b2k/b1k_b2k_example_slices_24_38_mask.nii.gz
mdt/data/mdt_example_data/multishell_b6k_max/multishell_b6k_max.bval
mdt/data/mdt_example_data/multishell_b6k_max/multishell_b6k_max.bvec
mdt/data/mdt_example_data/multishell_b6k_max/multishell_b6k_max.prtcl
mdt/data/mdt_example_data/multishell_b6k_max/multishell_b6k_max_example_slices_24_38.nii.gz
mdt/data/mdt_example_data/multishell_b6k_max/multishell_b6k_max_example_slices_24_38_mask.nii.gz
mdt/data/qt_designs/Makefile
mdt/data/qt_designs/maps_visualizer/MainWindow.ui
mdt/data/qt_designs/maps_visualizer/Makefile
mdt/data/qt_designs/maps_visualizer/MapSpecificOptions.ui
mdt/data/qt_designs/maps_visualizer/TabGeneral.ui
mdt/data/qt_designs/maps_visualizer/TabMapSpecific.ui
mdt/data/qt_designs/maps_visualizer/TabTextual.ui
mdt/data/qt_designs/maps_visualizer/arrow_redo.png
mdt/data/qt_designs/maps_visualizer/arrow_undo.png
mdt/data/qt_designs/maps_visualizer/main.qrc
mdt/data/qt_designs/maps_visualizer/save_image_dialog.ui
mdt/data/qt_designs/model_fit/Makefile
mdt/data/qt_designs/model_fit/about_dialog.ui
mdt/data/qt_designs/model_fit/dialog_get_example_data.ui
mdt/data/qt_designs/model_fit/fit_model_tab.ui
mdt/data/qt_designs/model_fit/generate_brain_mask_tab.ui
mdt/data/qt_designs/model_fit/generate_protocol_load_gb_dialog.ui
mdt/data/qt_designs/model_fit/generate_protocol_tab.ui
mdt/data/qt_designs/model_fit/generate_protocol_update_dialog.ui
mdt/data/qt_designs/model_fit/generate_roi_mask_tab.ui
mdt/data/qt_designs/model_fit/icon_status_green.png
mdt/data/qt_designs/model_fit/icon_status_red.png
mdt/data/qt_designs/model_fit/main_gui.qrc
mdt/data/qt_designs/