Index

A

add_all_args() (in module lpath.argparser) add_common_args() (in module lpath.argparser) add_discretize_args() (in module lpath.argparser) add_extract_args() (in module lpath.argparser)

add_match_args() (in module lpath.argparser) add_plot_args() (in module lpath.argparser) ask_number_clusters() (in module lpath.match) assign() (in module lpath.discretize) assign_color_frame() (in module lpath.extract)

C

calc_dist() (in module lpath.match) calc_dist_substr() (in module lpath.match) calc_dist_substr_vanilla() (in module lpath.match) calc_dist_vanilla() (in module lpath.match) calc_linkage() (in module lpath.match) check_argv() (in module lpath.argparser) check_less_three() (in module lpath.argparser)

check_non_neg() (in module lpath.argparser) check_non_neg_float() (in module lpath.argparser) check_positive() (in module lpath.argparser) clean_self_to_self() (in module lpath.extract) condense_string() (in module lpath.match) count_tmatrix_row() (in module lpath.extract) create_parser() (in module lpath.argparser) create_pickle_obj() (in module lpath.extract)

D

DefaultArgs (class in lpath.argparser) determine_clusters() (in module lpath.match) determine_metric() (in module lpath.match)

determine_plot_axes() (lpath.plot.LPATHPlot method) determine_reassign() (in module lpath.match) determine_relabel() (in module lpath.plot) determine_rerun() (in module lpath.match)

E

export_pickle() (in module lpath.match)

export_std_files() (in module lpath.match) export_we_files() (in module lpath.match)

F

find_min_distance() (in module lpath.extract)

find_transitions() (in module lpath.extract)

G

gen_dist_matrix() (in module lpath.match)

H

hcluster() (in module lpath.match)

I

InvalidArgumentError

L

load_data() (in module lpath.match) lpath.argparser module lpath.discretize module lpath.extract module

lpath.main module lpath.match module lpath.plot module LPATHPlot (class in lpath.plot)

M

main() (in module lpath.discretize) (in module lpath.extract) (in module lpath.match) (in module lpath.plot) module lpath.argparser lpath.discretize lpath.extract lpath.main lpath.match lpath.plot

P

plot() (lpath.plot.LPATHPlot method) plot_custom() (in module lpath.plot) plot_network() (lpath.plot.LPATHPlot method) plotdendro_branch_colors() (lpath.plot.LPATHPlot method) plothist_event_duration() (lpath.plot.LPATHPlot method) plothist_target_iter() (lpath.plot.LPATHPlot method) plothist_weight_cluster() (lpath.plot.LPATHPlot method)

plt_config() (lpath.plot.LPATHPlot method) process_args() (in module lpath.argparser) process_assign_args() (in module lpath.argparser) process_extract_output() (in module lpath.argparser) process_matplotlib_config() (in module lpath.argparser) process_output_folder() (in module lpath.argparser) process_plot_args() (in module lpath.plot) process_shorter_traj() (in module lpath.match)

R

raise_warnings() (in module lpath.extract) reassign_custom() (in module lpath.match) reassign_identity() (in module lpath.match) reassign_segid() (in module lpath.match)

reassign_statelabel() (in module lpath.match) relabel_custom() (in module lpath.plot) relabel_identity() (in module lpath.plot) report_statistics() (in module lpath.match)

S

select_rep() (in module lpath.match)

standard() (in module lpath.extract)

T

tostr() (in module lpath.match)

V

visualize() (in module lpath.match)

W

we() (in module lpath.extract)