Index

A

agglomerativeclustering() (in module phlower.tl)

assign_graph_node_attr_to_adata() (in module phlower.tl)

B

branch_heatmap_matrix() (in module phlower.tl)

branch_regulator_detect() (in module phlower.tl) branch_TF_gene_correlation() (in module phlower.tl)

C

change_stream_labels() (in module phlower.tl) construct_circle_delaunay() (in module phlower.tl) construct_delaunay() (in module phlower.tl)

construct_delaunay_persistence() (in module phlower.tl) construct_trucated_delaunay() (in module phlower.tl) count_features_at_radius() (in module phlower.tl)

D

dbscan() (in module phlower.tl) ddhodge() (in module phlower.ext)

diffusionGraph() (in module phlower.tl) diffusionGraphDM() (in module phlower.tl)

E

end_branch_dict() (in module phlower.tl)

F

fate_tree_full_dataframe() (in module phlower.tl) fate_velocity_plot() (in module phlower.pl) fate_velocity_plot_cumsum() (in module phlower.pl)

find_a_branch_all_predecessors() (in module phlower.tl) find_branch_end() (in module phlower.tl) find_branch_start() (in module phlower.tl) find_samelevel_daugthers() (in module phlower.tl)

G

gaussianmixture() (in module phlower.tl)

get_all_attr_names() (in module phlower.tl) get_tree_leaves_attr() (in module phlower.tl)

H

harmonic_backbone() (in module phlower.pl) harmonic_backbone_3d() (in module phlower.pl)

harmonic_stream_tree() (in module phlower.tl) helping_merged_tree() (in module phlower.tl) helping_submerged_tree() (in module phlower.tl)

L

L1Norm_decomp() (in module phlower.tl)

leiden() (in module phlower.tl) louvain() (in module phlower.tl)

M

magic_adata() (in module phlower.tl) mbranch_regulator_detect() (in module phlower.tl) module phlower phlower.pl phlower.tl

N

nxdraw_group() (in module phlower.pl) nxdraw_harmonic() (in module phlower.pl)

nxdraw_holes() (in module phlower.pl) nxdraw_score() (in module phlower.pl)

P

persisitence_barcodes() (in module phlower.pl) persisitence_birth_death() (in module phlower.pl) phlower module phlower.pl module phlower.tl module plot_density_grid() (in module phlower.pl) plot_eigen_line() (in module phlower.pl) plot_embedding() (in module phlower.pl) plot_fate_tree() (in module phlower.pl)

plot_fate_tree_embedding() (in module phlower.pl) plot_pie_fate_tree() (in module phlower.pl) plot_stream() (in module phlower.ext) plot_stream_sc() (in module phlower.ext) plot_stream_tree_embedding() (in module phlower.pl) plot_traj() (in module phlower.pl) plot_trajectory_harmonic_lines() (in module phlower.pl) plot_trajectory_harmonic_lines_3d() (in module phlower.pl) plot_trajectory_harmonic_points() (in module phlower.pl) plot_trajectory_harmonic_points_3d() (in module phlower.pl) plot_trajs_embedding() (in module phlower.pl) plot_triangle_density() (in module phlower.pl) print_stream_labels() (in module phlower.tl)

R

random_climb_knn() (in module phlower.tl) regulator_dot_correlation() (in module phlower.pl) regulator_heatmap() (in module phlower.pl) run_fdl() (in module phlower.tl) run_isomap() (in module phlower.tl) run_kernelpca() (in module phlower.tl)

run_lda() (in module phlower.tl) run_mds() (in module phlower.tl) run_palantir_fdl() (in module phlower.tl) run_pca() (in module phlower.tl) run_tsne() (in module phlower.tl) run_umap() (in module phlower.tl)

S

spectralclustering() (in module phlower.tl)

T

TF_gene_correlation() (in module phlower.tl) trajs_clustering() (in module phlower.tl) trajs_dm() (in module phlower.tl) trajs_matrix() (in module phlower.tl)

tree_2branch_markers() (in module phlower.tl) tree_branches_smooth_window() (in module phlower.tl) tree_label_dict() (in module phlower.tl) tree_mbranch_markers() (in module phlower.tl) tree_original_dict() (in module phlower.tl)