Index A | B | C | D | E | F | G | H | I | J | K | L | M | N | P | Q | R | S | T | U | V | W | X | Y | Z A add_armature() (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) add_debug_trihedra() (coperniFUS.viewer.Window method) add_reference_atlas() (coperniFUS.modules.atlas.BrainAtlas method) add_render() (coperniFUS.modules.armatures.base_armature.Armature method) (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature method) (coperniFUS.modules.armatures.kwave_armatures.KwaveAShomogeneousSimulationArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshBooleanArmature method) (coperniFUS.modules.armatures.mesh_armatures.TrimeshScriptArmature method) add_rendered_object() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) (coperniFUS.modules.atlas.BrainAtlas method) (coperniFUS.modules.img_as_plane.RefImageAsPlane method) (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler method) (coperniFUS.modules.module_base.Module method) (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) (coperniFUS.modules.stl_handler.StlHandlerGUI method) (coperniFUS.modules.tooltip.Tooltip method) add_scale_accurate_debug_trihedra() (coperniFUS.viewer.Window method) add_structure_layer() (coperniFUS.modules.atlas.BrainAtlas method) alpha() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) alpha_corrected (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) alpha_corrected() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) alpha_power() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) anat_landmarks_dict (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib property) AnatLandmarksCalib (class in coperniFUS.modules.anatomical_landmarks_calibration_helper) append_console() (coperniFUS.modules.internal_console.InternalConsoleModule method) apply_calibration_tmat() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) Armature (class in coperniFUS.modules.armatures.base_armature) armature_config_csts (coperniFUS.modules.armatures.base_armature.Armature property) armature_config_dict (coperniFUS.modules.armatures.base_armature.Armature property) armature_tooltip_tmat (coperniFUS.modules.armatures.base_armature.Armature property) armatures_objects (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame property) AsynchronousOnlineAtlasListRetrieval (class in coperniFUS.modules.atlas) atlas_resolution (coperniFUS.modules.atlas.BrainAtlas property) ATLAS_SPACE_CONVENTION (coperniFUS.viewer.Window attribute) atlas_voxel_coordinates (coperniFUS.modules.atlas.BrainAtlas property) AVAILABLE_ARMATURES (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame attribute) available_atlases (coperniFUS.modules.atlas.BrainAtlas property) axisym_domain_mesh (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature property) (coperniFUS.modules.armatures.kwave_armatures.KwaveAShomogeneousSimulationArmature property) axisymmetric_interpolation() (in module coperniFUS.modules.interfaces.kwave_interfaces) B bg_atlas (coperniFUS.modules.atlas.BrainAtlas property) bmask_mesh (coperniFUS.modules.armatures.mesh_armatures.STLMeshBooleanArmature property) brain_atlas_tmat (coperniFUS.modules.atlas.BrainAtlas property) BrainAtlas (class in coperniFUS.modules.atlas) C c() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) cached_settings_files (coperniFUS.viewer.Window property) clear_console() (coperniFUS.modules.internal_console.InternalConsoleModule method) clear_rendered_view() (coperniFUS.viewer.Window method) closeEvent() (coperniFUS.viewer.Window method) compute_boolean_operation() (coperniFUS.modules.armatures.mesh_armatures.STLMeshBooleanArmature method) compute_convex_hull() (coperniFUS.modules.armatures.mesh_armatures.STLMeshConvexHull method) coperniFUS.modules.anatomical_landmarks_calibration_helper module coperniFUS.modules.armatures.base_armature module coperniFUS.modules.armatures.kwave_armatures module coperniFUS.modules.armatures.mesh_armatures module coperniFUS.modules.atlas module coperniFUS.modules.img_as_plane module coperniFUS.modules.interfaces.kwave_interfaces module coperniFUS.modules.interfaces.trimesh_interfaces module coperniFUS.modules.internal_console module coperniFUS.modules.module_base module coperniFUS.modules.stereotaxic_frame module coperniFUS.modules.stl_handler module coperniFUS.modules.tooltip module coperniFUS.viewer module coperniFUSviewer() (in module coperniFUS.viewer) cpp_engine (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) cpp_io_files_dir_path (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) custom_armature_param_widgets() (coperniFUS.modules.armatures.base_armature.Armature method) (coperniFUS.modules.armatures.kwave_armatures.KWave3dSimulationArmature method) (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature method) (coperniFUS.modules.armatures.kwave_armatures.KwaveAShomogeneousSimulationArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshBooleanArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshConvexHull method) (coperniFUS.modules.armatures.mesh_armatures.TrimeshScriptArmature method) D DEFAULT_SIM_PARAMS (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D attribute) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim attribute) delete_armature() (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) delete_debug_trihedras() (coperniFUS.viewer.Window method) delete_render() (coperniFUS.modules.armatures.base_armature.Armature method) (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature method) (coperniFUS.modules.armatures.kwave_armatures.KwaveAShomogeneousSimulationArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshBooleanArmature method) (coperniFUS.modules.armatures.mesh_armatures.TrimeshScriptArmature method) delete_rendered_object() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) (coperniFUS.modules.atlas.BrainAtlas method) (coperniFUS.modules.img_as_plane.RefImageAsPlane method) (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler method) (coperniFUS.modules.module_base.Module method) (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) (coperniFUS.modules.stl_handler.StlHandlerGUI method) (coperniFUS.modules.tooltip.Tooltip method) disable_calibration_tmat() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) dt (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) dx (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) E EmittingStream (class in coperniFUS.modules.internal_console) end_transform_mat (coperniFUS.modules.armatures.base_armature.Armature property) eval_scripted_mesh() (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshScriptHandler method) event() (coperniFUS.viewer.Window method) F finished (coperniFUS.modules.atlas.AsynchronousOnlineAtlasListRetrieval attribute) flush() (coperniFUS.modules.internal_console.EmittingStream method) FONT_SIZE (coperniFUS.modules.internal_console.InternalConsoleModule attribute) G get_armature_tree_as_dict() (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) get_armature_user_param() (coperniFUS.modules.armatures.base_armature.Armature method) get_joint_transforms() (coperniFUS.modules.armatures.base_armature.Armature method) get_joints() (coperniFUS.modules.armatures.base_armature.Armature method) get_kwave_cpp_cmd() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim method) get_module_object_from_name() (coperniFUS.viewer.Window method) get_tmat_from_anat_landmarks() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) get_user_param() (coperniFUS.modules.atlas.BrainAtlas method) (coperniFUS.modules.img_as_plane.RefImageAsPlane method) (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler method) (coperniFUS.modules.module_base.Module method) glline_width (coperniFUS.modules.armatures.base_armature.Armature property) H hide_show_module_dock() (coperniFUS.viewer.Window method) I import_image() (coperniFUS.modules.img_as_plane.RefImageAsPlane method) init_dock() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) (coperniFUS.modules.atlas.BrainAtlas method) (coperniFUS.modules.img_as_plane.RefImageAsPlane method) (coperniFUS.modules.internal_console.InternalConsoleModule method) (coperniFUS.modules.module_base.Module method) (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) (coperniFUS.modules.stl_handler.StlHandlerGUI method) init_rendered_view() (coperniFUS.viewer.Window method) InternalConsoleModule (class in coperniFUS.modules.internal_console) J jsonable_layers_dict (coperniFUS.modules.atlas.BrainAtlas property) K kgrid (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) kgrid_coords (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) Kwave3D (class in coperniFUS.modules.interfaces.kwave_interfaces) KWave3dSimulationArmature (class in coperniFUS.modules.armatures.kwave_armatures) KWAVE_CPP_CMD_TYPE (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D attribute) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim attribute) KWaveAS3dSimulationArmature (class in coperniFUS.modules.armatures.kwave_armatures) KwaveAShomogeneousSimulationArmature (class in coperniFUS.modules.armatures.kwave_armatures) KwaveHomogeneousAxisymetricBowlSim (class in coperniFUS.modules.interfaces.kwave_interfaces) L landmark_coords_from_full_name (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib property) landmarks_calib_tmat (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib property) layers (coperniFUS.modules.atlas.BrainAtlas property) load_example_configuration() (coperniFUS.viewer.Window method) M medium (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) module coperniFUS.modules.anatomical_landmarks_calibration_helper coperniFUS.modules.armatures.base_armature coperniFUS.modules.armatures.kwave_armatures coperniFUS.modules.armatures.mesh_armatures coperniFUS.modules.atlas coperniFUS.modules.img_as_plane coperniFUS.modules.interfaces.kwave_interfaces coperniFUS.modules.interfaces.trimesh_interfaces coperniFUS.modules.internal_console coperniFUS.modules.module_base coperniFUS.modules.stereotaxic_frame coperniFUS.modules.stl_handler coperniFUS.modules.tooltip coperniFUS.viewer Module (class in coperniFUS.modules.module_base) module_id (coperniFUS.modules.module_base.Module property) N ndimage_plane_slicing_application_mask (coperniFUS.modules.atlas.BrainAtlas property) Nt (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) Nx (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) Ny (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) Nz (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) P p_amp_xyz (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) p_amp_zr (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) pamp_phase_freq_xyz (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) pamp_phase_freq_zr (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) parse_editor() (coperniFUS.modules.stl_handler.StlHandlerGUI method) ppp (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) Q qtree_selected_armature (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame property) qtree_selected_armature_object (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame property) R raw_rgba_ndimage_compound (coperniFUS.modules.atlas.BrainAtlas property) raw_stl_item_mesh (coperniFUS.modules.interfaces.trimesh_interfaces.StlHandler property) (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler property) (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshScriptHandler property) ref_image_tmat (coperniFUS.modules.img_as_plane.RefImageAsPlane property) RefImageAsPlane (class in coperniFUS.modules.img_as_plane) release_from_modules() (coperniFUS.modules.tooltip.Tooltip method) release_tooltip() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) (coperniFUS.modules.atlas.BrainAtlas method) (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) remove_altas_layer() (coperniFUS.modules.atlas.BrainAtlas method) remove_reference_atlas() (coperniFUS.modules.atlas.BrainAtlas method) render_voxelized_mesh_debug_preview() (coperniFUS.modules.armatures.kwave_armatures.KWave3dSimulationArmature method) (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature method) reset_highlighted_armatures() (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) rgba_color (coperniFUS.modules.armatures.base_armature.Armature property) rgba_ndimage_compound (coperniFUS.modules.atlas.BrainAtlas property) rho() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) run() (coperniFUS.modules.atlas.AsynchronousOnlineAtlasListRetrieval method) run_3D_simulation() (coperniFUS.modules.armatures.kwave_armatures.KWave3dSimulationArmature method) run_AS3D_simulation() (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature method) run_AS_simulation() (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature method) (coperniFUS.modules.armatures.kwave_armatures.KwaveAShomogeneousSimulationArmature method) run_simulation() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim method) S sensor (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) set_armature_user_param() (coperniFUS.modules.armatures.base_armature.Armature method) set_landmark_coordinates_from_tooltip() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) set_simulation_param() (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D method) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim method) set_user_param() (coperniFUS.modules.atlas.BrainAtlas method) (coperniFUS.modules.img_as_plane.RefImageAsPlane method) (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler method) (coperniFUS.modules.module_base.Module method) show_anat_calib_debug_trihedras() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) show_error_popup() (coperniFUS.viewer.Window method) simulation_params (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) slicing_plane_3pts (coperniFUS.viewer.Window property) slicing_plane_def (coperniFUS.viewer.Window property) slicing_plane_normal_vect (coperniFUS.viewer.Window property) source (coperniFUS.modules.interfaces.kwave_interfaces.Kwave3D property) (coperniFUS.modules.interfaces.kwave_interfaces.KwaveHomogeneousAxisymetricBowlSim property) StereotaxicFrame (class in coperniFUS.modules.stereotaxic_frame) stl_item_mesh (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler property) stl_item_mesh_processed (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler property) stl_item_tmat (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler property) (coperniFUS.modules.stl_handler.StlHandlerGUI property) StlHandler (class in coperniFUS.modules.interfaces.trimesh_interfaces) StlHandlerGUI (class in coperniFUS.modules.stl_handler) STLMeshArmature (class in coperniFUS.modules.armatures.mesh_armatures) STLMeshBooleanArmature (class in coperniFUS.modules.armatures.mesh_armatures) STLMeshConvexHull (class in coperniFUS.modules.armatures.mesh_armatures) switch_cached_settings_file() (coperniFUS.viewer.Window method) T Tooltip (class in coperniFUS.modules.tooltip) tooltip_coordinates (coperniFUS.modules.tooltip.Tooltip property) tooltip_tmat (coperniFUS.modules.tooltip.Tooltip property) trimesh_script (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshScriptHandler property) trimesh_script_constants_dict (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshScriptHandler property) TrimeshHandler (class in coperniFUS.modules.interfaces.trimesh_interfaces) TrimeshScriptArmature (class in coperniFUS.modules.armatures.mesh_armatures) TrimeshScriptHandler (class in coperniFUS.modules.interfaces.trimesh_interfaces) U uneval_armature_config_dict (coperniFUS.modules.armatures.base_armature.Armature property) update_armature_inheritance() (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) update_render() (coperniFUS.modules.armatures.base_armature.Armature method) (coperniFUS.modules.armatures.kwave_armatures.KWaveAS3dSimulationArmature method) (coperniFUS.modules.armatures.kwave_armatures.KwaveAShomogeneousSimulationArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshArmature method) (coperniFUS.modules.armatures.mesh_armatures.STLMeshBooleanArmature method) (coperniFUS.modules.armatures.mesh_armatures.TrimeshScriptArmature method) update_rendered_object() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) (coperniFUS.modules.atlas.BrainAtlas method) (coperniFUS.modules.img_as_plane.RefImageAsPlane method) (coperniFUS.modules.interfaces.trimesh_interfaces.TrimeshHandler method) (coperniFUS.modules.module_base.Module method) (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) (coperniFUS.modules.tooltip.Tooltip method) update_rendered_view() (coperniFUS.viewer.Window method) update_theme() (coperniFUS.viewer.Window method) update_tooltip_on_armature() (coperniFUS.modules.stereotaxic_frame.StereotaxicFrame method) update_tooltip_to_landmark() (coperniFUS.modules.anatomical_landmarks_calibration_helper.AnatLandmarksCalib method) update_tooltip_to_layer_centroid() (coperniFUS.modules.atlas.BrainAtlas method) V visible (coperniFUS.modules.armatures.base_armature.Armature property) W Window (class in coperniFUS.viewer) write() (coperniFUS.modules.internal_console.EmittingStream method) X x_RED (coperniFUS.viewer.Window attribute) Y y_GREEN (coperniFUS.viewer.Window attribute) Z z_BLUE (coperniFUS.viewer.Window attribute)