Structural Bioinformatics Library
Template C++ / Python API for developping structural bioinformatics applications.
Class Index
A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | U | V | W | X
A
AB_label_traits (SBL::Models)
Accept_all_occupancy_policy (ESBTL)
Accept_none_occupancy_policy (ESBTL)
T_AD_buffer (SBL::CSB)
T_AD_stack (SBL::CSB)
T_Aligner_sequence_seqan_wrapper (SBL::CSB)
T_Aligner_structure_apurva_wrapper (SBL::CSB)
T_Alignment_engine (SBL::CSB)
T_Alignment_engine_sequences_seqan (SBL::CSB)
T_Alignment_engine_structures (SBL::CSB)
T_Alignment_engine_structures_apurva (SBL::CSB)
T_Alignment_engine_structures_identity (SBL::CSB)
T_Alignment_engine_structures_iterative_identity (SBL::CSB)
T_Alignment_engine_structures_kpax (SBL::CSB)
T_Alignment_residue (SBL::CSB)
T_Alignment_sequence (SBL::CSB)
T_Alignment_sequences_module (SBL::Modules)
T_Alignment_structures_module (SBL::Modules)
All_atom_system_builder (ESBTL)
T_Alpha_complex_base_3 (SBL::CSB)
T_Alpha_complex_cell_base_3 (SBL::CSB)
T_Alpha_complex_of_molecular_model (SBL::CSB)
T_Alpha_complex_of_molecular_model_module (SBL::Modules)
T_Alpha_complex_of_molecular_model_traits (SBL::CSB)
T_Alpha_complex_vertex_base_3 (SBL::CSB)
And_functors (ESBTL)
T_Angular_internal_distance (SBL::CSB)
T_ANN_FLANN_wrapper (SBL::GT)
T_ANN_meta (SBL::GT)
T_ANN_metric_space_LAESA (SBL::GT)
T_ANN_metric_space_proximity_tree (SBL::GT)
Annotated_sequence (SBL.Sequence_annotators)
T_Dynamic_annotator_for_atoms::T_Annotations_with_dynamic (SBL::Models)
T_Dynamic_annotator_for_atoms::T_Annotations_with_dynamic< void, DynamicAnnotation > (SBL::Models)
T_Archive_file_loader (SBL::IO)
Atom_data (SBL.Protein_complex_analysis_molecular_data_structures)
Atom_list_occupancy_policy (ESBTL)
T_Atom_with_flat_info (SBL::Models)
T_Atom_with_flat_info_and_annotations_traits (SBL::Models)
T_Atom_with_flat_info_traits (SBL::Models)
T_Atom_with_flat_info_traits::Atom_with_flat_infos_builder (SBL::Models)
T_Atom_with_hierarchical_info_and_annotations_traits (SBL::Models)
T_Atom_with_hierarchical_info_traits (SBL::Models)
Atomic_contact_data (SBL.Protein_complex_analysis_molecular_data_structures)
B
B_factor_color_engine (SBL.Multiple_interface_string_alignment)
B_factor_coloring_parser (SBL.Multiple_interface_string_alignment)
T_Polypeptide_chain_representation::Backbone_const_iterator (SBL::CSB)
T_Polypeptide_chain_representation::Backbone_iterator (SBL::CSB)
T_Delaunay_triangulation_spherical_traits_3_base::Base (SBL::GT)
T_Betti_numbers_1 (SBL::GT)
T_Betti_numbers_2 (SBL::GT)
T_Bicolor_interface_data_structure_base (SBL::CSB)
T_Bicolor_interface_oserialization (SBL::Modules)
T_Bicolor_interface_oserialization (SBL::CSB)
T_Bin_properties (SBL::GT)
Bin_properties_Internal (SBL::GT)
T_Binet_Cauchy_kernel_score (SBL::CSB)
BioPDB_vs_XML_Etree (SBL.PALSE)
BM_Batch (SBL.Batch_manager)
BM_Database (SBL.Batch_manager)
BM_Dataset (SBL.Batch_manager)
BM_Run_specification_ensemble (SBL.Batch_manager)
BM_Run_specification_tuple (SBL.Batch_manager)
T_Polypeptide_chain_representation::Bond (SBL::CSB)
T_Polypeptide_chain_representation::Bond_angle (SBL::CSB)
T_Polypeptide_chain_representation::Bond_angle_const_iterator (SBL::CSB)
T_Polypeptide_chain_representation::Bond_angle_iterator (SBL::CSB)
T_Bond_angles_visitor (SBL::CSB)
T_Polypeptide_chain_representation::Bond_const_iterator (SBL::CSB)
T_Polypeptide_chain_representation::Bond_iterator (SBL::CSB)
T_Bonded_particles_visitor (SBL::CSB)
branch_and_bound
BSA_color_engine (SBL.Multiple_interface_string_alignment)
BSA_coloring_parser (SBL.Multiple_interface_string_alignment)
T_Buried_surface_area_with_labels (SBL::CSB)
T_Buried_surface_area_with_labels_module (SBL::Modules)
T_Buried_surface_area_without_label (SBL::CSB)
T_Buried_surface_area_without_label_module (SBL::Modules)
C
T_Triangulation_extension_3_base::Canonical_edge (SBL::GT)
T_Triangulation_extension_3_base::Canonical_facet (SBL::GT)
T_Canonize_conformation (SBL::CSB)
T_Cell_complex_shelling_diagram (SBL::CADS)
T_Union_of_balls_boundary_patch_shelling_3::Face_complex_traits::Cell_handle (SBL::GT)
Chain_data (SBL.Protein_complex_analysis_molecular_data_structures)
Chain_instances (SBL.Multiple_interface_string_alignment)
T_Chain_label_traits (SBL::Models)
Chain_label_traits (SBL::Models)
T_Chains_residues_contiguous_indexer (SBL::CSB)
Class_II_filter (SBL.Sequence_filters)
T_Cluster_engine_k_means (SBL::GT)
T_Cluster_engine_k_means_center_of_mass (SBL::GT)
T_Cluster_engine_k_means_com_euclidean (SBL::GT)
T_Cluster_engine_k_means_com_Sd (SBL::GT)
T_Cluster_engine_k_means_point_selector_minimax (SBL::GT)
T_Cluster_engine_k_means_point_selector_plus_plus (SBL::GT)
T_Cluster_engine_k_means_point_selector_random (SBL::GT)
T_Cluster_engine_module (SBL::Modules)
T_Cluster_engine_Morse_theory_based (SBL::GT)
cMISA_constructor (SBL.Multiple_interface_string_alignment)
cMISA_recorder (SBL.Multiple_interface_string_alignment)
Coarse_atom (SBL::CSB)
Coarse_atom (ESBTL)
Coarse_atoms_iterators (ESBTL)
Coarse_atoms_iterators (SBL::CSB)
Coarse_creator_closest_to_barycenter (SBL::CSB)
Coarse_creator_closest_to_barycenter (ESBTL)
Coarse_creator_two_barycenters (SBL::CSB)
Coarse_creator_two_barycenters (ESBTL)
Coarse_residue (SBL::CSB)
Coarse_residue (ESBTL)
Color_of_atom (ESBTL)
Color_of_residues (ESBTL)
ColorbarTools (SBL.Multiple_interface_string_alignment)
Colored_MISA (SBL.Multiple_interface_string_alignment)
Combinations_of_variables_model_evaluation (SBL.Combinations_of_variables_model_evaluation)
T_Combined_Move_Params (SBL::GT)
T_Combined_Move_Set (SBL::GT)
T_Combined_Move_Set_Controller (SBL::GT)
T_Combined_Move_Stats (SBL::GT)
Combined_WL_Move_Set_Data_Interface (SBL::GT)
Complex_data_collector (SBL.Protein_complex_analysis_molecular_data_structures)
Compute_interface_lRMSD (SBL.Multiple_interface_string_alignment)
T_Conformation_builder_cartesian_default (SBL::CSB)
T_Conformation_builder_cartesian_default (SBL::Models)
T_Conformation_loader (SBL::IO)
T_Conformation_traits (SBL::CSB)
T_Conformation_traits< CGAL::Point_d< Kernel > > (SBL::CSB)
T_Conformation_traits< std::vector< NT > > (SBL::CSB)
T_Conformation_traits< T_Conformation_as_vector< NT > > (SBL::CSB)
T_Conformation_traits< T_Conformation_with_covalent_structure< ConformationBase, CovalentStructure > > (SBL::CSB)
T_Conformation_traits< T_Conformation_with_height< ConformationBase, HeightType > > (SBL::CSB)
T_Conformation_traits< T_Conformation_with_implicit_height< ConformationBase, HeightFunctor > > (SBL::CSB)
T_Conformation_with_covalent_structure (SBL::CSB)
T_Conformation_with_height (SBL::CSB)
T_Conformation_with_implicit_height (SBL::CSB)
T_Conformations_file_loader (SBL::Models)
Contact_map_for_one_ctype (SBL::CSB)
T_Container_of_containers_const_iterator (SBL::CADS)
T_Container_of_containers_iterator (SBL::CADS)
T_Container_of_containers_iterator_base (SBL::CADS)
Contants_for_embedding (SBL::CSB)
Cradle_step1 (SBL.Molecular_cradle_step1)
Cradle_step2 (SBL.Molecular_cradle_step2)
Cradle_step2_selected (SBL.Molecular_cradle_step2_selected)
Cradle_step3 (SBL.Molecular_cradle_step3)
Create_And_Compute_iRMSD (SBL.Multiple_interface_string_alignment)
D
D_Solution (SBL::CADS)
Darting_Move_Params (SBL::GT)
T_Darting_Move_Set (SBL::GT)
T_Darting_Move_Set_Controller (SBL::GT)
Darting_Move_Set_Traits (SBL::GT)
Darting_Move_Stats (SBL::GT)
T_Default_amino_acid_seqan_sequence_converter (SBL::CSB)
Default_color_engine (SBL.Multiple_interface_string_alignment)
Default_radii_for_particles_with_annotated_name (SBL::Models)
Default_system_items (ESBTL)
Default_system_items (SBL::CSB)
T_Delaunay_triangulation_extension_3 (SBL::GT)
T_Delaunay_triangulation_spherical_traits_3 (SBL::GT)
T_Delaunay_triangulation_spherical_traits_3_base (SBL::GT)
Delta_ASA_color_engine (SBL.Multiple_interface_string_alignment)
Delta_ASA_coloring_parser (SBL.Multiple_interface_string_alignment)
Dendogram_processor (SBL.Molecular_cradle_utils_dendogram)
T_Union_find_base::Descendants_iterator (SBL::CADS)
T_Polypeptide_chain_representation::Dihedral_angle (SBL::CSB)
T_Polypeptide_chain_representation::Dihedral_angle_const_iterator (SBL::CSB)
T_Polypeptide_chain_representation::Dihedral_angle_iterator (SBL::CSB)
T_Dihedral_angles_visitor (SBL::CSB)
T_Dijkstra_shortest_paths_with_landmarks (SBL::CADS)
T_Directed_acyclic_graph (SBL::CADS)
Directed_acyclic_graph_default_property (SBL::CADS)
T_Directed_acyclic_graph_with_layers (SBL::CADS)
Distance_calculator (SBL.Molecular_cradle_utils_distance)
T_Distance_default_for_graph (SBL::GT)
T_Domain_annotator_for_particles (SBL::Models)
Domain_label_traits (SBL::Models)
T_Domain_label_traits (SBL::Models)
dp_mat_apurva
T_DS_conformation (SBL::GT)
T_DS_snapshot_default (SBL::GT)
T_Dynamic_annotator_for_atoms (SBL::Models)
T_Dynamic_annotator_for_residues (SBL::Models)
E
T_Earth_mover_distance (SBL::CADS)
T_Earth_mover_distance_connectivity_constraints_checker (SBL::CADS)
T_Earth_mover_distance_module (SBL::Modules)
T_Earth_mover_distance_transportation_plan (SBL::CADS)
T_Earth_mover_distance_vertices_accessor_graph (SBL::CADS)
T_Earth_mover_distance_vertices_accessor_vector (SBL::CADS)
T_Earth_mover_distance_with_connectivity_constraints (SBL::CADS)
T_Tertiary_quaternary_structure_annotator::Edge_label_writer (SBL::CSB)
T_Edge_product_graph_builder (SBL::CADS)
T_Edge_product_graph_traits (SBL::CADS)
T_Module_based_workflow::Edge_property_label_writer (SBL::Modules)
T_EMD_CC_stat_triple (SBL::CADS)
T_EMD_distance_default (SBL::CADS)
T_EMD_LP_LP_format_writer (SBL::CADS)
T_EMD_LP_MPS_format_writer (SBL::CADS)
Exec_runner (SBL.Binding_affinity_utils)
T_External_distance (SBL::CSB)
Extra_label_traits (SBL::Models)
Extract_shared_PDB_interface (SBL.Multiple_interface_string_alignment)
F
Feature (SBL.Sequence_annotators)
File_data (SBL.Protein_complex_analysis_molecular_data_structures)
T_Frechet_mean_S1 (SBL::GT)
G
Gaussian_Move_Params (SBL::GT)
T_Gaussian_Move_Set (SBL::GT)
T_Gaussian_Move_Set_Controller (SBL::GT)
Gaussian_Move_Set_Traits (SBL::GT)
Gaussian_Move_Stats (SBL::GT)
T_Generic_annotator (SBL::Models)
T_Generic_annotator_without_file (SBL::Models)
Generic_classifier (ESBTL)
Generic_line_selector (ESBTL)
Genetrank_gene_radar (SBL.SBL_Genetrank_gene_radar_scatter_plot)
Genetrank_GeneProteinTranslator (SBL.SBL_Genetrank_gene_to_protein)
Genetrank_network_statistical_analysis (SBL.SBL_Genetrank_network_statistical_analysis)
SBL_PPIN_simulation.Genetrank_simulation_input (SBL)
Genetrank_Translations (SBL.SBL_Genetrank_gene_to_protein)
T_Geodesic_distances_generation (SBL::CADS)
T_Geometric_particle_traits (SBL::Models)
Get_annotator_option_display_name_default (SBL::Models)
Get_annotator_option_help_default (SBL::Models)
Get_annotator_option_name_default (SBL::Models)
T_Delaunay_triangulation_extension_3::Get_area_of_dual_of_edge (SBL::GT)
T_Union_of_balls_boundary_patch_shelling_3::Face_complex_traits::Get_cell_boundary_from_halfedge (SBL::GT)
T_Union_of_balls_boundary_patch_shelling_3::Face_complex_traits::Get_cell_from_face (SBL::GT)
T_Triangulation_extension_3_base::Get_common_facet (SBL::GT)
T_Delaunay_triangulation_extension_3::Get_dual_of_edge (SBL::GT)
T_Delaunay_triangulation_extension_3::Get_dual_of_facet (SBL::GT)
T_Atom_with_flat_info_traits::Get_geometric_representation (SBL::Models)
T_Atom_with_hierarchical_info_and_annotations_traits::Get_geometric_representation (SBL::Models)
T_Atom_with_hierarchical_info_traits::Get_geometric_representation (SBL::Models)
T_Atom_with_flat_info_and_annotations_traits::Get_geometric_representation (SBL::Models)
T_Geometric_particle_traits::Get_geometric_representation (SBL::Models)
T_Pseudo_atom_per_residue_spec_with_flat_info_and_annotations_traits::Get_geometric_representation (SBL::Models)
T_Pseudo_atom_per_residue_spec_with_flat_info_traits::Get_geometric_representation (SBL::Models)
Get_not_annotator_option_name
T_Triangulation_extension_3_base::Get_other_two_edges (SBL::GT)
T_Get_particle_default (SBL::CSB)
T_Delaunay_triangulation_extension_3::Get_squared_length_of_dual_of_facet (SBL::GT)
T_Module_based_workflow::Graph_property_label_writer (SBL::Modules)
T_Greedy_selection (SBL::CADS)
T_Greedy_selection_incremental (SBL::CADS)
Grid_of_cubes (ESBTL)
H
T_Molecular_interface_connected_component_data_structure::Have_labels (SBL::CSB)
T_Hierarchical_labels_forest (SBL::CSB)
Hit_info (SBL.DB_hit_manager)
Hits_manager (SBL.DB_hit_manager)
Hits_manager_no_annotations (SBL.DB_hit_manager)
HMM (SBL.HMMER_Wrapper)
I
T_IG_label_traits (SBL::Models)
IG_label_traits (SBL::Models)
IGAg_label_traits (SBL::Models)
T_Improper_angles_visitor (SBL::CSB)
T_Polypeptide_chain_representation::Incident_atoms_const_iterator (SBL::CSB)
T_Polypeptide_chain_representation::Incident_atoms_iterator (SBL::CSB)
T_Index_wrapper (SBL::IO)
Interface_oneside (SBL.Multiple_interface_string_alignment)
Interface_pool (SBL.Multiple_interface_string_alignment)
Interface_strings (SBL.Multiple_interface_string_alignment)
T_Triangulation_extension_3_base::Is_coface (SBL::GT)
T_Triangulation_extension_3_base::Is_counter_clockwise_oriented (SBL::GT)
T_Spherical_kernel_extension_3::Is_counter_clockwise_oriented (SBL::GT)
T_Union_of_balls_boundary_patch_shelling_3::Face_complex_traits::Is_in_cell_complex (SBL::GT)
T_Spherical_kernel_extension_3::Is_largest_circular_arc_3 (SBL::GT)
T_Alignment_engine::Is_lower_name_pair (SBL::CSB)
Is_product_edge_default (SBL::CADS)
Is_product_vertex_default (SBL::CADS)
T_Iterative_aligner (SBL::CSB)
T_Iterative_aligner_identity (SBL::CSB)
K
K_means_scores (SBL::GT)
T_Kpax (SBL::CSB)
L
Label_selector (SBL.Molecular_cradle_utils_label_selection)
lambda_matrix
T_Least_RMSD_cartesian (SBL::CSB)
T_Least_RMSD_cartesian_3 (SBL::GT)
T_Least_RMSD_cartesian_with_chirality (SBL::CSB)
Line_format (ESBTL::PDB)
Line_reader (ESBTL)
Line_reader_with_info (ESBTL)
Loader_base (SBL::IO)
M
Make_no_annotation_key (SBL::Models)
Mandatory_fields_default (ESBTL::PDB)
T_Alignment_engine::Matrix_function (SBL::CSB)
Matrix_processor (SBL.Molecular_cradle_utils_dendogram)
Max_occupancy_policy (ESBTL)
T_Maximum_clique_finder (SBL::CADS)
T_Maximum_spanning_tree_generator (SBL::CADS)
Maximum_spanning_tree_property (SBL::CADS)
MCI_analysis (SBL.Connectivity_inference_analysis)
MCI_bootstrap (SBL.mcibootstrap_iterative)
MCI_Contact (SBL.Connectivity_inference_data_structures)
MCI_MILP_engine (SBL.Connectivity_inference_engine)
MCI_Oligomers (SBL.Connectivity_inference_data_structures)
MCI_output_preprocessing (SBL.Connectivity_inference_analysis)
MCI_regex (SBL.Connectivity_inference_data_structures)
MCI_set_of_contacts (SBL.Connectivity_inference_data_structures)
MCI_solutions (SBL.Connectivity_inference_data_structures)
MCI_specification (SBL.Connectivity_inference_data_structures)
MCI_string_tools (SBL.Connectivity_inference_data_structures)
T_Mediated_interface_data_structure_base (SBL::CSB)
T_Mediated_interface_oserialization (SBL::CSB)
T_Mediated_interface_oserialization (SBL::Modules)
Min_occupancy_policy (ESBTL)
T_Minimal_oriented_spanning_forest_Boruvka (SBL::CADS)
T_Minimal_oritend_spanning_forest_module
T_Minimizer_Ipopt_parameters_without_constraint (SBL::CSB)
T_Minimizer_parameters_without_constraint (SBL::CSB)
MISA (SBL.Multiple_interface_string_alignment)
MISA_constructor (SBL.Multiple_interface_string_alignment)
MISA_input_specification_parser (SBL.Multiple_interface_string_alignment)
Module_base (SBL::Modules)
Module_based_workflow (SBL::Modules)
T_Module_based_workflow (SBL::Modules)
T_Module_condition (SBL::Modules)
T_Module_conjunction (SBL::Modules)
T_Module_option_description (SBL::Modules)
Modules_collection
Molecular_alignment_default (SBL::CSB)
Molecular_atom (ESBTL)
Molecular_atom (SBL::CSB)
T_Molecular_cartesian_coordinates (SBL::CSB)
Molecular_chain (ESBTL)
Molecular_chain (SBL::CSB)
Molecular_chain_with_SSE (ESBTL)
Molecular_coordinates_utilities (SBL::CSB)
T_Molecular_covalent_structure (SBL::CSB)
T_Molecular_covalent_structure_bond_angle_gradient (SBL::CSB)
T_Molecular_covalent_structure_bond_length_gradient (SBL::CSB)
T_Molecular_covalent_structure_builder_for_protein_martini (SBL::CSB)
T_Molecular_covalent_structure_builder_for_proteins (SBL::CSB)
T_Molecular_covalent_structure_constraints_for_proteins (SBL::CSB)
T_Molecular_covalent_structure_loader (SBL::IO)
T_Molecular_covalent_structure_loader_from_MOL (SBL::IO)
T_Molecular_covalent_structure_loader_from_PDB (SBL::IO)
T_Molecular_covalent_structure_optimal (SBL::CSB)
T_Molecular_covalent_structure_torsion_angle_gradient (SBL::CSB)
T_Molecular_geometric_model_classifier_for_alpha_complex (SBL::CSB)
T_Molecular_interface_connected_component_data_structure (SBL::CSB)
T_Molecular_interface_connected_component_oserialization (SBL::CSB)
T_Molecular_interface_data_structure_base (SBL::CSB)
T_Molecular_interface_oserialization (SBL::CSB)
T_Molecular_interfaces_builder (SBL::CSB)
T_Molecular_interfaces_module (SBL::Modules)
T_Molecular_interfaces_module_statistics (SBL::Modules)
T_Molecular_interfaces_traits (SBL::CSB)
Molecular_model (ESBTL)
Molecular_model (SBL::CSB)
T_Molecular_potential_energy (SBL::CSB)
T_Molecular_potential_energy_bond_angle_gradient_harmonic (SBL::CSB)
T_Molecular_potential_energy_bond_angle_gradient_Urey_Bradley (SBL::CSB)
T_Molecular_potential_energy_bond_angle_term_harmonic (SBL::CSB)
T_Molecular_potential_energy_bond_angle_term_Urey_Bradley (SBL::CSB)
T_Molecular_potential_energy_bond_length_gradient_harmonic (SBL::CSB)
T_Molecular_potential_energy_bond_length_term_harmonic (SBL::CSB)
T_Molecular_potential_energy_bonded_contribution (SBL::CSB)
T_Molecular_potential_energy_cmap_term (SBL::CSB)
T_Molecular_potential_energy_contribution (SBL::CSB)
T_Molecular_potential_energy_electrostatic_gradient (SBL::CSB)
T_Molecular_potential_energy_electrostatic_term (SBL::CSB)
T_Molecular_potential_energy_gradient (SBL::CSB)
T_Molecular_potential_energy_gradient_contribution (SBL::CSB)
T_Molecular_potential_energy_Lennard_Jones_gradient (SBL::CSB)
T_Molecular_potential_energy_Lennard_Jones_term (SBL::CSB)
T_Molecular_potential_energy_numerical_gradient (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_gradient_Fourier (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_gradient_harmonic (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_gradient_in_linear_structure (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_gradient_periodic (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_gradient_Ryckaert_Bellemans (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_in_linear_structure_term (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_term_Fourier (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_term_harmonic (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_term_periodic (SBL::CSB)
T_Molecular_potential_energy_torsion_angle_term_Ryckaert_Bellemans (SBL::CSB)
T_Molecular_primitive_internal_coordinates (SBL::CSB)
Molecular_residue (ESBTL)
Molecular_residue (SBL::CSB)
Molecular_residue_with_SSE (ESBTL)
Molecular_secondary_structure_element (SBL::CSB)
Molecular_secondary_structure_element (ESBTL)
Molecular_SS_bond (SBL::CSB)
Molecular_SS_bond (ESBTL)
T_Molecular_structure_classifier (SBL::CSB)
T_Molecular_structure_classifier_module (SBL::Modules)
T_Molecular_structure_traits (SBL::CSB)
Molecular_system (SBL::CSB)
Molecular_system (ESBTL)
Molecular_system< System_items_with_SSE, Point > (ESBTL)
T_Molecular_system_loader (SBL::IO)
Molecular_view (SBL::IO)
Molecular_view< T_PyMOL_viewer< Dummy >, CGAL::Point_3< K > > (SBL::IO)
Molecular_view< T_PyMOL_viewer< Dummy >, CGAL::Sphere_3< K > > (SBL::IO)
Molecular_view< T_PyMOL_viewer< Dummy >, CGAL::Triple< CGAL::Point_3< K >, CGAL::Point_3< K >, CGAL::Point_3< K > > > (SBL::IO)
Molecular_view< T_PyMOL_viewer< Dummy >, CGAL::Triple< CGAL::Weighted_point< Point, Weight >, CGAL::Weighted_point< Point, Weight >, CGAL::Weighted_point< Point, Weight > > > (SBL::IO)
Molecular_view< T_PyMOL_viewer< Dummy >, CGAL::Weighted_point< Point, Weight > > (SBL::IO)
Molecular_view< T_PyMOL_viewer< Dummy >, std::pair< CGAL::Point_3< K >, CGAL::Point_3< K > > > (SBL::IO)
Molecular_view< T_PyMOL_viewer< Dummy >, std::pair< CGAL::Weighted_point< Point, Weight >, CGAL::Weighted_point< Point, Weight > > > (SBL::IO)
Molecular_view< T_VMD_viewer< Dummy >, CGAL::Point_3< K > > (SBL::IO)
Molecular_view< T_VMD_viewer< Dummy >, CGAL::Sphere_3< K > > (SBL::IO)
Molecular_view< T_VMD_viewer< Dummy >, CGAL::Triple< CGAL::Point_3< K >, CGAL::Point_3< K >, CGAL::Point_3< K > > > (SBL::IO)
Molecular_view< T_VMD_viewer< Dummy >, CGAL::Triple< CGAL::Weighted_point< Point, Weight >, CGAL::Weighted_point< Point, Weight >, CGAL::Weighted_point< Point, Weight > > > (SBL::IO)
Molecular_view< T_VMD_viewer< Dummy >, CGAL::Weighted_point< Point, Weight > > (SBL::IO)
Molecular_view< T_VMD_viewer< Dummy >, std::pair< CGAL::Point_3< K >, CGAL::Point_3< K > > > (SBL::IO)
Molecular_view< T_VMD_viewer< Dummy >, std::pair< CGAL::Weighted_point< Point, Weight >, CGAL::Weighted_point< Point, Weight > > > (SBL::IO)
Molecular_view< Viewer, CGAL::Alpha_shape_3< Dt, ExactAlphaComparisonTag > * > (SBL::IO)
Molecular_view< Viewer, CGAL::Alpha_shape_vertex_base_3< Gt, Vb, ExactAlphaComparisonTag, Weight_tag > > (SBL::IO)
Molecular_view< Viewer, CGAL::Fixed_alpha_shape_3< Dt > * > (SBL::IO)
Molecular_view< Viewer, CGAL::Fixed_alpha_shape_vertex_base_3< Gt, Vb > > (SBL::IO)
Molecular_view< Viewer, CGAL::Regular_triangulation_3< Gt, Tds > * > (SBL::IO)
Molecular_view< Viewer, CGAL::Regular_triangulation_vertex_base_3< Gt, Vb > > (SBL::IO)
Molecular_view< Viewer, CGAL::Triangulation_3< Gt, Tds > * > (SBL::IO)
Molecular_view< Viewer, CGAL::Triangulation_vertex_base_3< Gt, Vb > > (SBL::IO)
Molecular_view< Viewer, CGAL::Triangulation_vertex_base_with_info_3< Info, Gt, Vb > > (SBL::IO)
Molecular_view< Viewer, CGAL::Triple< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Alpha_shape_cell_base_3< Gt, Cb, ExactAlphaComparisonTag, Weight_tag >, Allocator >, Const >, int, int > > (SBL::IO)
Molecular_view< Viewer, CGAL::Triple< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Fixed_alpha_shape_cell_base_3< Gt, Cb >, Allocator >, Const >, int, int > > (SBL::IO)
Molecular_view< Viewer, CGAL::Triple< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Regular_triangulation_cell_base_3< Gt, Cb >, Allocator >, Const >, int, int > > (SBL::IO)
Molecular_view< Viewer, CGAL::Triple< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Triangulation_cell_base_3< Gt, Cb >, Allocator >, Const >, int, int > > (SBL::IO)
Molecular_view< Viewer, std::pair< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Alpha_shape_cell_base_3< Gt, Cb, ExactAlphaComparisonTag, Weight_tag >, Allocator >, Const >, int > > (SBL::IO)
Molecular_view< Viewer, std::pair< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Fixed_alpha_shape_cell_base_3< Gt, Cb >, Allocator >, Const >, int > > (SBL::IO)
Molecular_view< Viewer, std::pair< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Regular_triangulation_cell_base_3< Gt, Cb >, Allocator >, Const >, int > > (SBL::IO)
Molecular_view< Viewer, std::pair< CGAL::internal::CC_iterator< CGAL::Compact_container< CGAL::Triangulation_cell_base_3< Gt, Cb >, Allocator >, Const >, int > > (SBL::IO)
Molecular_view< Viewer, std::pair< const CGAL::Alpha_shape_3< Dt, ExactAlphaComparisonTag > *, typename CGAL::Alpha_shape_3< Dt, ExactAlphaComparisonTag >::Edge > > (SBL::IO)
Molecular_view< Viewer, std::pair< const CGAL::Alpha_shape_3< Dt, ExactAlphaComparisonTag > *, typename CGAL::Alpha_shape_3< Dt, ExactAlphaComparisonTag >::Facet > > (SBL::IO)
Molecular_view< Viewer, std::pair< const CGAL::Fixed_alpha_shape_3< Dt > *, typename CGAL::Fixed_alpha_shape_3< Dt >::Edge > > (SBL::IO)
Molecular_view< Viewer, std::pair< const CGAL::Fixed_alpha_shape_3< Dt > *, typename CGAL::Fixed_alpha_shape_3< Dt >::Facet > > (SBL::IO)
Molecular_view< Viewer, std::pair< const CGAL::Regular_triangulation_3< Gt, Tds > *, typename CGAL::Regular_triangulation_3< Gt, Tds >::Edge > > (SBL::IO)
Molecular_view< Viewer, std::pair< const CGAL::Regular_triangulation_3< Gt, Tds > *, typename CGAL::Regular_triangulation_3< Gt, Tds >::Facet > > (SBL::IO)
T_Morse_Smale_Witten_chain_complex (SBL::GT)
T_Morse_Smale_Witten_chain_complex_from_NNG_builder (SBL::GT)
T_Morse_Smale_Witten_chain_complex_from_vertex_weighted_graph_builder (SBL::GT)
T_Morse_Smale_Witten_chain_complex_from_weighted_graph_builder (SBL::GT)
T_Morse_theory_based_analyzer (SBL::GT)
T_Morse_theory_based_analyzer_for_NNG_module (SBL::Modules)
T_Morse_theory_based_analyzer_for_vertex_weighted_graph_module (SBL::Modules)
T_Morse_theory_based_analyzer_for_weighted_graph_module (SBL::Modules)
T_Morse_theory_based_analyzer_module (SBL::Modules)
T_Moveset_atomic (SBL::Models)
T_Moveset_global (SBL::Models)
T_Moveset_interpolation (SBL::Models)
T_Multiple_archives_serialization_xml_iarchive (SBL::IO)
T_Multiple_archives_serialization_xml_oarchive (SBL::IO)
T_Multiple_archives_xml_archive_file_loader (SBL::IO)
T_Multiple_sequence_alignment_DS (SBL::CSB)
T_Multiple_sequence_alignment_DS_filtered (SBL::CSB)
N
T_Name_and_radius_annotations (SBL::Models)
Name_and_radius_of_atom (ESBTL)
T_Name_annotator_for_atoms (SBL::Models)
Name_annotator_for_atoms_setter_default (SBL::Models)
T_Name_annotator_for_pseudo_atoms (SBL::Models)
Name_annotator_for_pseudo_atoms_setter_default (SBL::Models)
Name_of_pair (ESBTL)
NCBI_wrapper (SBL.DB_manipulators)
Nearest_neighbors_graph_builder (SBL::GT)
T_Nearest_neighbors_graph_builder_module (SBL::Modules)
Nearest_neighbors_graph_builder_with_edge_weight (SBL::GT)
T_Maximum_spanning_tree_generator::Negative_graph_vertex_property (SBL::CADS)
T_NN_linear_scan (SBL::GT)
T_NN_metric_tree (SBL::GT)
No_label_traits (SBL::Models)
No_occupancy_policy (ESBTL)
No_Overstep_Cone_Move_Params (SBL::GT)
T_No_Overstep_Cone_Move_Set (SBL::GT)
T_No_Overstep_Cone_Move_Set_Controller (SBL::GT)
No_Overstep_Cone_Move_Set_Traits (SBL::GT)
No_Overstep_Cone_Move_Stats (SBL::GT)
No_Overstep_Move_Params (SBL::GT)
T_No_Overstep_Move_Set (SBL::GT)
T_No_Overstep_Move_Set_Controller (SBL::GT)
No_Overstep_Move_Set_Traits (SBL::GT)
No_Overstep_Move_Stats (SBL::GT)
No_particle_annotator (SBL::Models)
Not_functor (ESBTL)
T_Numbers_file_loader (SBL::IO)
O
One_label_traits (SBL::Models)
Or_functors (ESBTL)
T_Ordered_forest_edit_distance (SBL::CADS)
T_Spherical_kernel_extension_3::Orientation_with_roots_3 (SBL::GT)
Overall_default_anaysis (SBL.Combinations_of_variables_model_evaluation)
P
Pairwise_contacts_for_polypeptide_chain (SBL::CSB)
PALSE_DS_manipulator (SBL.PALSE)
PALSE_statistic_handle (SBL.PALSE)
PALSE_xml_DB (SBL.PALSE)
parameters
T_Particle_annotator_collector (SBL::Models)
T_Particle_info_for_proteins (SBL::CSB)
T_Particle_info_traits (SBL::CSB)
T_Particle_vertex_base (SBL::CSB)
T_Particle_with_annotations (SBL::Models)
T_Particle_with_annotations_traits (SBL::Models)
T_Particle_with_system_label (SBL::Models)
T_Particle_with_system_label_traits (SBL::Models)
PDB_complex_to_unbound_partners_matcher (SBL.PDB_complex_to_unbound_partners_matchings)
T_PDB_file_loader (SBL::Models)
PDB_line_selector (ESBTL)
PDB_line_selector_chain (ESBTL)
PDB_line_selector_two_systems (ESBTL)
Per_model_binding_affinity_analysis (SBL.Combinations_of_variables_model_evaluation)
Per_model_default_analysis (SBL.Combinations_of_variables_model_evaluation)
T_Phi_psi_dihedral_angles_visitor (SBL::CSB)
Phobius_annotator (SBL.Sequence_annotators)
Plot_tools (SBL.Multiple_interface_string_alignment)
Point_3 (ESBTL)
T_Point_cloud_rigid_registration_3 (SBL::GT)
T_Points_d_file_loader (SBL::Models)
T_Polynomial_solver_interface (SBL::CSB)
T_Polypeptide_chain_contacts_finder (SBL::CSB)
T_Polypeptide_chain_representation (SBL::CSB)
SBL_PPIN_application.PPIN_application (SBL)
SBL_PPIN_gene_radar_scatter_plot.PPIN_gene_radar_scatter_plot (SBL)
SBL_PPIN_simulation_statistics.PPIN_multiple_simulation_statistics (SBL)
SBL_PPIN_simulation.PPIN_simulation (SBL)
SBL_PPIN_simulation.PPIN_simulation_result (SBL)
SBL_PPIN_simulation_statistics.PPIN_simulation_statistics (SBL)
SBL_PPIN_simulation_statistics.PPIN_simulation_visualizations (SBL)
Extra_label_traits::Primitive_label_classifier (SBL::Models)
Water_label_traits::Primitive_label_classifier (SBL::Models)
No_label_traits::Primitive_label_classifier (SBL::Models)
One_label_traits::Primitive_label_classifier (SBL::Models)
T_AB_label_traits::Primitive_label_classifier (SBL::Models)
T_IGAg_label_traits::Primitive_label_classifier (SBL::Models)
T_IG_label_traits::Primitive_label_classifier (SBL::Models)
T_Domain_label_traits::Primitive_label_classifier (SBL::Models)
T_Chain_label_traits::Primitive_label_classifier (SBL::Models)
T_Primitive_labels_loader (SBL::IO)
problem
T_Product_graph_builder (SBL::CADS)
T_Protein_representation (SBL::CSB)
T_Protein_representation_loader (SBL::IO)
T_Pseudo_atom_per_residue_spec_with_flat_info (SBL::Models)
T_Pseudo_atom_per_residue_spec_with_flat_info_and_annotations_traits (SBL::Models)
T_Pseudo_atom_per_residue_spec_with_flat_info_traits (SBL::Models)
PyMOL_viewer (SBL::IO)
T_PyMOL_viewer (SBL::IO)
Python_dico_vs_XML_Etree (SBL.PALSE)
R
T_Radius_annotator_for_particles_with_annotated_name (SBL::Models)
Radius_annotator_for_particles_with_annotated_name_setter_default (SBL::Models)
Radius_of_atom (ESBTL)
Radius_of_coarse_atom (ESBTL)
T_Random_spanning_tree_generator (SBL::CADS)
T_Random_spanning_tree_property (SBL::CADS)
T_Real_value_function_minimizer (SBL::CSB)
T_Real_value_function_minimizer_Ipopt (SBL::CSB)
T_Real_value_function_minimizer_LBFGS (SBL::CSB)
T_Particle_vertex_base::Rebind_TDS (SBL::CSB)
T_Polypeptide_chain_representation::Residue_atoms_const_iterator (SBL::CSB)
T_Polypeptide_chain_representation::Residue_atoms_iterator (SBL::CSB)
Residue_contact_data (SBL.Protein_complex_analysis_molecular_data_structures)
Residue_data (SBL.Protein_complex_analysis_molecular_data_structures)
Residue_mapping (SBL.Multiple_interface_string_alignment)
ResSelector (SBL.Multiple_interface_string_alignment)
T_RMSD_cartesian_3 (SBL::GT)
T_RMSD_comb_edge_weighted (SBL::CSB)
T_RMSD_comb_edge_weighted_module (SBL::Modules)
T_Wang_Landau::Roll_Back_Restoration_Point (SBL::GT)
T_Rotation_3 (SBL::GT)
S
SBL_init_tools (SBL)
T_Score_computer_K (SBL::CSB)
T_Seeder_basic (SBL::CSB)
T_Seeder_DP_score (SBL::CSB)
Select_by_atmname (ESBTL)
Select_by_chainids (ESBTL)
Select_by_element (ESBTL)
Select_by_resname (ESBTL)
Selected_atom_iterator (ESBTL)
Set_dynamic_annotation_default (SBL::Models)
T_Shelling_diagram_vertex_property (SBL::CADS)
T_Spanning_tree_solver (SBL::CADS)
T_Spatial_search_module (SBL::Modules)
T_Spectral_clustering (SBL::GT)
T_Spheres_3_file_loader (SBL::Models)
T_Spherical_kernel_extension_3 (SBL::GT)
T_Splitter_default (SBL::GT)
T_Squared_angular_internal_distance (SBL::CSB)
T_Squared_Least_RMSD_cartesian_3 (SBL::GT)
T_Squared_RMSD_cartesian_3 (SBL::GT)
T_Squared_RMSD_internal_distance (SBL::CSB)
SSE_color_engine (SBL.Multiple_interface_string_alignment)
SSE_coloring_parser (SBL.Multiple_interface_string_alignment)
T_Stable_manifold_as_list_traits (SBL::GT)
T_Sub_graph (SBL::CADS)
T_Sub_graph::Sub_vertex_property (SBL::CADS)
System_items_with_coarse_grain (SBL::CSB)
System_items_with_coarse_grain (ESBTL)
System_items_with_SSE (ESBTL)
T_Particle_with_system_label::System_label (SBL::Models)
System_updater_from_xdrfile (ESBTL)
T
T_Tertiary_quaternary_structure_annotator (SBL::CSB)
T_Tertiary_quaternary_structure_annotator_module (SBL::Modules)
T_TLC_polynomial_roots_to_embedings (SBL::CSB)
Traits_for_grid (ESBTL)
T_Transition_graph_loader (SBL::IO)
T_Transition_graph_traits_compressed (SBL::CSB)
T_Transition_graph_traits_standard (SBL::CSB)
Transmembrane_filter (SBL.Sequence_filters)
T_Tree (SBL::CADS)
T_Tree_solver (SBL::CADS)
T_Triangulation_extension_3 (SBL::GT)
T_Triangulation_extension_3_base (SBL::GT)
T_Triangulation_of_molecular_model (SBL::CSB)
T_Tricolor_interface_data_structure_base (SBL::CSB)
T_Tricolor_interface_oserialization (SBL::CSB)
T_Tricolor_interface_oserialization (SBL::Modules)
T_Tripeptide_anchors (SBL::CSB)
T_Tripeptide_constraints (SBL::CSB)
T_Tripeptide_constraints_to_polynomial (SBL::CSB)
T_Tripeptide_loop_closure (SBL::CSB)
U
T_Unbonded_particles_visitor (SBL::CSB)
T_Unbonded_particles_with_threshold_visitor (SBL::CSB)
T_Union_find_base (SBL::CADS)
T_Union_find_contains (SBL::CADS)
T_Union_find_contains_with_map (SBL::CADS)
Union_find_default (SBL::CADS)
T_Union_find_specializes (SBL::CADS)
Union_find_vertex_data_structure_base (SBL::CADS)
T_Union_find_vertex_data_structure_contains (SBL::CADS)
T_Union_find_vertex_data_structure_specializes (SBL::CADS)
T_Union_of_balls_boundary_3_builder (SBL::GT)
T_Union_of_balls_boundary_3_data_structure (SBL::GT)
T_Union_of_balls_boundary_3_face (SBL::GT)
T_Union_of_balls_boundary_3_half_edge (SBL::GT)
T_Union_of_balls_boundary_3_item_info (SBL::GT)
T_Union_of_balls_boundary_3_items (SBL::GT)
T_Union_of_balls_boundary_3_module (SBL::Modules)
T_Union_of_balls_boundary_3_side (SBL::GT)
T_Union_of_balls_boundary_3_vertex (SBL::GT)
T_Union_of_balls_boundary_patch_shelling_3 (SBL::GT)
T_Union_of_balls_boundary_patch_shelling_3_module (SBL::Modules)
T_Union_of_balls_epsilon_mesh_3 (SBL::GT)
T_Union_of_balls_medial_axis_3_builder (SBL::GT)
T_Union_of_balls_medial_axis_3_data_structure (SBL::GT)
T_Union_of_balls_medial_axis_3_face (SBL::GT)
T_Union_of_balls_medial_axis_3_halfedge (SBL::GT)
T_Union_of_balls_medial_axis_3_items (SBL::GT)
T_Union_of_balls_medial_axis_3_vertex (SBL::GT)
T_Union_of_balls_mesh_3_module (SBL::Modules)
T_Union_of_balls_surface_volume_3_module::Union_of_balls_surface_volume_3 (SBL::Modules)
T_Union_of_balls_surface_volume_3 (SBL::GT)
T_Union_of_balls_surface_volume_3_module (SBL::Modules)
Uniprot_wrapper (SBL.DB_manipulators)
T_Unit_system_traits_AKMA (SBL::Models)
T_Unit_system_traits_for_potential_energy (SBL::Models)
T_Unit_system_traits_none_AKMA (SBL::Models)
T_Unit_system_traits_none_MD (SBL::Models)
V
T_Triangulation_extension_3_base::T_Vertex_handle_with_order (SBL::GT)
T_Tertiary_quaternary_structure_annotator::Vertex_label_writer (SBL::CSB)
T_Vertex_product_graph_builder (SBL::CADS)
T_Vertex_product_graph_traits (SBL::CADS)
T_RMSD_comb_edge_weighted::Vertex_property (SBL::CSB)
T_Module_based_workflow::Vertex_property_label_writer (SBL::Modules)
VMD_viewer (SBL::IO)
W
T_Wang_Landau (SBL::GT)
Water_label_traits (SBL::Models)
Weight_of_atoms (ESBTL)
Weighted_atom_iterator (ESBTL)
T_WL_Data_Structure_Internal (SBL::GT)
T_WL_Data_Structure_MS (SBL::GT)
T_Wang_Landau::WL_DS_Interface (SBL::GT)
WL_histo_change_measure (SBL::GT)
T_WL_Simulation (SBL::GT)
T_WL_Simulation_Gaussian (SBL::GT)
T_WL_Simulation_No_Overstep (SBL::GT)
WL_stats_serializer (SBL::GT)
X
T_XTC_file_loader (SBL::Models)