platipy.imaging package

Subpackages

• platipy.imaging.generation package
  • Submodules
  • platipy.imaging.generation.augment module
    • ContractAugment
      • ContractAugment.augment()
    • DeformableAugment
      • DeformableAugment.augment()
    • ExpandAugment
      • ExpandAugment.augment()
    • ShiftAugment
      • ShiftAugment.augment()
    • apply_augmentation()
    • generate_random_augmentation()
  • platipy.imaging.generation.dvf module
    • generate_field_asymmetric_contract()
    • generate_field_asymmetric_extend()
    • generate_field_expand()
    • generate_field_radial_bend()
    • generate_field_shift()
  • platipy.imaging.generation.image module
    • insert_cylinder()
    • insert_cylinder_image()
    • insert_sphere()
    • insert_sphere_image()
  • platipy.imaging.generation.mask module
    • extend_mask()
    • get_bone_mask()
    • get_external_mask()
  • Module contents
• platipy.imaging.label package
  • Submodules
  • platipy.imaging.label.comparison module
    • compute_apl()
    • compute_metric_dsc()
    • compute_metric_hd()
    • compute_metric_masd()
    • compute_metric_mean_apl()
    • compute_metric_sensitivity()
    • compute_metric_specificity()
    • compute_metric_total_apl()
    • compute_surface_dsc()
    • compute_surface_metrics()
    • compute_volume()
    • compute_volume_metrics()
  • platipy.imaging.label.fusion module
    • combine_labels()
    • combine_labels_staple()
    • compute_weight_map()
    • mutual_information()
    • process_probability_image()
  • platipy.imaging.label.iar module
    • gaussian_curve()
    • median_absolute_deviation()
    • run_iar()
  • platipy.imaging.label.projection module
    • evaluate_distance_on_surface()
    • evaluate_distance_to_reference()
    • regrid_spherical_data()
  • platipy.imaging.label.utils module
    • binary_decode_image()
    • binary_encode_structure_list()
    • correct_volume_overlap()
    • generate_primes()
    • get_com()
    • prime_decode_image()
    • prime_encode_structure_list()
    • vectorised_transform_index_to_physical_point()
    • vectorised_transform_physical_point_to_index()
  • Module contents
• platipy.imaging.projects package
  • Subpackages
    • platipy.imaging.projects.bronchus package
      • Submodules
      • platipy.imaging.projects.bronchus.bronchus module
      • platipy.imaging.projects.bronchus.run module
      • platipy.imaging.projects.bronchus.service module
      • Module contents
    • platipy.imaging.projects.cardiac package
      • Submodules
      • platipy.imaging.projects.cardiac.run module
      • platipy.imaging.projects.cardiac.service module
      • Module contents
  • Module contents
• platipy.imaging.registration package
  • Submodules
  • platipy.imaging.registration.deformable module
    • bspline_registration()
    • fast_symmetric_forces_demons_registration()
    • multiscale_demons()
  • platipy.imaging.registration.linear module
    • alignment_registration()
    • linear_registration()
  • platipy.imaging.registration.utils module
    • apply_deformable_transform()
    • apply_linear_transform()
    • apply_transform()
    • control_point_spacing_distance_to_number()
    • convert_mask_to_distance_map()
    • convert_mask_to_reg_structure()
    • deformable_registration_command_iteration()
    • registration_command_iteration()
    • smooth_and_resample()
    • stage_iteration()
  • Module contents
• platipy.imaging.tests package
  • Submodules
  • platipy.imaging.tests.data module
    • get_hn_nifti()
    • get_lung_dicom()
    • get_lung_nifti()
  • platipy.imaging.tests.test_bronchus module
    • assert_bronchus_mask()
    • assert_lung_mask()
    • bronchus_data()
    • test_bronchus_segmentation()
    • test_lung_segmentation()
  • platipy.imaging.tests.test_cardiac module
    • cardiac_data()
    • test_cardiac_service()
    • test_cardiac_structure_guided_service()
  • platipy.imaging.tests.test_visualiser module
    • nifti_data()
    • test_comparison_overlay_visualisation()
    • test_contour_visualisation()
    • test_scalar_overlay_visualisation()
  • Module contents
• platipy.imaging.utils package
  • Submodules
  • platipy.imaging.utils.crop module
    • crop_to_label_extent()
    • crop_to_roi()
    • label_to_roi()
  • platipy.imaging.utils.lung module
    • detect_holes()
    • fill_holes()
    • get_external_mask()
    • get_lung_mask()
  • platipy.imaging.utils.valve module
    • generate_valve_from_great_vessel()
    • generate_valve_using_cylinder()
  • platipy.imaging.utils.vessel module
    • com_from_image_list()
    • convert_simpleitk_to_vtk()
    • simpleitk_image_from_vtk_tube()
    • tube_from_com_list()
    • vessel_spline_generation()
    • write_vtk_tube_to_file()
  • Module contents
• platipy.imaging.visualisation package
  • Submodules
  • platipy.imaging.visualisation.animation module
  • platipy.imaging.visualisation.utils module
    • VisualiseBoundingBox
    • VisualiseComparisonOverlay
    • VisualiseContour
    • VisualiseImage
    • VisualiseScalarOverlay
    • VisualiseVectorOverlay
    • generate_comparison_colormix()
    • project_onto_arbitrary_plane()
    • reorientate_vector_field()
    • return_slice()
    • subsample_vector_field()
    • vector_image_grid()
  • platipy.imaging.visualisation.visualiser module
    • ImageVisualiser
      • ImageVisualiser.add_bounding_box()
      • ImageVisualiser.add_comparison_overlay()
      • ImageVisualiser.add_contour()
      • ImageVisualiser.add_scalar_overlay()
      • ImageVisualiser.add_vector_overlay()
      • ImageVisualiser.clear()
      • ImageVisualiser.draw_bounding_box_on_axes()
      • ImageVisualiser.image
      • ImageVisualiser.labelmap
      • ImageVisualiser.set_limits_from_label()
      • ImageVisualiser.show()
    • logger
  • Module contents

Module contents