Index

A

add_cells_picture() (in module scona.scripts.make_figures) add_colorbar() (in module scona.scripts.make_figures) add_four_hor_brains() (in module scona.scripts.make_figures) add_graphs() (scona.classes.GraphBundle method) add_wedge() (in module scona.scripts.make_figures) all_mean_mt() (in module scona.scripts.make_figures) anatomical_copy() (in module scona.make_graphs) (scona.classes.BrainNetwork method) anatomical_graph_attributes (scona.classes.BrainNetwork attribute)

anatomical_graph_attributes() (in module scona.make_graphs) anatomical_matches() (scona.classes.GraphBundle method) anatomical_node_attributes (scona.classes.BrainNetwork attribute) anatomical_node_attributes() (in module scona.make_graphs) apply() (scona.classes.GraphBundle method) assign_interhem() (in module scona.graph_measures) assign_nodal_distance() (in module scona.graph_measures) assign_node_centroids() (in module scona.make_graphs) assign_node_names() (in module scona.make_graphs)

B

BrainNetwork (class in scona.classes)

C

calc_min_max() (in module scona.scripts.make_figures) calc_modularity() (in module scona.graph_measures) calc_nodal_partition() (in module scona.graph_measures) calculate_global_measures() (in module scona.graph_measures) (scona.classes.BrainNetwork method) calculate_nodal_measures() (in module scona.graph_measures) (scona.classes.BrainNetwork method) calculate_spatial_measures() (scona.classes.BrainNetwork method) candidate_histogram() (in module scona.scripts.make_figures)

copy_anatomical_data() (in module scona.make_graphs) corr_by_agebin() (in module scona.scripts.make_figures) corrmat_from_regionalmeasures() (in module scona.make_corr_matrices) (in module scona.wrappers.corrmat_from_regionalmeasures) create_corrmat() (in module scona.make_corr_matrices) create_random_graphs() (scona.classes.GraphBundle method) create_residuals_df() (in module scona.make_corr_matrices) create_violin_data() (in module scona.scripts.make_figures) create_violin_labels() (in module scona.scripts.make_figures)

D

degree_r_values() (in module scona.scripts.make_figures)

F

figs_for_talk() (in module scona.scripts.make_figures) figure_1() (in module scona.scripts.make_figures) figure_1_replication() (in module scona.scripts.make_figures) figure_2() (in module scona.scripts.make_figures)

figure_3() (in module scona.scripts.make_figures) figure_4() (in module scona.scripts.make_figures) figure_4_replication() (in module scona.scripts.make_figures) format_p() (in module scona.scripts.make_figures)

G

get_anatomical_layouts() (in module scona.scripts.make_figures) get_axis_label_dict() (in module scona.scripts.make_figures) get_circular_layout() (in module scona.scripts.make_figures) get_min_max_values() (in module scona.scripts.make_figures) get_non_numeric_cols() (in module scona.make_corr_matrices)

get_random_graphs() (in module scona.make_graphs) get_von_economo_color_dict() (in module scona.scripts.make_figures) get_von_economo_shapes_dict() (in module scona.scripts.make_figures) graph_at_cost() (in module scona.make_graphs) GraphBundle (class in scona.classes)

I

import_data() (in module scona.datasets.NSPN_WhitakerVertes_PNAS2016)

is_anatomical_match() (in module scona.make_graphs) is_nodal_match() (in module scona.make_graphs)

M

make_combo_figures() (in module scona.scripts.make_figures) make_combo_hists() (in module scona.scripts.make_figures) make_combo_matrix() (in module scona.scripts.make_figures) make_combo_scatter() (in module scona.scripts.make_figures) make_figures() (in module scona.scripts.make_figures) mediation_figure() (in module scona.scripts.make_figures) module scona scona.classes scona.datasets scona.datasets.NSPN_WhitakerVertes_PNAS2016 scona.graph_measures scona.make_corr_matrices scona.make_graphs scona.scripts scona.scripts.make_figures scona.scripts.useful_functions scona.scripts.visualisation_commands scona.stats_functions scona.wrappers scona.wrappers.corrmat_from_regionalmeasures scona.wrappers.network_analysis_from_corrmat

mt_degree_network_fig() (in module scona.scripts.make_figures)

N

network_analysis_from_corrmat() (in module scona.wrappers.network_analysis_from_corrmat) network_summary_fig() (in module scona.scripts.make_figures)

nodal_ct_mt() (in module scona.scripts.make_figures) nodal_matches() (scona.classes.GraphBundle method)

O

old_figure_1() (in module scona.scripts.make_figures)

old_figure_2() (in module scona.scripts.make_figures) old_figure_3() (in module scona.scripts.make_figures)

P

parcellation_4horbrains() (in module scona.scripts.make_figures) partial_r() (in module scona.stats_functions) partial_volume_fig() (in module scona.scripts.make_figures) participation_coefficient() (in module scona.graph_measures) partition() (scona.classes.BrainNetwork method) plot_anatomical_network() (in module scona.scripts.make_figures)

plot_circular_network() (in module scona.scripts.make_figures) plot_degree_dist() (in module scona.scripts.make_figures) plot_network_measures() (in module scona.scripts.make_figures) plot_rich_club() (in module scona.scripts.make_figures) plot_sagittal_network() (in module scona.scripts.make_figures) prepare_violin_movie() (in module scona.scripts.make_figures) pretty_scatter() (in module scona.scripts.make_figures)

R

random_graph() (in module scona.make_graphs) read_in_data() (in module scona.scripts.useful_functions) read_in_rich_club() (in module scona.scripts.make_figures) report_global_measures() (scona.classes.GraphBundle method) report_nodal_measures() (scona.classes.BrainNetwork method) report_rich_club() (scona.classes.GraphBundle method) report_small_world() (scona.classes.GraphBundle method)

rescale() (in module scona.scripts.make_figures) (in module scona.scripts.visualisation_commands) residuals() (in module scona.stats_functions) results_matrix() (in module scona.scripts.make_figures) rich_club() (in module scona.graph_measures) (scona.classes.BrainNetwork method) rich_edges_nodes() (in module scona.scripts.make_figures)

S

save_mat() (in module scona.make_corr_matrices) scale_weights() (in module scona.make_graphs) scona module scona.classes module scona.datasets module scona.datasets.NSPN_WhitakerVertes_PNAS2016 module scona.graph_measures module scona.make_corr_matrices module scona.make_graphs module scona.scripts module scona.scripts.make_figures module scona.scripts.useful_functions module

scona.scripts.visualisation_commands module scona.stats_functions module scona.wrappers module scona.wrappers.corrmat_from_regionalmeasures module scona.wrappers.network_analysis_from_corrmat module set_anatomical_graph_attributes() (scona.classes.BrainNetwork method) set_anatomical_node_attributes() (scona.classes.BrainNetwork method) set_centroids() (scona.classes.BrainNetwork method) set_conn_types() (in module scona.scripts.make_figures) set_parcellation() (scona.classes.BrainNetwork method) setup_argparser() (in module scona.wrappers.corrmat_from_regionalmeasures) (in module scona.wrappers.network_analysis_from_corrmat) setup_color_list() (in module scona.scripts.make_figures) shortest_path() (in module scona.graph_measures) small_world_coefficient() (in module scona.graph_measures) small_world_sigma() (in module scona.graph_measures)

T

threshold() (scona.classes.BrainNetwork method)

threshold_graph() (in module scona.make_graphs)

V

variance_partition() (in module scona.stats_functions) view_corr_mat() (in module scona.scripts.visualisation_commands) violin_add_laminae() (in module scona.scripts.make_figures)

violin_mt_depths() (in module scona.scripts.make_figures) von_economo_boxes() (in module scona.scripts.make_figures) von_economo_scatter() (in module scona.scripts.make_figures)

W

weighted_graph_from_df() (in module scona.make_graphs)

weighted_graph_from_matrix() (in module scona.make_graphs) write_out_measures() (in module scona.scripts.useful_functions)

X

xyz_vs_measures() (in module scona.scripts.make_figures)

Z

z_score() (in module scona.graph_measures)