| ab_info_ | protocols::antibody::AntibodyFeatures | private |
| ag_ab_atomic_contacts_ | protocols::antibody::AntibodyFeatures | private |
| AntibodyFeatures() | protocols::antibody::AntibodyFeatures | |
| AntibodyFeatures(AntibodyInfoOP ab_info) | protocols::antibody::AntibodyFeatures | |
| AntibodyFeatures(AntibodyInfoOP ab_info, core::scoring::ScoreFunctionCOP scorefxn) | protocols::antibody::AntibodyFeatures | |
| calculate_cdr_aromatic_nres(const core::pose::Pose &pose, CDRNameEnum const cdr) | protocols::antibody::AntibodyFeatures | private |
| calculate_cdr_contacts_nres(const core::pose::Pose &pose, CDRNameEnum const cdr) | protocols::antibody::AntibodyFeatures | private |
| calculate_cdr_contacts_total(const core::pose::Pose &pose, CDRNameEnum const cdr) | protocols::antibody::AntibodyFeatures | private |
| calculate_cdr_dpSASA(CDRNameEnum const cdr) | protocols::antibody::AntibodyFeatures | private |
| calculate_cdr_totals(CDRNameEnum const cdr, const core::pose::Pose &pose, const utility::vector1< core::Real > &data) const | protocols::antibody::AntibodyFeatures | private |
| calculate_residue_atomic_contacts(const core::pose::Pose &pose, const utility::vector1< bool > &residues_to_match, const utility::vector1< bool > &antigen_residues) | protocols::antibody::AntibodyFeatures | private |
| chains_exist_in_pose(core::pose::Pose const &pose, std::string const &interface) const | protocols::features::InterfaceFeatures | protected |
| check_relevant_residues(utility::vector1< bool > const &relevant_residues, core::Size res1) const | protocols::features::FeaturesReporter | |
| check_relevant_residues(utility::vector1< bool > const &relevant_residues, core::Size res1, core::Size res2) const | protocols::features::FeaturesReporter | |
| check_relevant_residues(utility::vector1< bool > const &relevant_residues, utility::vector1< core::Size > const &residues) const | protocols::features::FeaturesReporter | |
| check_relevant_residues_range(utility::vector1< bool > const &relevant_residues, core::Size res1, core::Size res2) const | protocols::features::FeaturesReporter | |
| class_name() | protocols::antibody::AntibodyFeatures | static |
| compute_packstat_ | protocols::features::InterfaceFeatures | protected |
| definition_ | protocols::antibody::AntibodyFeatures | private |
| delete_record(StructureID, utility::sql_database::sessionOP) | protocols::features::FeaturesReporter | inlinevirtual |
| delete_records_from_table(std::string const &table_name, StructureID struct_id, utility::sql_database::sessionOP db_session) | protocols::features::FeaturesReporter | protected |
| dSASA_cutoff_ | protocols::features::InterfaceFeatures | protected |
| features_reporter_dependencies() const override | protocols::features::InterfaceFeatures | virtual |
| FeaturesReporter() | protocols::features::FeaturesReporter | inline |
| find_tag(core::pose::Pose const &pose) const | protocols::features::FeaturesReporter | protected |
| get_relevant_residues_mode() const | protocols::features::FeaturesReporter | |
| include_proto_cdr4_ | protocols::antibody::AntibodyFeatures | private |
| interface_analyzer_ | protocols::features::InterfaceFeatures | protected |
| interface_data_ | protocols::antibody::AntibodyFeatures | private |
| interface_data_res_ | protocols::antibody::AntibodyFeatures | private |
| interface_exists(utility::vector1< std::string > &interfaces, std::string &dock_chains) const | protocols::features::InterfaceFeatures | protected |
| InterfaceFeatures() | protocols::features::InterfaceFeatures | |
| InterfaceFeatures(core::scoring::ScoreFunctionCOP scorefxn) | protocols::features::InterfaceFeatures | |
| interfaces_ | protocols::features::InterfaceFeatures | protected |
| intermediate_interfaces_ | protocols::antibody::AntibodyFeatures | private |
| load_into_pose(utility::sql_database::sessionOP, StructureID, core::pose::Pose &) | protocols::features::FeaturesReporter | inlinevirtual |
| make_interface_combos(core::pose::Pose const &pose, utility::vector1< std::string > &interfaces) | protocols::features::InterfaceFeatures | |
| pack_separated_ | protocols::features::InterfaceFeatures | protected |
| pack_together_ | protocols::features::InterfaceFeatures | protected |
| paratope_charge_ | protocols::antibody::AntibodyFeatures | private |
| paratope_sasa_ | protocols::antibody::AntibodyFeatures | private |
| parse_my_tag(utility::tag::TagCOP tag, basic::datacache::DataMap &data) override | protocols::antibody::AntibodyFeatures | virtual |
| provide_xml_schema(utility::tag::XMLSchemaDefinition &xsd) | protocols::antibody::AntibodyFeatures | static |
| regenerate_abinfo_ | protocols::antibody::AntibodyFeatures | private |
| relevant_residues_mode_ | protocols::features::FeaturesReporter | protected |
| report_ab_H3_kink_metrics_features(core::pose::Pose const &pose, features::StructureID struct_id, utility::sql_database::sessionOP db_session) | protocols::antibody::AntibodyFeatures | |
| report_ab_metrics_features(core::pose::Pose const &pose, features::StructureID struct_id, utility::sql_database::sessionOP db_session) | protocols::antibody::AntibodyFeatures | |
| report_all_interface_features(core::pose::Pose const &pose, utility::vector1< bool > const &relevant_residues, StructureID struct_id, utility::sql_database::sessionOP db_session, std::string const &interface, std::string const &db_interface) | protocols::features::InterfaceFeatures | virtual |
| report_cdr_metrics_features(core::pose::Pose const &pose, features::StructureID struct_id, utility::sql_database::sessionOP db_session, CDRNameEnum const &cdr) | protocols::antibody::AntibodyFeatures | |
| report_cdr_residue_features(core::pose::Pose const &pose, features::StructureID struct_id, utility::sql_database::sessionOP db_session, CDRNameEnum const &cdr, utility::vector1< bool > const &relevant_residues) | protocols::antibody::AntibodyFeatures | |
| report_cdr_residue_features_row(core::pose::Pose const &pose, features::StructureID struct_id, utility::sql_database::sessionOP db_session, CDRNameEnum const &cdr, core::Size resnum, core::Size position) | protocols::antibody::AntibodyFeatures | |
| report_features(core::pose::Pose const &pose, utility::vector1< bool > const &relevant_residues, features::StructureID struct_id, utility::sql_database::sessionOP db_session) override | protocols::antibody::AntibodyFeatures | virtual |
| protocols::features::FeaturesReporter::report_features(core::pose::Pose const &, StructureID, utility::sql_database::sessionOP) | protocols::features::FeaturesReporter | |
| report_interface_features(core::pose::Pose const &pose, StructureID struct_id, utility::sql_database::sessionOP db_session, std::string const &chains_side1, std::string const &chains_side2) const | protocols::features::InterfaceFeatures | virtual |
| report_interface_residue_features(core::pose::Pose const &pose, utility::vector1< bool > const &relevant_residues, StructureID struct_id, utility::sql_database::sessionOP db_session, std::string const &chains_side1, std::string const &chains_side2) const | protocols::features::InterfaceFeatures | virtual |
| report_interface_side_features(core::pose::Pose const &pose, StructureID struct_id, utility::sql_database::sessionOP db_session, std::string const &chains_side1, std::string const &chains_side2, protocols::analysis::InterfaceRegion region, std::string const ®ion_string) const | protocols::features::InterfaceFeatures | virtual |
| schema() const | protocols::features::FeaturesReporter | inlinevirtual |
| scheme_ | protocols::antibody::AntibodyFeatures | private |
| scorefxn_ | protocols::features::InterfaceFeatures | protected |
| set_ab_info(AntibodyInfoOP ab_info) | protocols::antibody::AntibodyFeatures | |
| set_compute_packstat(bool const compute_packstat) | protocols::features::InterfaceFeatures | |
| set_defaults() | protocols::features::InterfaceFeatures | |
| set_dSASA_cutoff(core::Real dSASA_cutoff) | protocols::features::InterfaceFeatures | |
| set_interface_chains(utility::vector1< std::string > const &intermediate_interfaces) override | protocols::antibody::AntibodyFeatures | virtual |
| set_pack_separated(bool const pack_separated) | protocols::features::InterfaceFeatures | |
| set_pack_together(bool const pack_together) | protocols::features::InterfaceFeatures | |
| set_relevant_residues_mode(RelevantResiduesMode::T setting) | protocols::features::FeaturesReporter | |
| set_scorefxn(core::scoring::ScoreFunctionOP scorefxn) | protocols::features::InterfaceFeatures | |
| skip_antigen_reports_ | protocols::antibody::AntibodyFeatures | private |
| type_name() const override | protocols::antibody::AntibodyFeatures | virtual |
| write_ab_H3_kink_metrics_schema_to_db(utility::sql_database::sessionOP db_session) const | protocols::antibody::AntibodyFeatures | |
| write_ab_metrics_schema_to_db(utility::sql_database::sessionOP db_session) const | protocols::antibody::AntibodyFeatures | |
| write_cdr_metrics_schema_to_db(utility::sql_database::sessionOP db_session) const | protocols::antibody::AntibodyFeatures | |
| write_cdr_residue_schema_to_db(utility::sql_database::sessionOP db_session) const | protocols::antibody::AntibodyFeatures | |
| write_interface_residues_schema_to_db(utility::sql_database::sessionOP db_session) const | protocols::features::InterfaceFeatures | virtual |
| write_interface_schema_to_db(utility::sql_database::sessionOP db_session) const | protocols::features::InterfaceFeatures | virtual |
| write_interface_side_schema_to_db(utility::sql_database::sessionOP db_session) const | protocols::features::InterfaceFeatures | virtual |
| write_schema_to_db(utility::sql_database::sessionOP db_session) const override | protocols::antibody::AntibodyFeatures | virtual |
| ~FeaturesReporter() override | protocols::features::FeaturesReporter | |
| ~InterfaceFeatures() override | protocols::features::InterfaceFeatures | |
1.8.7