Skip to main content
Back to top
Ctrl
+
K
Home
Installation
Usage
AUTHORS
API References
Search
Ctrl
+
K
GitHub
Search
Ctrl
+
K
Home
Installation
Usage
AUTHORS
API References
GitHub
Section Navigation
openalea.phenomenal
openalea.phenomenal.calibration
openalea.phenomenal.calibration.chessboard
openalea.phenomenal.calibration.calibration
openalea.phenomenal.calibration.calibration_manual
openalea.phenomenal.calibration.calibration_opencv
openalea.phenomenal.calibration.frame
openalea.phenomenal.calibration.transformations
openalea.phenomenal.calibration.calibration
openalea.phenomenal.calibration.calibration.angle3
openalea.phenomenal.calibration.calibration.find_frame
openalea.phenomenal.calibration.calibration.find_position_3d_points
openalea.phenomenal.calibration.calibration.find_position_3d_points_soil
openalea.phenomenal.calibration.calibration.normalise_angle
openalea.phenomenal.calibration.calibration.CalibrationSetup
openalea.phenomenal.calibration.calibration.CalibrationSolver
openalea.phenomenal.calibration.calibration.Calibrator
openalea.phenomenal.calibration.calibration_manual
openalea.phenomenal.calibration.calibration_manual.CalibrationCameraManual
openalea.phenomenal.calibration.calibration_manual.EnvironmentCamera
openalea.phenomenal.calibration.calibration_opencv
openalea.phenomenal.calibration.calibration_opencv.CalibrationCameraOpenCv
openalea.phenomenal.calibration.chessboard
openalea.phenomenal.calibration.chessboard.compass_position
openalea.phenomenal.calibration.chessboard.detect_checkerboards
openalea.phenomenal.calibration.chessboard.Chessboard
openalea.phenomenal.calibration.chessboard.Chessboards
openalea.phenomenal.calibration.chessboard.Target
openalea.phenomenal.calibration.chessboard.TargetFinder
openalea.phenomenal.calibration.frame
openalea.phenomenal.calibration.frame.change_frame_tensor2
openalea.phenomenal.calibration.frame.local_to_global3d
openalea.phenomenal.calibration.frame.mean_frame
openalea.phenomenal.calibration.frame.tetrahedron_frame
openalea.phenomenal.calibration.frame.triangle_frame
openalea.phenomenal.calibration.frame.Frame
openalea.phenomenal.calibration.object
openalea.phenomenal.calibration.object.normalise_angle
openalea.phenomenal.calibration.object.Calibration
openalea.phenomenal.calibration.object.CalibrationCamera
openalea.phenomenal.calibration.object.CalibrationFrame
openalea.phenomenal.calibration.object.OldCalibration
openalea.phenomenal.calibration.object.OldCalibrationCamera
openalea.phenomenal.calibration.transformations
openalea.phenomenal.calibration.transformations.affine_matrix_from_points
openalea.phenomenal.calibration.transformations.angle_between_vectors
openalea.phenomenal.calibration.transformations.arcball_constrain_to_axis
openalea.phenomenal.calibration.transformations.arcball_map_to_sphere
openalea.phenomenal.calibration.transformations.arcball_nearest_axis
openalea.phenomenal.calibration.transformations.clip_matrix
openalea.phenomenal.calibration.transformations.compose_matrix
openalea.phenomenal.calibration.transformations.concatenate_matrices
openalea.phenomenal.calibration.transformations.decompose_matrix
openalea.phenomenal.calibration.transformations.euler_from_matrix
openalea.phenomenal.calibration.transformations.euler_from_quaternion
openalea.phenomenal.calibration.transformations.euler_matrix
openalea.phenomenal.calibration.transformations.identity_matrix
openalea.phenomenal.calibration.transformations.inverse_matrix
openalea.phenomenal.calibration.transformations.is_same_transform
openalea.phenomenal.calibration.transformations.orthogonalization_matrix
openalea.phenomenal.calibration.transformations.projection_from_matrix
openalea.phenomenal.calibration.transformations.projection_matrix
openalea.phenomenal.calibration.transformations.quaternion_about_axis
openalea.phenomenal.calibration.transformations.quaternion_conjugate
openalea.phenomenal.calibration.transformations.quaternion_from_euler
openalea.phenomenal.calibration.transformations.quaternion_from_matrix
openalea.phenomenal.calibration.transformations.quaternion_imag
openalea.phenomenal.calibration.transformations.quaternion_inverse
openalea.phenomenal.calibration.transformations.quaternion_matrix
openalea.phenomenal.calibration.transformations.quaternion_multiply
openalea.phenomenal.calibration.transformations.quaternion_real
openalea.phenomenal.calibration.transformations.quaternion_slerp
openalea.phenomenal.calibration.transformations.random_quaternion
openalea.phenomenal.calibration.transformations.random_rotation_matrix
openalea.phenomenal.calibration.transformations.random_vector
openalea.phenomenal.calibration.transformations.reflection_from_matrix
openalea.phenomenal.calibration.transformations.reflection_matrix
openalea.phenomenal.calibration.transformations.rotation_from_matrix
openalea.phenomenal.calibration.transformations.rotation_matrix
openalea.phenomenal.calibration.transformations.scale_from_matrix
openalea.phenomenal.calibration.transformations.scale_matrix
openalea.phenomenal.calibration.transformations.shear_from_matrix
openalea.phenomenal.calibration.transformations.shear_matrix
openalea.phenomenal.calibration.transformations.superimposition_matrix
openalea.phenomenal.calibration.transformations.translation_from_matrix
openalea.phenomenal.calibration.transformations.translation_matrix
openalea.phenomenal.calibration.transformations.unit_vector
openalea.phenomenal.calibration.transformations.vector_norm
openalea.phenomenal.calibration.transformations.vector_product
openalea.phenomenal.calibration.transformations.Arcball
openalea.phenomenal.clean_build_artefacts
openalea.phenomenal.clean_build_artefacts.clean_project_tree
openalea.phenomenal.data
openalea.phenomenal.data.data
openalea.phenomenal.data.synthetic_data
openalea.phenomenal.data.data
openalea.phenomenal.data.data.bin_images
openalea.phenomenal.data.data.calibrations
openalea.phenomenal.data.data.chessboard_images
openalea.phenomenal.data.data.chessboards
openalea.phenomenal.data.data.do_calibration
openalea.phenomenal.data.data.image_points
openalea.phenomenal.data.data.mesh_mccormik_plant
openalea.phenomenal.data.data.new_calibrations
openalea.phenomenal.data.data.path_bin_images
openalea.phenomenal.data.data.path_chessboard_images
openalea.phenomenal.data.data.path_raw_images
openalea.phenomenal.data.data.raw_images
openalea.phenomenal.data.data.synthetic_plant
openalea.phenomenal.data.data.tutorial_data_binarization_mask
openalea.phenomenal.data.data.voxel_grid
openalea.phenomenal.data.synthetic_data
openalea.phenomenal.data.synthetic_data.bin_images_with_circle
openalea.phenomenal.data.synthetic_data.build_cube
openalea.phenomenal.data.synthetic_data.random_voxel_grid
openalea.phenomenal.display
openalea.phenomenal.display.image
openalea.phenomenal.display.calibration
openalea.phenomenal.display.scene
openalea.phenomenal.display.show_basic
openalea.phenomenal.display.show_segmentation
openalea.phenomenal.display.show_skeleton
openalea.phenomenal.display.calibration
openalea.phenomenal.display.calibration.show_chessboard_3d_projection_on_image
openalea.phenomenal.display.calibration.show_image_with_chessboard_corners
openalea.phenomenal.display.display
openalea.phenomenal.display.display.Display
openalea.phenomenal.display.image
openalea.phenomenal.display.image.show_image
openalea.phenomenal.display.image.show_images
openalea.phenomenal.display.notebook
openalea.phenomenal.display.notebook.plot_voxel
openalea.phenomenal.display.notebook.show_mesh
openalea.phenomenal.display.notebook.show_point_cloud
openalea.phenomenal.display.notebook.show_segmentation
openalea.phenomenal.display.notebook.show_skeleton
openalea.phenomenal.display.notebook.show_synthetic_plant
openalea.phenomenal.display.notebook.show_voxel_grid
openalea.phenomenal.display.peak
openalea.phenomenal.display.peak.show_values
openalea.phenomenal.display.scene
openalea.phenomenal.display.scene.Scene
openalea.phenomenal.display.show_basic
openalea.phenomenal.display.show_basic.record_voxel_grids
openalea.phenomenal.display.show_basic.show_mesh
openalea.phenomenal.display.show_basic.show_voxel_grid
openalea.phenomenal.display.show_basic.show_vtk_poly_data
openalea.phenomenal.display.show_segmentation
openalea.phenomenal.display.show_skeleton
openalea.phenomenal.image
openalea.phenomenal.image.threshold
openalea.phenomenal.image.skeletonize
openalea.phenomenal.image.morphology
openalea.phenomenal.image.io
openalea.phenomenal.image.io
openalea.phenomenal.image.io.read_image
openalea.phenomenal.image.io.write_image
openalea.phenomenal.image.morphology
openalea.phenomenal.image.morphology.close
openalea.phenomenal.image.morphology.dilate_erode
openalea.phenomenal.image.morphology.erode_dilate
openalea.phenomenal.image.routines
openalea.phenomenal.image.routines.mean_image
openalea.phenomenal.image.routines.phenoarch_side_binarization
openalea.phenomenal.image.skeletonize
openalea.phenomenal.image.skeletonize.skeletonize_erode_dilate
openalea.phenomenal.image.skeletonize.skeletonize_thinning
openalea.phenomenal.image.threshold
openalea.phenomenal.image.threshold.threshold_hsv
openalea.phenomenal.image.threshold.threshold_meanshift
openalea.phenomenal.image.threshold.threshold_meanshift_enhance
openalea.phenomenal.mesh
openalea.phenomenal.mesh.algorithms.meshing
openalea.phenomenal.mesh.algorithms.marching_cubes
openalea.phenomenal.mesh.algorithms.smoothing
openalea.phenomenal.mesh.algorithms.decimation
openalea.phenomenal.mesh.formats
openalea.phenomenal.mesh.routines
openalea.phenomenal.mesh.vtk_transformation
openalea.phenomenal.mesh.algorithms
openalea.phenomenal.mesh.algorithms.decimation
openalea.phenomenal.mesh.algorithms.from_vertices_faces_to_voxels_position
openalea.phenomenal.mesh.algorithms.marching_cubes
openalea.phenomenal.mesh.algorithms.mesh_surface_area
openalea.phenomenal.mesh.algorithms.meshing
openalea.phenomenal.mesh.algorithms.smoothing
openalea.phenomenal.mesh.algorithms.voxelization
openalea.phenomenal.mesh.formats
openalea.phenomenal.mesh.formats.read_ply_to_vertices_faces
openalea.phenomenal.mesh.formats.read_ply_to_vtk_poly_data
openalea.phenomenal.mesh.formats.write_vertices_faces_to_ply_file
openalea.phenomenal.mesh.formats.write_vtk_poly_data_to_ply_file
openalea.phenomenal.mesh.routines
openalea.phenomenal.mesh.routines.centers
openalea.phenomenal.mesh.routines.median_color_from_images
openalea.phenomenal.mesh.routines.normals
openalea.phenomenal.mesh.routines.project_mesh_on_image
openalea.phenomenal.mesh.vtk_transformation
openalea.phenomenal.mesh.vtk_transformation.from_numpy_matrix_to_vtk_image_data
openalea.phenomenal.mesh.vtk_transformation.from_vertices_faces_to_vtk_poly_data
openalea.phenomenal.mesh.vtk_transformation.from_voxel_centers_to_vtk_image_data
openalea.phenomenal.mesh.vtk_transformation.from_vtk_image_data_to_voxels_center
openalea.phenomenal.mesh.vtk_transformation.from_vtk_poly_data_to_vertices_faces
openalea.phenomenal.mesh.vtk_transformation.voxel_grid_to_vtk_poly_data
openalea.phenomenal.multi_view_reconstruction
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction
openalea.phenomenal.multi_view_reconstruction._multi_view_reconstruction_octree
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.check_groups
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.create_groups
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.get_bounding_box_voxel_projected
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.get_integrale_image
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.get_voxels_corners
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.have_image_ref
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.image_error
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.kept_visible_voxel
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.project_voxel_centers_on_image
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.project_voxels_position_on_image
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.reconstruction_3d
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.reconstruction_error
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.reconstruction_inconsistent
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.split_voxels_in_eight
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.voxels_is_visible_in_image
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.Voxels
openalea.phenomenal.multi_view_reconstruction.multi_view_reconstruction.VoxelsStage
openalea.phenomenal.object
openalea.phenomenal.object.image3D
openalea.phenomenal.object.imageView
openalea.phenomenal.object.voxelGrid
openalea.phenomenal.object.voxelSegment
openalea.phenomenal.object.voxelOrgan
openalea.phenomenal.object.voxelSkeleton
openalea.phenomenal.object.voxelSegmentation
openalea.phenomenal.object.image3D
openalea.phenomenal.object.image3D.Image3D
openalea.phenomenal.object.imageView
openalea.phenomenal.object.imageView.ImageView
openalea.phenomenal.object.voxelGrid
openalea.phenomenal.object.voxelGrid.NumpyEncoder
openalea.phenomenal.object.voxelGrid.VoxelGrid
openalea.phenomenal.object.voxelOctree
openalea.phenomenal.object.voxelOctree.VoxelNode
openalea.phenomenal.object.voxelOctree.VoxelOctree
openalea.phenomenal.object.voxelOrgan
openalea.phenomenal.object.voxelOrgan.VoxelOrgan
openalea.phenomenal.object.voxelSegment
openalea.phenomenal.object.voxelSegment.VoxelSegment
openalea.phenomenal.object.voxelSegmentation
openalea.phenomenal.object.voxelSegmentation.VoxelSegmentation
openalea.phenomenal.object.voxelSkeleton
openalea.phenomenal.object.voxelSkeleton.VoxelSkeleton
openalea.phenomenal.optional_deps
openalea.phenomenal.optional_deps.extra_map
openalea.phenomenal.optional_deps.require_dependency
openalea.phenomenal.optional_deps.OptionalDependencyError
openalea.phenomenal.segmentation
openalea.phenomenal.segmentation.graph
openalea.phenomenal.segmentation.image_3d_routines
openalea.phenomenal.segmentation._skeleton_octree
openalea.phenomenal.segmentation.skeleton_phenomenal
openalea.phenomenal.segmentation.skeleton_thinning
openalea.phenomenal.segmentation.peak_detection
openalea.phenomenal.segmentation.plane_interception
openalea.phenomenal.segmentation.maize_segmentation
openalea.phenomenal.segmentation.maize_stem_detection
openalea.phenomenal.segmentation.maize_analysis
openalea.phenomenal.segmentation.graph
openalea.phenomenal.segmentation.graph.connect_all_node_with_nearest_neighbors
openalea.phenomenal.segmentation.graph.create_graph
openalea.phenomenal.segmentation.graph.graph_from_voxel_grid
openalea.phenomenal.segmentation.image_3d_routines
openalea.phenomenal.segmentation.image_3d_routines.kept_biggest_connected_component
openalea.phenomenal.segmentation.image_3d_routines.labeling_connected_component
openalea.phenomenal.segmentation.image_3d_routines.remove_internal
openalea.phenomenal.segmentation.maize_analysis
openalea.phenomenal.segmentation.maize_segmentation
openalea.phenomenal.segmentation.maize_stem_detection
openalea.phenomenal.segmentation.maize_stem_detection.get_nodes_radius
openalea.phenomenal.segmentation.maize_stem_detection.maize_stem_peak_detection
openalea.phenomenal.segmentation.maize_stem_detection.stem_detection
openalea.phenomenal.segmentation.peak_detection
openalea.phenomenal.segmentation.plane_interception
openalea.phenomenal.segmentation.plane_interception.compute_plane_equation
openalea.phenomenal.segmentation.plane_interception.connected_points_with_point
openalea.phenomenal.segmentation.plane_interception.connected_voxel_with_point
openalea.phenomenal.segmentation.plane_interception.intercept_points_along_path_with_planes
openalea.phenomenal.segmentation.plane_interception.intercept_points_along_polyline_with_ball
openalea.phenomenal.segmentation.plane_interception.intercept_points_from_src_point_with_plane_equation
openalea.phenomenal.segmentation.plane_interception.intercept_points_with_ball
openalea.phenomenal.segmentation.plane_interception.max_distance_from_point_to_points
openalea.phenomenal.segmentation.plane_interception.max_distance_in_points
openalea.phenomenal.segmentation.plane_interception.orientation_vector_of_point_in_polyline
openalea.phenomenal.segmentation.skeleton_phenomenal
openalea.phenomenal.segmentation.skeleton_phenomenal.compute_all_shorted_path
openalea.phenomenal.segmentation.skeleton_phenomenal.find_base_stem_position
openalea.phenomenal.segmentation.skeleton_phenomenal.segment_reduction
openalea.phenomenal.segmentation.skeleton_phenomenal.skeletonize
openalea.phenomenal.segmentation.skeleton_thinning
openalea.phenomenal.segmentation.skeleton_thinning.skeletonize_thinning
openalea.phenomenal.tracking
openalea.phenomenal.tracking.alignment
openalea.phenomenal.tracking.alignment.alignment_score
openalea.phenomenal.tracking.alignment.insert_gaps
openalea.phenomenal.tracking.alignment.multi_alignment
openalea.phenomenal.tracking.alignment.needleman_wunsch
openalea.phenomenal.tracking.alignment.scoring_function
openalea.phenomenal.tracking.alignment_postprocessing
openalea.phenomenal.tracking.alignment_postprocessing.detect_abnormal_ranks
openalea.phenomenal.tracking.alignment_postprocessing.leaf_polylines_distance
openalea.phenomenal.tracking.display
openalea.phenomenal.tracking.display.plot_polylines
openalea.phenomenal.tracking.leaf_extension
openalea.phenomenal.tracking.leaf_extension.compute_extension
openalea.phenomenal.tracking.leaf_extension.leaf_extension
openalea.phenomenal.tracking.leaf_extension.skeleton_branches
openalea.phenomenal.tracking.median_stem
openalea.phenomenal.tracking.median_stem.get_median_polyline
openalea.phenomenal.tracking.median_stem.normal_stem_shape
openalea.phenomenal.tracking.median_stem.z_to_xy
openalea.phenomenal.tracking.phenomenal_coupling
openalea.phenomenal.tracking.phenomenal_coupling.phm_leaf_features
openalea.phenomenal.tracking.phenomenal_coupling.phm_to_phenotrack_input
openalea.phenomenal.tracking.polyline_utils
openalea.phenomenal.tracking.polyline_utils.polyline_length
openalea.phenomenal.tracking.polyline_utils.polyline_quantile_coordinate
openalea.phenomenal.tracking.polyline_utils.polyline_simplification
openalea.phenomenal.tracking.polyline_utils.polyline_until_z
openalea.phenomenal.tracking.trackedPlant
openalea.phenomenal.tracking.trackedPlant.check_time_intervals
openalea.phenomenal.tracking.trackedPlant.TrackedLeaf
openalea.phenomenal.tracking.trackedPlant.TrackedPlant
openalea.phenomenal.tracking.trackedPlant.TrackedSnapshot
API References
openalea.phenomenal
openalea.phenomenal.object
openalea.phenomenal.object.voxelSkeleton
openalea.phenomenal.object.voxelSkeleton
#
Classes
VoxelSkeleton
(segments, voxels_size)
This Page
Show Source
