Index

_

__add__() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) __getitem__() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) __init__() (cereeberus.compute.unionfind.UnionFind method) (cereeberus.distance.interleave.Assignment method) (cereeberus.distance.interleave.Interleave method) (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) (cereeberus.reeb.branchdecomp.BranchDecomp method) (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) (cereeberus.reeb.mapper.MapperGraph method) (cereeberus.reeb.merge.MergeTree method) (cereeberus.reeb.reebgraph.ReebGraph method)

__matmul__() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) __setitem__() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) __sub__() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method)

A

absmax() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) add_edge() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) (cereeberus.reeb.mapper.MapperGraph method) (cereeberus.reeb.merge.MergeTree method) (cereeberus.reeb.reebgraph.ReebGraph method) add_edges_from() (cereeberus.reeb.reebgraph.ReebGraph method) add_label() (cereeberus.reeb.merge.MergeTree method) add_label_edge() (cereeberus.reeb.merge.MergeTree method)

add_node() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) (cereeberus.reeb.mapper.MapperGraph method) (cereeberus.reeb.merge.MergeTree method) (cereeberus.reeb.reebgraph.ReebGraph method) add_nodes_from() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) (cereeberus.reeb.reebgraph.ReebGraph method) adjacency_matrix() (cereeberus.reeb.reebgraph.ReebGraph method) all_func_vals() (cereeberus.distance.interleave.Assignment method) Assignment (class in cereeberus.distance.interleave)

B

B() (cereeberus.distance.interleave.Assignment method) B_down() (cereeberus.distance.interleave.Assignment method) B_up() (cereeberus.distance.interleave.Assignment method) bezier_curve() (in module cereeberus.draw.draw)

block_diag_NaN() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) boundary_matrix() (cereeberus.reeb.reebgraph.ReebGraph method) branch_decomp() (cereeberus.reeb.reebgraph.ReebGraph method) BranchDecomp (class in cereeberus.reeb.branchdecomp)

C

cereeberus.compute.unionfind module cereeberus.data.ex_embedgraphs module cereeberus.data.ex_mappergraphs module cereeberus.data.ex_mergetrees module cereeberus.data.ex_reebgraphs module cereeberus.distance.interleave module cereeberus.distance.labeled_blocks module cereeberus.draw.draw module cereeberus.reeb.branchdecomp module

cereeberus.reeb.embeddedgraph module cereeberus.reeb.mapper module cereeberus.reeb.merge module cereeberus.reeb.reebgraph module check_column_sum() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) col_sum() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) components_dict() (cereeberus.compute.unionfind.UnionFind method) computeMapper() (in module cereeberus.compute.computemapper) computeReeb() (in module cereeberus.compute.computereeb) connected_components() (cereeberus.reeb.reebgraph.ReebGraph method) copy() (cereeberus.reeb.reebgraph.ReebGraph method) cover() (in module cereeberus.compute.computemapper)

D

D() (cereeberus.distance.interleave.Assignment method) D_ (cereeberus.distance.interleave.Assignment property) dancing_man() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs) decompose() (cereeberus.reeb.branchdecomp.BranchDecomp method) dict_to_list() (in module cereeberus.draw.draw) dist_fit() (cereeberus.distance.interleave.Interleave method) dist_optimize() (cereeberus.distance.interleave.Assignment method) down_degree() (cereeberus.reeb.reebgraph.ReebGraph method) draw() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) (cereeberus.reeb.branchdecomp.BranchDecomp method) (cereeberus.reeb.merge.MergeTree method) (cereeberus.reeb.reebgraph.ReebGraph method)

draw_all_B() (cereeberus.distance.interleave.Assignment method) draw_all_graphs() (cereeberus.distance.interleave.Assignment method) (cereeberus.distance.interleave.Interleave method) draw_all_I() (cereeberus.distance.interleave.Assignment method) draw_all_phi() (cereeberus.distance.interleave.Assignment method) (cereeberus.distance.interleave.Interleave method) draw_all_psi() (cereeberus.distance.interleave.Assignment method) (cereeberus.distance.interleave.Interleave method) draw_B() (cereeberus.distance.interleave.Assignment method) draw_D() (cereeberus.distance.interleave.Assignment method) draw_I() (cereeberus.distance.interleave.Assignment method) draw_phi() (cereeberus.distance.interleave.Assignment method) draw_psi() (cereeberus.distance.interleave.Assignment method)

E

EmbeddedGraph (class in cereeberus.reeb.embeddedgraph)

exampleEmbeddedGraph() (in module cereeberus.data.ex_embedgraphs)

F

F() (cereeberus.distance.interleave.Assignment method) find() (cereeberus.compute.unionfind.UnionFind method) fit() (cereeberus.distance.interleave.Interleave method)

fix_pos_f() (cereeberus.reeb.merge.MergeTree method) func_to_edge_dict() (cereeberus.reeb.reebgraph.ReebGraph method) func_to_vertex_dict() (cereeberus.reeb.reebgraph.ReebGraph method)

G

G() (cereeberus.distance.interleave.Assignment method) g_omega() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) g_omega_edges() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) get_all_block_indices() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) get_all_cols() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) get_all_labels() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) get_all_rows() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) get_array() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) get_bounding_box() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) get_bounding_radius() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) get_branch() (cereeberus.reeb.branchdecomp.BranchDecomp method) get_branch_path() (cereeberus.reeb.branchdecomp.BranchDecomp method)

get_branches() (cereeberus.reeb.branchdecomp.BranchDecomp method) get_cols_dict() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) get_coordinates() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) get_finite_nodes() (cereeberus.reeb.merge.MergeTree method) get_function_values() (cereeberus.reeb.reebgraph.ReebGraph method) get_interleaving_map() (cereeberus.distance.interleave.Assignment method) (cereeberus.distance.interleave.Interleave method) get_largest_component() (cereeberus.reeb.reebgraph.ReebGraph method) get_leaves() (cereeberus.reeb.merge.MergeTree method) get_mean_centered_coordinates() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) get_multi_edges() (cereeberus.reeb.reebgraph.ReebGraph method) get_next_vert_name() (cereeberus.reeb.reebgraph.ReebGraph method) get_rows_dict() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) get_upward_path() (cereeberus.reeb.reebgraph.ReebGraph method)

I

I() (cereeberus.distance.interleave.Assignment method) induced_subgraph() (cereeberus.reeb.mapper.MapperGraph method) (cereeberus.reeb.reebgraph.ReebGraph method) inputToDirRootTree() (cereeberus.reeb.merge.MergeTree method) Interleave (class in cereeberus.distance.interleave)

interleave_example_A() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs) interleave_example_B() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs) inv_image() (cereeberus.reeb.reebgraph.ReebGraph method) is_col_sum_1() (cereeberus.distance.labeled_blocks.LabeledMatrix method)

J

juggling_man() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs)

L

label_all_leaves() (cereeberus.reeb.merge.MergeTree method) LabeledBlockMatrix (class in cereeberus.distance.labeled_blocks) LabeledMatrix (class in cereeberus.distance.labeled_blocks) LCA() (cereeberus.reeb.merge.MergeTree method) LCA_matrix() (cereeberus.reeb.merge.MergeTree method) line() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs)

line_loop_index() (in module cereeberus.draw.draw) loss() (cereeberus.distance.interleave.Assignment method) loss_by_block() (cereeberus.distance.interleave.Assignment method) loss_table() (cereeberus.distance.interleave.Assignment method) lower_edges() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method)

M

MapperGraph (class in cereeberus.reeb.mapper) mapperify() (cereeberus.reeb.mapper.MapperGraph method) max() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) max_block_index() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) max_f() (cereeberus.reeb.reebgraph.ReebGraph method) MergeTree (class in cereeberus.reeb.merge) min() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) min_block_index() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) min_f() (cereeberus.reeb.reebgraph.ReebGraph method) module cereeberus.compute.unionfind cereeberus.data.ex_embedgraphs cereeberus.data.ex_mappergraphs cereeberus.data.ex_mergetrees cereeberus.data.ex_reebgraphs cereeberus.distance.interleave cereeberus.distance.labeled_blocks cereeberus.draw.draw cereeberus.reeb.branchdecomp cereeberus.reeb.embeddedgraph cereeberus.reeb.mapper cereeberus.reeb.merge cereeberus.reeb.reebgraph

N

number_connected_components() (cereeberus.reeb.reebgraph.ReebGraph method)

O

optimize() (cereeberus.distance.interleave.Assignment method)

P

parallelogram() (cereeberus.distance.interleave.Assignment method) parallelogram_Edge_Vert() (cereeberus.distance.interleave.Assignment method) parallelogram_Edge_Vert_matrix() (cereeberus.distance.interleave.Assignment method) parallelogram_matrix() (cereeberus.distance.interleave.Assignment method) phi() (cereeberus.distance.interleave.Assignment method) (cereeberus.distance.interleave.Interleave method)

plot() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) plot_adjacency_matrix() (cereeberus.reeb.reebgraph.ReebGraph method) plot_boundary_matrix() (cereeberus.reeb.reebgraph.ReebGraph method) psi() (cereeberus.distance.interleave.Assignment method) (cereeberus.distance.interleave.Interleave method)

R

randomizeMergeFunction() (in module cereeberus.data.ex_mergetrees) randomMergeTree() (in module cereeberus.data.ex_mergetrees) reconstruct() (cereeberus.reeb.branchdecomp.BranchDecomp method) reeb_graph_from_direction() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) reeb_plot() (in module cereeberus.draw.draw) ReebGraph (class in cereeberus.reeb.reebgraph) relabel_nodes() (cereeberus.reeb.reebgraph.ReebGraph method)

remove_all_regular_vertices() (cereeberus.reeb.reebgraph.ReebGraph method) remove_edges_from() (cereeberus.reeb.reebgraph.ReebGraph method) remove_isolates() (cereeberus.reeb.reebgraph.ReebGraph method) remove_node() (cereeberus.reeb.merge.MergeTree method) (cereeberus.reeb.reebgraph.ReebGraph method) remove_nodes_from() (cereeberus.reeb.reebgraph.ReebGraph method) remove_path_from() (cereeberus.reeb.reebgraph.ReebGraph method) remove_regular_vertex() (cereeberus.reeb.reebgraph.ReebGraph method)

S

set_coordinates() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) set_interleaving_maps() (cereeberus.distance.interleave.Assignment method) set_mean_centered_coordinates() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) set_pos_from_f() (cereeberus.reeb.mapper.MapperGraph method) (cereeberus.reeb.merge.MergeTree method) (cereeberus.reeb.reebgraph.ReebGraph method) set_random_assignment() (cereeberus.distance.interleave.Assignment method) set_single_assignment() (cereeberus.distance.interleave.Assignment method) shape() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) simple_loops() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs) simple_loops_unordered() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs)

size() (cereeberus.distance.labeled_blocks.LabeledMatrix method) slice() (cereeberus.reeb.reebgraph.ReebGraph method) slope_intercept() (in module cereeberus.draw.draw) smoothing() (cereeberus.reeb.mapper.MapperGraph method) (cereeberus.reeb.reebgraph.ReebGraph method) smoothing_and_maps() (cereeberus.reeb.mapper.MapperGraph method) (cereeberus.reeb.reebgraph.ReebGraph method) sort_edges() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) sort_vertices() (cereeberus.reeb.embeddedgraph.EmbeddedGraph method) sorted_edges() (cereeberus.reeb.reebgraph.ReebGraph method) sorted_vertices() (cereeberus.reeb.reebgraph.ReebGraph method) subdivide_edge() (cereeberus.reeb.reebgraph.ReebGraph method) summary() (cereeberus.reeb.reebgraph.ReebGraph method)

T

T() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method) thickening_distance() (cereeberus.reeb.reebgraph.ReebGraph method) thickening_distance_by_level() (cereeberus.reeb.mapper.MapperGraph method) thickening_distance_matrix() (cereeberus.reeb.mapper.MapperGraph method) to_indicator() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) (cereeberus.distance.labeled_blocks.LabeledMatrix method)

to_labeled_block() (cereeberus.distance.labeled_blocks.LabeledMatrix method) to_labeled_matrix() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) to_mapper() (cereeberus.reeb.reebgraph.ReebGraph method) to_shifted_blocks() (cereeberus.distance.labeled_blocks.LabeledBlockMatrix method) torus() (in module cereeberus.data.ex_mappergraphs) (in module cereeberus.data.ex_reebgraphs) triangle() (cereeberus.distance.interleave.Assignment method) triangle_matrix() (cereeberus.distance.interleave.Assignment method)

U

union() (cereeberus.compute.unionfind.UnionFind method)

UnionFind (class in cereeberus.compute.unionfind) up_degree() (cereeberus.reeb.reebgraph.ReebGraph method)