Skan API Reference

• skan.csr: CSR Graph representation of skeletons
  • PathGraph
    • PathGraph.degrees
    • PathGraph.distances
    • PathGraph.from_graph()
    • PathGraph.from_image()
  • Skeleton
    • Skeleton.graph
    • Skeleton.nbgraph
    • Skeleton.coordinates
    • Skeleton.paths
    • Skeleton.n_paths
    • Skeleton.distances
    • Skeleton.skeleton_image
    • Skeleton.source_image
    • Skeleton.path()
    • Skeleton.path_coordinates()
    • Skeleton.path_label_image()
    • Skeleton.path_lengths()
    • Skeleton.path_means()
    • Skeleton.path_stdev()
    • Skeleton.path_with_data()
    • Skeleton.paths_list()
    • Skeleton.prune_paths()
  • make_degree_image()
  • nx_to_skeleton()
  • pixel_graph()
  • sholl_analysis()
  • skeleton_to_csgraph()
  • skeleton_to_nx()
  • submatrix()
  • summarize()
• skan.draw: Skeleton visualisation
  • overlay_euclidean_skeleton_2d()
  • overlay_skeleton_2d()
  • overlay_skeleton_2d_class()
  • overlay_skeleton_networkx()
  • pipeline_plot()
  • pixel_perfect_figsize()
  • sholl_shells()
• skan.pipe:: Pipeline functions for skeleton analysis
  • process_images()
• skan.pre: Image preprocessing
  • hyperball()
  • threshold()