Index

A

annot_edge_from_file() (in module properties) annot_edge_to_file() (in module properties)

annot_node_from_file() (in module properties) annot_node_to_file() (in module properties) annotation_dict() (in module pax_import)

B

biopax_filter() (in module pax_import)

biopax_merge() (in module pax_import) biopax_to_reaction_graph() (in module pax_import)

C

cc_by_node_count() (in module utils) change_property_type() (in module properties) client_annot_impl() (in module properties) color_edges() (in module graph_explore) color_nodes() (in module graph_explore) color_range_hexa() (in module utils) compute_betweenness() (in module graph_explore) compute_closeness() (in module graph_explore)

compute_graph_metrics() (in module graph_explore) compute_page_rank() (in module graph_explore) connected_component_by_annotation() (in module extract) copy_edge_properties() (in module properties) copy_node_properties() (in module properties) count_edge() (in module utils) count_edges_by_values() (in module properties) count_nodes_by_values() (in module properties) create_property_from_map() (in module properties)

D

data_path() (in module utils) default_edge_value() (in module properties) defaultNodeValue() (in module properties) define_biomart_server() (in module properties)

define_boolean_filter() (in module extract) defineXmx() (in module utils) degree_distribution() (in module graph_explore) describe_graph() (in module graph_explore) describe_properties() (in module properties)

E

edge_description() (in module utils) edge_list() (in module utils) edge_property_values() (in module properties)

edge_to_string() (in module utils) ensembl_api() (in module properties) extract module

F

filter_by_node_attribute() (in module extract)

filter_from_boolean_filter() (in module extract) friendly_format_graphml() (in module utils)

G

graph_explore module

graphml_xml_string() (in module graph_explore)

I

influence_graph() (in module pax_import)

influence_subgraph() (in module pax_import) is_unique() (in module properties)

J

join_annotation() (in module pax_import)

L

largest_cc_degree_dist() (in module graph_explore) largest_connected_component() (in module extract)

list_to_string_property() (in module properties) load_graphml() (in module graph_explore)

M

merge_graph() (in module extract) merge_node_by_property() (in module extract) merge_nodes() (in module extract) module extract graph_explore pax_import properties utils

N

name_alias() (in module pax_import) node_list() (in module utils)

node_property_values() (in module properties) node_shape_to_color() (in module utils) node_to_string() (in module utils)

P

pax_import module populate_color() (in module properties) populate_shape() (in module properties)

prepare_spaim() (in module pax_import) properties module property_values() (in module properties)

R

reaction_to_influence_graph() (in module pax_import) remove_largest_cc() (in module extract)

replace_property_values() (in module properties) resource_path() (in module utils)

S

save_graphml() (in module graph_explore) save_image() (in module graph_explore) save_yed_graphml() (in module graph_explore) spaim_edge_label() (in module utils) string_to_list_property() (in module properties)

sub_graph_by_value() (in module extract) sub_graph_filter() (in module extract) subgraph_by_direction() (in module extract) subgraph_by_node() (in module extract) subgraphs_by_datasource() (in module extract) summary() (in module graph_explore)

T

to_string() (in module utils)

U

uniprot_to_go() (in module properties)

utils module