Index

A

append_component() (in module konnektor.network_tools.network_handling.concatenate)

B

build_n_random_mst_network() (in module konnektor.utils.toy_data) build_random_dataset() (in module konnektor.utils.toy_data)

build_random_fully_connected_network() (in module konnektor.utils.toy_data) build_random_mst_network() (in module konnektor.utils.toy_data)

C

ChargeClusterer (class in konnektor.network_tools.clustering.charge_clustering) cid_components (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer attribute) cid_scaffold (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer attribute) cluster_centers (konnektor.network_tools.clustering.component_diversity_clustering.ComponentsDiversityClusterer property) cluster_compounds() (konnektor.network_tools.clustering.charge_clustering.ChargeClusterer method) (konnektor.network_tools.clustering.component_diversity_clustering.ComponentsDiversityClusterer method) (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer method)

ClusteredNetworkGenerator (class in konnektor.network_planners.generators.clustered_network_generator) ComponentsDiversityClusterer (class in konnektor.network_tools.clustering.component_diversity_clustering) concatenate_networks() (in module konnektor.network_tools.network_handling.concatenate) (konnektor.network_planners.concatenators.max_concatenator.MaxConcatenator method) (konnektor.network_planners.concatenators.mst_concatenator.MstConcatenator method) CyclicNetworkGenerator (class in konnektor.network_planners.generators.cyclic_network_generator)

D

delete_component() (in module konnektor.network_tools.network_handling.delete) delete_transformation() (in module konnektor.network_tools.network_handling.delete)

draw_ligand_network() (in module konnektor.visualization.visualization) draw_network_widget() (in module konnektor.visualization.widget)

E

EmptyMapper (class in konnektor.utils.toy_data)

ExplicitNetworkGenerator (class in konnektor.network_planners.generators.explicit_network_generator)

F

find_solution() (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer static method)

formulate_answer() (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer static method)

G

generate_ligand_network() (konnektor.network_planners.generators.clustered_network_generator.ClusteredNetworkGenerator method) (konnektor.network_planners.generators.cyclic_network_generator.CyclicNetworkGenerator method) (konnektor.network_planners.generators.explicit_network_generator.ExplicitNetworkGenerator method) (konnektor.network_planners.generators.heuristic_maximal_network_generator.HeuristicMaximalNetworkGenerator method) (konnektor.network_planners.generators.maximal_network_generator.MaximalNetworkGenerator method) (konnektor.network_planners.generators.minimal_spanning_tree_network_generator.MinimalSpanningTreeNetworkGenerator method) (konnektor.network_planners.generators.star_network_generator.StarNetworkGenerator method) generate_network_from_indices() (konnektor.network_planners.generators.explicit_network_generator.ExplicitNetworkGenerator method) generate_network_from_names() (konnektor.network_planners.generators.explicit_network_generator.ExplicitNetworkGenerator method) generate_scaffold_network() (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer static method) get_benzene_ligands() (in module konnektor.data) get_charged_ligands() (in module konnektor.data)

get_component_connectivities() (in module konnektor.network_analysis.network_analysis) get_component_number_cycles() (in module konnektor.network_analysis.network_analysis) get_component_scores() (in module konnektor.network_analysis.network_analysis) get_hif2a_ligands() (in module konnektor.data) get_is_connected() (in module konnektor.network_analysis.network_analysis) get_network_cost() (in module konnektor.network_analysis.network_analysis) get_network_efficiency() (in module konnektor.network_analysis.network_analysis) get_network_score() (in module konnektor.network_analysis.network_analysis) get_node_connectivities() (in module konnektor.visualization.visualization) (in module konnektor.visualization.widget) get_number_of_network_cycles() (in module konnektor.network_analysis.network_analysis) get_score() (konnektor.utils.toy_data.RandomScorer method) get_transformation_failure_robustness() (in module konnektor.network_analysis.network_analysis)

H

HeuristicMaximalNetworkGenerator (class in konnektor.network_planners.generators.heuristic_maximal_network_generator)

K

konnektor.data module konnektor.network_analysis.network_analysis module konnektor.network_planners.concatenators.max_concatenator module konnektor.network_planners.concatenators.mst_concatenator module konnektor.network_planners.generators.clustered_network_generator module konnektor.network_planners.generators.cyclic_network_generator module konnektor.network_planners.generators.explicit_network_generator module konnektor.network_planners.generators.heuristic_maximal_network_generator module konnektor.network_planners.generators.maximal_network_generator module konnektor.network_planners.generators.minimal_spanning_tree_network_generator module

konnektor.network_planners.generators.star_network_generator module konnektor.network_tools.clustering.charge_clustering module konnektor.network_tools.clustering.component_diversity_clustering module konnektor.network_tools.clustering.scaffold_clustering module konnektor.network_tools.network_handling.concatenate module konnektor.network_tools.network_handling.delete module konnektor.network_tools.network_handling.merge module konnektor.utils.toy_data module konnektor.visualization.visualization module konnektor.visualization.widget module

M

map2svg() (in module konnektor.visualization.widget) match_scaffolds_to_source() (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer static method) MaxConcatenator (class in konnektor.network_planners.concatenators.max_concatenator) MaximalNetworkGenerator (class in konnektor.network_planners.generators.maximal_network_generator) merge_networks() (in module konnektor.network_tools.network_handling.merge) merge_two_networks() (in module konnektor.network_tools.network_handling.merge) MinimalSpanningTreeNetworkGenerator (class in konnektor.network_planners.generators.minimal_spanning_tree_network_generator) module konnektor.data konnektor.network_analysis.network_analysis konnektor.network_planners.concatenators.max_concatenator konnektor.network_planners.concatenators.mst_concatenator konnektor.network_planners.generators.clustered_network_generator konnektor.network_planners.generators.cyclic_network_generator konnektor.network_planners.generators.explicit_network_generator konnektor.network_planners.generators.heuristic_maximal_network_generator konnektor.network_planners.generators.maximal_network_generator konnektor.network_planners.generators.minimal_spanning_tree_network_generator konnektor.network_planners.generators.star_network_generator konnektor.network_tools.clustering.charge_clustering konnektor.network_tools.clustering.component_diversity_clustering konnektor.network_tools.clustering.scaffold_clustering konnektor.network_tools.network_handling.concatenate konnektor.network_tools.network_handling.delete konnektor.network_tools.network_handling.merge konnektor.utils.toy_data konnektor.visualization.visualization konnektor.visualization.widget

mol2svg() (in module konnektor.visualization.widget) MstConcatenator (class in konnektor.network_planners.concatenators.mst_concatenator)

N

normalise_molecules() (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer static method)

R

RadialNetworkGenerator (in module konnektor.network_planners.generators.star_network_generator)

RandomScorer (class in konnektor.utils.toy_data)

S

scaffold_looseness (konnektor.network_tools.clustering.scaffold_clustering.ScaffoldClusterer attribute) ScaffoldClusterer (class in konnektor.network_tools.clustering.scaffold_clustering)

StarNetworkGenerator (class in konnektor.network_planners.generators.star_network_generator) StarrySkyNetworkGenerator (class in konnektor.network_planners.generators.clustered_network_generator) suggest_mappings() (konnektor.utils.toy_data.EmptyMapper method)