Here is a list of all class members with links to the classes they belong to:

- h -

• h : protocols::sic_dock::Rose
• h1() : protocols::fldsgn::topology::HelixPairing
• h1_ : protocols::sic_dock::SICFast , protocols::fldsgn::topology::HelixPairing
• H1_t_name_ : protocols::antibody2::Ab_TemplateInfo
• H1_t_pose_ : protocols::antibody2::Ab_TemplateInfo
• h2() : protocols::fldsgn::topology::HelixPairing
• h2_ : protocols::fldsgn::topology::HelixPairing , protocols::sic_dock::SICFast
• H2_t_name_ : protocols::antibody2::Ab_TemplateInfo
• H2_t_pose_ : protocols::antibody2::Ab_TemplateInfo
• h2o_hbond_score_1way() : core::scoring::WaterAdductHBondPotential
• H3_base_library : protocols::antibody::CDRH3Modeler
• H3_base_library_ : protocols::antibody::AntibodyModeler , protocols::antibody2::H3CterInsert
• h3_cter_insert_mover_ : protocols::antibody2::ModelCDRH3
• H3_filter_ : protocols::antibody::CDRH3Modeler , protocols::antibody2::H3PerturbCCD , protocols::antibody2::H3RefineCCD , protocols::antibody2::RefineOneCDRLoop
• h3_filter_ : protocols::antibody2::AntibodyModelerProtocol
• h3_filter_tolerance_ : protocols::antibody2::AntibodyModelerProtocol
• h3_flank_ : protocols::antibody::CDRH3Modeler
• h3_fraction_ : protocols::antibody2::H3PerturbCCD
• h3_no_stem_graft_ : protocols::antibody2::GraftCDRLoopsProtocol
• h3_perturb_ccd_build_ : protocols::antibody2::ModelCDRH3
• h3_perturb_type_ : protocols::antibody2::AntibodyModelerProtocol
• h3_random_cut_ : protocols::antibody::CDRH3Modeler
• h3_refine_type_ : protocols::antibody2::AntibodyModelerProtocol
• h3_stem_not_graft_ : protocols::antibody2::GraftOneCDRLoop
• h3_stem_off() : protocols::antibody2::GraftOneCDRLoop
• H3_t_name_ : protocols::antibody2::Ab_TemplateInfo
• H3_t_pose_ : protocols::antibody2::Ab_TemplateInfo
• H3_ter_library_filename_ : protocols::antibody2::H3CterInsert
• H3CterInsert() : protocols::antibody2::H3CterInsert
• H3PerturbCCD() : protocols::antibody2::H3PerturbCCD
• H3RefineCCD() : protocols::antibody2::H3RefineCCD
• H5_prime_mode_ : core::scoring::rna::chemical_shift::RNA_ChemicalShiftPotential
• h_ : core::scoring::saxs::DistanceHistogram
• H_atom_id() : protocols::match::upstream::UpstreamResTypeGeometry
• H_atom_id_ : protocols::match::upstream::UpstreamResTypeGeometry
• h_deriv : core::scoring::hbonds::HBondDerivs
• H_mult_ : protocols::frag_picker::scores::TalosSSSimilarity
• H_pos() : protocols::match::upstream::ProteinBackboneBuildPoint
• H_pos_ : protocols::match::upstream::ProteinBackboneBuildPoint
• h_type : core::scoring::orbitals::OrbitalsLookup
• HA_atom_id() : protocols::match::upstream::UpstreamResTypeGeometry
• HA_atom_id_ : protocols::match::upstream::UpstreamResTypeGeometry
• HA_pos() : protocols::match::upstream::ProteinBackboneBuildPoint
• HA_pos_ : protocols::match::upstream::ProteinBackboneBuildPoint
• hack_assemble_next_loop_combination() : protocols::enzdes::EnzdesFlexBBProtocol
• hack_fillup_frag_designabilities() : protocols::enzdes::EnzdesFlexibleRegion
• HackAroEnergy() : core::scoring::hackaro::HackAroEnergy
• hackelec_die() : core::scoring::methods::EnergyMethodOptions
• hackelec_die_ : core::scoring::methods::EnergyMethodOptions
• hackelec_max_dis() : core::scoring::methods::EnergyMethodOptions
• hackelec_max_dis_ : core::scoring::methods::EnergyMethodOptions
• hackelec_min_dis() : core::scoring::methods::EnergyMethodOptions
• hackelec_min_dis_ : core::scoring::methods::EnergyMethodOptions
• hackelec_no_dis_dep_die() : core::scoring::methods::EnergyMethodOptions
• hackelec_no_dis_dep_die_ : core::scoring::methods::EnergyMethodOptions
• hackelec_weight() : core::scoring::hackelec::HackElecEnergy
• HackElecEnergy() : core::scoring::hackelec::HackElecEnergy
• HackElecEnergyAroAll() : core::scoring::hackelec::HackElecEnergyAroAll
• HackElecEnergyAroAro() : core::scoring::hackelec::HackElecEnergyAroAro
• Hairpin() : core::scoring::Hairpin
• hairpin_killing_score() : core::scoring::SecondaryStructurePotential
• hairpin_list_ : core::scoring::Hairpins
• Hairpins() : core::scoring::Hairpins
• hairpins() : core::scoring::SS_Killhairpins_Info
• hairpins_ : core::scoring::SS_Killhairpins_Info
• half_bin_width_root_three_ : protocols::match::Bool3DGrid
• half_width_ : core::scoring::constraints::LinearPenaltyFunction
• halfdimprods_ : protocols::match::Bool3DGrid
• halfdimsizes_ : protocols::match::Bool3DGrid
• HamiltonianExchange() : protocols::canonical_sampling::HamiltonianExchange
• hamiltonians_ : protocols::canonical_sampling::HamiltonianExchange
• handedness_score_ : protocols::simple_filters::SheetFilter
• handedness_score_flag_ : core::scoring::SecondaryStructureWeights
• handle_bumped_recent_history_state_for_node() : core::pack::interaction_graph::LinearMemEdge , core::pack::interaction_graph::SymmLinearMemEdge , core::pack::interaction_graph::SymmMinimalistEdge
• handle_function_expression() : protocols::optimize_weights::WrappedOptEExpressionCreator , protocols::pack_daemon::VectorExpressionCreator , protocols::pack_daemon::EntityFuncExpressionCreator
• handle_interrupt() : protocols::jd2::archive::MPIArchiveJobDistributor , protocols::jd2::FileSystemJobDistributor , protocols::jd2::JobDistributor , protocols::jd2::MPIFileBufJobDistributor , protocols::jd2::MPIMultiCommJobDistributor , protocols::jd2::MPIWorkPartitionJobDistributor , protocols::jd2::MPIWorkPoolJobDistributor , protocols::jd2::ShuffleFileSystemJobDistributor
• handle_variable_expression() : protocols::optimize_weights::WrappedOptEExpressionCreator , protocols::pack_daemon::VectorExpressionCreator , protocols::pack_daemon::EntityFuncExpressionCreator
• handles() : core::coarse::CoarseEtable
• handshake_stub_sets() : protocols::hotspot_hashing::HotspotStubSet
• hard_crossover() : core::scoring::etable::etrie::TrieCountPairGeneric
• hard_crossover_ : core::scoring::etable::etrie::TrieCountPairGeneric
• hard_scorefxn_ : protocols::ligand_docking::LigandBaseProtocol
• harmonic_ca_cst_std_dev : protocols::simple_moves::ShakeStructureMover
• HarmonicFunc() : core::scoring::constraints::HarmonicFunc
• Haro_index() : core::chemical::ResidueType , core::conformation::Residue
• Haro_index_ : core::chemical::ResidueType
• Haro_scOrbH : core::scoring::orbitals::OrbitalsLookup
• has() : core::chemical::ResidueType , core::coarse::RuleSet , core::coarse::TranslatorSet , core::conformation::Residue , core::id::BondID , core::id::AtomID_Map< T > , core::kinematics::AtomTree , core::pack::rotamer_set::RotamerLinks , core::scoring::constraints::ResidueConstraints , protocols::abinitio::StructureStore , protocols::loops::Loops , protocols::moves::DataMap , protocols::noesy_assign::PeakAssignmentResidueMap
• has_algorithm() : protocols::match::upstream::BuildSet
• has_another_pose() : core::import_pose::pose_stream::ExtendedPoseInputStream , core::import_pose::pose_stream::LazySilentFilePoseInputStream , core::import_pose::pose_stream::MetaPoseInputStream , core::import_pose::pose_stream::PDBPoseInputStream , core::import_pose::pose_stream::PoseInputStream , core::import_pose::pose_stream::SilentFilePoseInputStream , protocols::swa::InputStreamWithResidueInfo
• has_another_rotamer() : protocols::swa::rna::StepWiseRNA_RotamerGenerator , protocols::swa::rna::StepWiseRNA_RotamerGenerator_Wrapper
• has_another_sample() : protocols::swa::protein::StepWiseProteinFragmentSampleGenerator , protocols::swa::protein::StepWiseProteinJumpSampleGenerator , protocols::swa::protein::StepWiseProteinMainChainSampleGenerator , protocols::swa::StepWiseCombineSampleGenerator , protocols::swa::StepWiseDoNothingSampleGenerator , protocols::swa::StepWiseIdentitySampleGenerator , protocols::swa::StepWisePoseCombineSampleGenerator , protocols::swa::StepWisePoseSampleGenerator
• has_atom() : core::chemical::AtomTypeSet , protocols::frag_picker::CSTalosIO , protocols::frag_picker::scores::AtomBasedConstraintsScore
• has_atom_info() : core::kinematics::Edge
• has_atom_name() : core::chemical::ResidueType
• has_behavior() : core::pack::task::ResidueLevelTask , core::pack::task::PackerTask , core::pack::task::ResidueLevelTask_ , core::pack::task::PackerTask_
• has_bulge() : protocols::fldsgn::topology::StrandPairing
• has_bulge_ : protocols::fldsgn::topology::StrandPairing
• has_C_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_CA_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_cache() : core::scoring::methods::PBLifetimeCache
• has_CB_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_chainbreak() : core::util::ChainbreakUtil
• has_chainbreaks_to_close() : protocols::topology_broker::TopologyBroker
• has_chemical_shifts() : protocols::frag_picker::VallResidue
• has_child_ : protocols::canonical_sampling::mc_convergence_checks::HPool_RMSD
• has_comment() : core::io::silent::SilentStruct
• has_common_pairing() : core::scoring::dssp::StrandPairing
• has_constraints : protocols::forge::remodel::LineObject , core::scoring::constraints::ConstraintSet , protocols::abinitio::Template
• has_coordinates() : core::fragment::BBTorsionSRFD
• has_coords_ : core::fragment::BBTorsionSRFD
• has_dependencies() : protocols::forge::build::BuildInstruction
• has_design_info_ : protocols::forge::remodel::RemodelData
• has_dof() : core::conformation::symmetry::SymDof , core::pose::Pose
• has_dof_constraints() : core::scoring::constraints::ConstraintSet
• has_domain() : protocols::toolbox::AllowInsert
• has_energy() : core::io::silent::SilentStruct
• has_entry() : protocols::frag_picker::CSTalosIO , protocols::frag_picker::PhiPsiTalosIO
• has_evaluator() : protocols::jd2::archive::EvaluatedArchive
• has_exclude_residues_vector() : protocols::scoring::methods::pcs::PCS_Energy_parameters_manager
• has_exclude_residues_vector_changed() : protocols::scoring::methods::pcs::PCS_Energy_parameters_manager
• has_exocyclic_linkage() : core::chemical::carbohydrates::CarbohydrateInfo
• has_exocyclic_linkage_ : core::chemical::carbohydrates::CarbohydrateInfo
• has_extra_parameter() : core::chemical::AtomTypeSet
• has_finished() : protocols::jd2::archive::Batch
• has_finished_ : protocols::jd2::archive::Batch
• has_H_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_HA_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_ideal_geometry() : protocols::simple_moves::MinimalRotamer
• has_incomplete_connection() : core::conformation::Residue
• has_intra_residue_constraints() : core::scoring::constraints::ConstraintSet
• has_key_ : protocols::frag_picker::VallChunk
• has_label() : protocols::noesy_assign::CrossPeak , protocols::noesy_assign::CrossPeak3D , protocols::noesy_assign::CrossPeak4D , protocols::noesy_assign::CrossPeakInfo , protocols::noesy_assign::PeakAssignment
• has_ligand_ : protocols::forge::remodel::RemodelMover::instruction_flags
• has_method_weights() : core::scoring::methods::EnergyMethodOptions
• has_model() : protocols::abinitio::PairingStatEntry
• has_N_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_name() : core::chemical::ResidueTypeSet
• has_name3() : core::chemical::ResidueTypeSet
• has_next_level() : protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel
• has_non_residue_pair_constraints() : core::scoring::constraints::ConstraintSet
• has_nonzero_weight() : core::scoring::ScoreFunction
• has_nth_pose() : protocols::inputter::FastaInputter , protocols::inputter::Inputter , protocols::inputter::PDBInputter , protocols::inputter::SilentFileInputter
• has_O_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• has_open_slaves() : protocols::jd2::SingleFileBuffer
• has_open_status() : protocols::wum2::EndPoint
• has_option() : protocols::jd2::JD2ResourceManager
• has_orbital() : core::chemical::ResidueType
• has_orientation_and_pleating() : protocols::jumping::JumpSample
• has_pairing() : core::scoring::dssp::StrandPairing , core::scoring::dssp::StrandPairingSet
• has_pairings() : protocols::abinitio::Templates
• has_parent_remark() : core::io::silent::SilentStruct
• has_path() : protocols::motifs::Motif
• has_path_ : protocols::motifs::Motif
• has_pose() : protocols::inputter::InputterStream
• has_profile() : core::fragment::picking_old::vall::VallResidue , protocols::frag_picker::VallResidue
• has_profile_struct() : protocols::frag_picker::VallResidue
• has_property() : core::chemical::ResidueType , core::conformation::Residue
• has_proton() : protocols::noesy_assign::CrossPeak , protocols::noesy_assign::PeakAssignment
• has_pseudobonds() : core::scoring::trie::CPDataCorrespondence
• has_pseudobonds_ : core::scoring::trie::CPDataCorrespondence
• has_range1() : core::conformation::symmetry::SymDof
• has_range1_lower() : core::conformation::symmetry::SymDof
• has_range1_lower_ : core::conformation::symmetry::SymDof
• has_range1_upper() : core::conformation::symmetry::SymDof
• has_range1_upper_ : core::conformation::symmetry::SymDof
• has_range2() : core::conformation::symmetry::SymDof
• has_range2_lower() : core::conformation::symmetry::SymDof
• has_range2_lower_ : core::conformation::symmetry::SymDof
• has_range2_upper() : core::conformation::symmetry::SymDof
• has_range2_upper_ : core::conformation::symmetry::SymDof
• has_ref_pose() : core::import_pose::atom_tree_diffs::AtomTreeDiff
• has_ref_tag() : core::import_pose::atom_tree_diffs::AtomTreeDiff
• has_remark() : protocols::motifs::Motif
• has_remark_ : protocols::motifs::Motif
• has_residue() : protocols::noesy_assign::ResonanceList
• has_residue_pair_constraints() : core::scoring::constraints::ConstraintSet
• has_resource_with_description() : protocols::jd2::JD2ResourceManager
• has_restype() : protocols::match::upstream::BuildSet
• has_sc_orbitals() : core::chemical::ResidueType , core::conformation::Residue
• has_sc_orbitals_ : core::chemical::ResidueType
• has_segment() : protocols::backrub::BackrubMover
• has_sequence_claimer() : protocols::topology_broker::TopologyBroker
• has_shared_silent_data() : core::io::silent::SilentFileData
• has_sibling() : core::scoring::trie::TrieNode< AT, CPDATA >
• has_silent_in() : protocols::jd2::archive::Batch
• has_silent_in_ : protocols::jd2::archive::Batch
• has_silent_struct_type() : core::io::silent::SilentStructFactory
• has_tag() : core::import_pose::atom_tree_diffs::AtomTreeDiff , core::io::silent::SilentFileData
• has_template() : protocols::abinitio::Templates
• has_type() : core::pack::task::operation::ResFilterFactory , core::pack::task::operation::ResLvlTaskOperationFactory , core::pack::task::operation::TaskOperationFactory , protocols::loops::loops_definers::LoopsDefinerFactory
• has_upstream_only_geomcsts() : protocols::match::Matcher
• has_variant_type() : core::chemical::ResidueType , core::conformation::Residue
• has_waters() : core::scoring::methods::LKB_ResidueInfo
• has_waters_ : core::scoring::methods::LKB_ResidueInfo
• has_zero_weight() : core::scoring::ScoreFunction
• hASA_energy() : core::pack::interaction_graph::SurfaceNode< V, E, G > , core::pack::interaction_graph::SurfaceBackgroundNode< V, E, G >
• hASA_patch_energy() : core::pack::interaction_graph::SurfacePotential
• hASA_to_score_ : core::pack::interaction_graph::SurfacePotential
• hasAmideN() : core::chemical::sdf::atomTyper
• hasbbN() : core::chemical::sdf::atomTyper
• hasCarbonylC() : core::chemical::sdf::atomTyper
• hasCarboxylC() : core::chemical::sdf::atomTyper
• hasCwithbbN() : core::chemical::sdf::atomTyper
• hasGuanidiniumC() : core::chemical::sdf::atomTyper
• hash() : protocols::genetic_algorithm::EntityElement , protocols::multistate_design::PosType
• Hash : protocols::sic_dock::Rose
• hash_ : protocols::loophash::LoopHashLibrary , protocols::loophash::LoopHashMap , protocols::match::HitNeighborFinder , protocols::match::MatchCounter , protocols::match::MatchOutputTracker , protocols::match::OccupiedSpaceHash
• hash_hits() : protocols::match::HitNeighborFinder
• hash_index() : protocols::loophash::LoopHashMap
• hash_pose1_ : protocols::sic_dock::CBScore
• hash_recent_history() : core::pack::annealer::FASTERAnnealer
• hash_size_ : core::pack::annealer::FASTERAnnealer
• hash_sizes() : protocols::loophash::LoopHashLibrary
• hash_sizes_ : protocols::loophash::LoopHashLibrary
• hash_value() : core::kinematics::FoldTree , core::scoring::dssp::StrandPairing
• HashCOP : protocols::sic_dock::Rose
• hasher : core::kinematics::FoldTree , protocols::abinitio::IterativeBase
• hashin_fname_ : protocols::protein_interface_design::movers::HotspotHasherMover
• hashout_fname_ : protocols::protein_interface_design::movers::HotspotHasherMover
• hasInsertion : protocols::forge::remodel::WorkingRemodelSet
• hasNext() : protocols::viewer::triangleIterator
• hasNinRing() : core::chemical::sdf::atomTyper
• have_contributed_deltaE_following_perturbation_ : core::pack::interaction_graph::FASTERNode , core::pack::interaction_graph::FASTEREdge
• have_cst_ : core::scoring::methods::CustomAtomPairEnergy
• have_edges_copy_alternate_to_current() : protocols::flexpack::interaction_graph::FlexbbNode
• have_edges_copy_alternate_to_current_following_flexbb_accept() : protocols::flexpack::interaction_graph::FlexbbNode
• have_mutated_residue() : protocols::simple_moves::sidechain_moves::SidechainMoverBase
• have_not_committed_last_substitution_ : core::pack::interaction_graph::LinearMemoryInteractionGraph , core::pack::interaction_graph::SymmLinearMemoryInteractionGraph , core::pack::interaction_graph::SymmMinimalistInteractionGraph
• have_params() : core::scoring::packing::HolesParams , core::scoring::packing::HolesParamsRes
• have_prepared_for_simA_ : core::pack::interaction_graph::SurfaceNode< V, E, G > , core::pack::interaction_graph::SurfaceBackgroundNode< V, E, G >
• have_prepared_once_for_FASTER_ : core::pack::interaction_graph::FASTERNode
• have_relaxed_since_neighbors_perturbation_ : core::pack::interaction_graph::FASTERNode
• havesurf() : core::scoring::packing::PoseBalls
• hb_acc_chem_type() : core::scoring::hbonds::hbtrie::HBAtom
• hb_chem_type() : core::scoring::hbonds::hbtrie::HBAtom
• hb_chem_type_ : core::scoring::hbonds::hbtrie::HBAtom
• hb_database : protocols::toolbox::pose_metric_calculators::NumberHBondsCalculator
• hb_database_ : core::scoring::geometric_solvation::ContextIndependentGeometricSolEnergy , core::scoring::geometric_solvation::WaterWeightGridSet , core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy , core::scoring::geometric_solvation::GeometricSolEnergy , core::scoring::WaterAdductHBondPotential , protocols::dna::RotamerDNAHBondFilter , protocols::toolbox::pose_metric_calculators::SemiExplicitWaterUnsatisfiedPolarsCalculator
• HB_DHO_AngleList : protocols::sparta::PDB
• hb_don_chem_type() : core::scoring::hbonds::hbtrie::HBAtom
• hb_filter : protocols::flexpep_docking::FlexPepDockingFlags
• HB_HOA_AngleList : protocols::sparta::PDB
• HbaGrid() : protocols::qsar::scoring_grid::HbaGrid
• HBAtom() : core::scoring::hbonds::hbtrie::HBAtom
• HBCPData() : core::scoring::hbonds::hbtrie::HBCPData
• HbdGrid() : protocols::qsar::scoring_grid::HbdGrid
• HBDistList : protocols::sparta::PDB
• HBEnergyList : protocols::sparta::PDB
• HBEvalTuple() : core::scoring::hbonds::HBEvalTuple
• HBFadeInterval_from_name() : core::scoring::hbonds::HBondDatabase
• HBFadeInterval_lookup_ : core::scoring::hbonds::HBondDatabase
• HBFadeInterval_lookup_by_name_ : core::scoring::hbonds::HBondDatabase
• HBond() : core::scoring::hbonds::HBond
• hbond() : core::scoring::hbonds::HBondSet
• hbond_acceptor_limit_ : protocols::ligand_docking::HBondAcceptorFilter
• hbond_bb_pair_score_ : core::scoring::dssp::Dssp
• hbond_derivs_1way() : core::scoring::hbonds::HBondEnergy
• hbond_donor_limit_ : protocols::ligand_docking::HBondDonorFilter
• hbond_energy_comparer() : core::scoring::hbonds::HBond
• hbond_energy_threshold_ : protocols::protein_interface_design::movers::DesignMinimizeHbonds
• hbond_options() : core::scoring::hbonds::HBondSet , core::scoring::methods::EnergyMethodOptions
• hbond_options_ : core::scoring::methods::EnergyMethodOptions , core::scoring::rna::RNA_Mg_Energy
• HBondAcceptorFilter() : protocols::ligand_docking::HBondAcceptorFilter
• HBondAtomMap : core::scoring::hbonds::HBondSet
• HBondDatabase() : core::scoring::hbonds::HBondDatabase
• HBondDonorFilter() : protocols::ligand_docking::HBondDonorFilter
• HBondEnergy() : core::scoring::hbonds::HBondEnergy
• HBondFeatures() : protocols::features::HBondFeatures
• HBondFeaturesCreator() : protocols::features::HBondFeaturesCreator
• HBondOptions() : core::scoring::hbonds::HBondOptions
• hbondoptions_ : core::scoring::geometric_solvation::WaterWeightGridSet , core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy , core::scoring::WaterAdductHBondPotential , protocols::dna::RotamerDNAHBondFilter
• HBondParameterFeatures() : protocols::features::HBondParameterFeatures
• HBondParameterFeaturesCreator() : protocols::features::HBondParameterFeaturesCreator
• HBondResidueMinData() : core::scoring::hbonds::HBondResidueMinData
• HBondResPairMinData() : core::scoring::hbonds::HBondResPairMinData
• hbonds_ : core::scoring::hbonds::HBondSet
• HBondSet() : core::scoring::hbonds::HBondSet
• HbondsToResidueFilter() : protocols::protein_interface_design::filters::HbondsToResidueFilter
• HBPoly1D_from_name() : core::scoring::hbonds::HBondDatabase
• HBPoly1D_lookup_ : core::scoring::hbonds::HBondDatabase
• HBPoly1D_lookup_by_name_ : core::scoring::hbonds::HBondDatabase
• hbs_post_pos_ : protocols::simple_moves::hbs::HbsPatcher
• hbs_pre_pos_ : protocols::simple_moves::hbs::HbsPatcher
• HbsPatcher() : protocols::simple_moves::hbs::HbsPatcher
• hConvergenceCheck() : protocols::abinitio::hConvergenceCheck , protocols::hybridization::hConvergenceCheck
• hcut_ : protocols::hybridization::DDomainParse , protocols::hybridization::HybridizeProtocol
• he : protocols::sic_dock::XfoxmScore
• header : core::io::pdb::FileData , protocols::wum::WorkUnitBase
• header_information() : core::io::pdb::FileData , core::pose::PDBInfo
• header_information_ : core::pose::PDBInfo
• HeaderInformation() : core::io::pdb::HeaderInformation
• heat_after_cycles() : protocols::moves::MonteCarlo
• heat_after_cycles_ : protocols::moves::MonteCarlo
• heat_structure_ : protocols::rna::RNA_DeNovoProtocol
• heavy_atom_limit_ : protocols::filters::HeavyAtomFilter , protocols::ligand_docking::HeavyAtomFilter
• heavy_chain : protocols::toolbox::task_operations::RestrictToCDRH3Loop
• heavyatom_has_polar_hydrogens() : core::chemical::ResidueType , core::conformation::Residue
• heavyatom_has_polar_hydrogens_ : core::chemical::ResidueType
• heavyatom_heavyatom_energy() : core::scoring::hbonds::HBondEnergy , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::etable::AnalyticEtableEvaluator , core::scoring::etable::TableLookupEvaluator , core::scoring::hackelec::HackElecEnergy , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::methods::MMLJEnergyInter
• heavyatom_hydrogenatom_energy() : core::scoring::etable::AnalyticEtableEvaluator , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::etable::TableLookupEvaluator , core::scoring::hackelec::HackElecEnergy , core::scoring::hbonds::HBondEnergy , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::methods::MMLJEnergyInter
• heavyatom_is_an_acceptor() : core::chemical::ResidueType , core::conformation::Residue
• heavyatom_is_an_acceptor_ : core::chemical::ResidueType
• HeavyAtomFilter() : protocols::ligand_docking::HeavyAtomFilter , protocols::filters::HeavyAtomFilter , protocols::ligand_docking::HeavyAtomFilter
• heavyAtoms_end() : core::conformation::Residue
• hedge_archive_ : protocols::abinitio::IterativeBase
• HedgeArchive() : protocols::abinitio::HedgeArchive
• height : core::scoring::sc::_PROBE
• helical_sigOffAxisR : protocols::rbsegment_relax::RBSegmentRelax
• helical_sigOffAxisT : protocols::rbsegment_relax::RBSegmentRelax
• helical_sigR : protocols::rbsegment_relax::RBSegmentRelax
• helical_sigT : protocols::rbsegment_relax::RBSegmentRelax
• HelicalFragment() : protocols::features::helixAssembly::HelicalFragment
• HelicalGaussianMover() : protocols::rbsegment_relax::HelicalGaussianMover
• HelicalPeptideLengthMover() : protocols::simple_moves::HelicalPeptideLengthMover
• Helices() : core::scoring::Helices
• helices() : protocols::fldsgn::topology::SS_Info2
• Helices() : core::scoring::Helices
• helices() : core::scoring::SS_Info
• helices_ : core::scoring::SS_Info , protocols::fldsgn::topology::SS_Info2
• helix() : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::SS_Info2
• Helix() : protocols::fldsgn::topology::Helix
• helix2hss_ : protocols::fldsgn::topology::HSSTripletSet
• helix_ : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HSSTriplet , protocols::nonlocal::HelixRotate
• helix_cap_dist_cutoff_ : protocols::features::helixAssembly::HelixBundleFeatures
• helix_cycle() : protocols::fldsgn::topology::BetaAlphaBetaMotif
• helix_cycle_ : protocols::fldsgn::topology::BetaAlphaBetaMotif
• helix_cycle_as_string() : protocols::fldsgn::topology::BetaAlphaBetaMotif
• helix_end() : core::scoring::SecondaryStructurePotential , protocols::fldsgn::potentials::sspot::HSPairPotential
• helix_fraction() : core::fragment::SecondaryStructure
• helix_id() : core::scoring::MembraneTopology , protocols::fldsgn::topology::SS_Info2
• helix_id_ : core::scoring::MembraneTopology , protocols::fldsgn::topology::SS_Info2
• helix_pairing() : protocols::fldsgn::topology::HelixPairingSet
• helix_pairings() : protocols::fldsgn::filters::HelixPairingFilter , protocols::jd2::parser::BluePrint , protocols::fldsgn::topology::HelixPairingSet
• helix_pairings_ : protocols::abinitio::TemplateJumpSetup , protocols::fldsgn::topology::HelixPairingSet , protocols::jd2::parser::BluePrint
• helix_size_ : protocols::features::helixAssembly::HelixBundleFeatures
• HelixBundleFeatures() : protocols::features::helixAssembly::HelixBundleFeatures
• HelixBundleFeaturesCreator() : protocols::features::helixAssembly::HelixBundleFeaturesCreator
• helixjump_pick_list_ : protocols::abinitio::Templates
• helixjump_picks() : protocols::abinitio::Templates
• HelixKinkFilter() : protocols::fldsgn::filters::HelixKinkFilter
• HelixMoveSet_ : protocols::rbsegment_relax::RBSegmentRelax
• HelixPairing : protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential , protocols::fldsgn::topology::HelixPairing
• HelixPairingFilter() : protocols::fldsgn::filters::HelixPairingFilter
• HelixPairings : protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential
• HelixPairingSet : protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential , protocols::fldsgn::topology::HelixPairingSet
• HelixPairingSetOP : protocols::fldsgn::filters::HelixPairingFilter , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential , protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergy , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• HelixRotate() : protocols::nonlocal::HelixRotate
• HelixScore() : protocols::sic_dock::HelixScore
• help_ : protocols::forge::remodel::RemodelMover::instruction_flags
• helper() : core::scoring::constraints::AngleConstraint , core::scoring::constraints::DihedralConstraint
• hetatm_cst_weight_ : protocols::hybridization::FoldTreeHybridize , protocols::hybridization::HybridizeProtocol
• hetero_atom_line() : core::scoring::packstat::CavityBall
• heterogen_names : core::io::pdb::FileData
• hfr_ : protocols::antibody::Antibody
• hfr_pose_ : protocols::antibody2::ModelCDRH3
• Hfr_t_name_ : protocols::antibody2::Ab_TemplateInfo
• hh : protocols::sic_dock::XfoxmScore
• hh_align_angle_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hh_align_angle_sigma2_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hh_align_angle_wts_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• HH_cutoff_ : core::scoring::NeighborList
• HH_cutoff_wide_ : core::scoring::NeighborList
• HH_helix_end : core::scoring::Helices
• HH_resnum : core::scoring::Helices
• hh_scores_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential , protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential
• hh_weight_ : protocols::fldsgn::potentials::SetSecStructEnergies
• hhpot_ : protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergy
• HI_AMBIG : protocols::noesy_assign::CrossPeak
• HI_NEAR_UNAMBIG : protocols::noesy_assign::CrossPeak
• hi_poly_ : core::scoring::hackelec::HackElecEnergy
• hi_poly_end2_ : core::scoring::hackelec::HackElecEnergy
• hi_poly_end_ : core::scoring::hackelec::HackElecEnergy
• hi_poly_invwidth_ : core::scoring::hackelec::HackElecEnergy
• hi_poly_start2_ : core::scoring::hackelec::HackElecEnergy
• hi_poly_start_ : core::scoring::hackelec::HackElecEnergy
• hi_poly_width_ : core::scoring::hackelec::HackElecEnergy
• HI_UNAMBIG : protocols::noesy_assign::CrossPeak
• HierarchicalLevel() : protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel
• high_color_ : protocols::qsar::RenderGridsToKinemage
• high_cst_ : protocols::antibody::CDRH3Modeler , protocols::antibody2::AntibodyModelerProtocol , protocols::antibody2::RefineOneCDRLoop , protocols::antibody2::H3RefineCCD , protocols::antibody2::CDRsMinPackMin
• high_entropy_rms_cutoff_ : protocols::optimize_weights::PNatStructureOptEData
• high_move_temp_ : protocols::antibody2::H3RefineCCD
• high_res_angstroms_ : protocols::ligand_docking::LigandArea
• high_res_degrees_ : protocols::ligand_docking::LigandArea
• high_resolution_step_ : protocols::antibody2::SnugDock
• high_temp() : core::pack::task::PackerTask_ , core::pack::task::PackerTask , core::pack::task::PackerTask_ , core::pack::task::PackerTask
• high_temp_ : protocols::toolbox::task_operations::ModifyAnnealer , core::pack::task::PackerTask_
• higher_d77_pert_mode_ : protocols::ub_e2c::ubi_e2c_modeler
• highest_probability() : protocols::frag_picker::quota::ABEGO_SS_Config
• highres_filter_ : protocols::docking::DockingProtocol
• highres_reference_energies_ : protocols::docking::DockingEnsemble
• highres_reference_energy() : protocols::docking::DockingEnsemble
• highres_scorefxn_ : protocols::antibody::CDRH3Modeler , protocols::seeded_abinitio::SegmentHybridizer , protocols::antibody::LoopRlxMover , protocols::antibody2::H3RefineCCD
• HighResDocker() : protocols::ligand_docking::HighResDocker
• hightemp : core::pack::annealer::SimAnnealerBase
• hightemp_ : core::pack::annealer::SimAnnealerBase
• highval() : protocols::match::downstream::AtomGeometrySecMatchRPE
• highval_ : protocols::match::downstream::AtomGeometrySecMatchRPE
• hijack_loop_reading_code_set_loop_line_begin_token() : protocols::loops::PoseNumberedLoopFileReader
• hires_cut : core::scoring::electron_density::ElectronDensity
• hires_fpdock_protocol() : protocols::flexpep_docking::FlexPepDockingProtocol
• hires_score_ : protocols::protein_interface_design::movers::LoopRemodel , protocols::protein_interface_design::movers::LoopMoverFromCommandLine
• hires_scorefxn_ : protocols::protein_interface_design::movers::PlaceOnLoop , protocols::rna::RNA_DeNovoProtocol
• hist_dist6_ : protocols::noesy_assign::FragsToAtomDist::DistanceRecord
• hist_dist_ : protocols::noesy_assign::FragsToAtomDist::DistanceRecord
• histogram_vector_ : core::scoring::orbitals::OrbitalsStatistics
• histograms() : protocols::simple_moves::DOFHistogramRecorder
• histograms_ : protocols::simple_moves::DOFHistogramRecorder
• history_ : protocols::hybridization::TemplateHistory
• hit() : protocols::match::downstream::TargetRotamerCoords
• hit_cacher_ : protocols::match::output::SameSequenceGrouper , protocols::match::output::SameChiBinComboGrouper
• hit_data_ : protocols::match::downstream::TargetRotamerCoords
• hit_hash_begin() : protocols::match::HitHasher
• hit_hash_end() : protocols::match::HitHasher
• hit_hashes_ : protocols::match::HitHasher
• hit_list_begin() : protocols::match::Matcher
• hit_list_end() : protocols::match::Matcher
• hit_score_cutoff_ : protocols::swa::StepWiseClusterer
• HitCounts : protocols::match::MatchCounter
• HitHash : protocols::match::HitNeighborFinder , protocols::match::MatchCounter , protocols::match::HitHasher
• HitHasher() : protocols::match::HitHasher
• HitIndexList : protocols::match::HitNeighborFinder
• HitList : protocols::match::Matcher
• HitListConstIterator : protocols::match::Matcher
• HitListIterator : protocols::match::Matcher
• HitNeighborFinder() : protocols::match::HitNeighborFinder
• HitPtrList : protocols::match::HitNeighborFinder
• hits() : protocols::match::Matcher
• hits_ : protocols::match::Matcher
• hits_for_focused_geomcst_and_build_point_begin_ : protocols::match::downstream::SecondaryMatcherToDownstreamResidue
• hits_for_focused_geomcst_and_build_point_end_ : protocols::match::downstream::SecondaryMatcherToDownstreamResidue
• hits_for_focused_geomcst_end_ : protocols::match::downstream::SecondaryMatcherToDownstreamResidue
• hits_potentially_incompatible() : protocols::match::downstream::DownstreamBuilder , protocols::match::downstream::RigidLigandBuilder , protocols::match::downstream::LigandConformerBuilder
• hits_to_include_with_partial_match() : protocols::match::downstream::SecondaryMatcherToUpstreamResidue , protocols::match::downstream::DownstreamAlgorithm , protocols::match::downstream::SecondaryMatcherToDownstreamResidue , protocols::match::downstream::ClassicMatchAlgorithm , protocols::match::output::WriteUpstreamCoordinateKinemage
• hl : protocols::sic_dock::XfoxmScore
• hlevel_ : protocols::canonical_sampling::mc_convergence_checks::MPIHPool_RMSD
• HN_S2 : protocols::sparta::PDB
• ho2star_index() : core::chemical::rna::RNA_ResidueType
• ho2star_index_ : core::chemical::rna::RNA_ResidueType
• hokey_template_workaround() : core::pack::dunbrack::SingleResidueDunbrackLibrary
• HOLES_POSE_INFO : core::pose::datacache::CacheableDataType
• HolesEnergy() : core::scoring::packing::HolesEnergy
• HolesEnergyRes() : core::scoring::packing::HolesEnergyRes
• HolesFilter() : protocols::simple_filters::HolesFilter
• HolesParams() : core::scoring::packing::HolesParams
• HolesParamsRes() : core::scoring::packing::HolesParamsRes
• HolesResult() : core::scoring::packing::HolesResult
• HOMO_Tab : protocols::sparta::Sparta::SpartaLib
• homoFileName : protocols::sparta::Sparta::SpartaLib
• homologs_ : protocols::loophash::BackboneDB
• host_chain() : protocols::protein_interface_design::movers::PlacementAuctionMover , protocols::protein_interface_design::movers::PlaceSimultaneouslyMover , protocols::protein_interface_design::movers::PlacementMinimizationMover
• host_chain_ : protocols::protein_interface_design::movers::BestHotspotCstMover , protocols::protein_interface_design::movers::PlacementMinimizationMover , protocols::protein_interface_design::movers::SetAtomTree , protocols::protein_interface_design::movers::PlacementAuctionMover , protocols::protein_interface_design::movers::PlaceOnLoop , protocols::protein_interface_design::movers::PlaceSimultaneouslyMover , protocols::protein_interface_design::movers::PlaceStubMover , protocols::protein_interface_design::filters::StubScoreFilter
• hotspot_filter : protocols::flexpep_docking::FlexPepDockingFlags
• hotspot_filter_ : protocols::protein_interface_design::movers::HotspotHasherMover
• hotspot_length() : protocols::hotspot_hashing::HotspotStubSet
• hotspot_length_ : protocols::hotspot_hashing::HotspotStubSet
• hotspot_stub_set_ : protocols::protein_interface_design::movers::SetupHotspotConstraintsLoopsMover , protocols::protein_interface_design::movers::SetupHotspotConstraintsMover
• HotspotDisjointedFoldTreeMover() : protocols::protein_interface_design::movers::HotspotDisjointedFoldTreeMover
• HotspotHasherMover() : protocols::protein_interface_design::movers::HotspotHasherMover
• Hotspots : protocols::hotspot_hashing::HotspotStubSet
• HotspotStub : protocols::hotspot_hashing::HotspotStubSet , protocols::hotspot_hashing::HotspotStub
• HotspotStubSet() : protocols::hotspot_hashing::HotspotStubSet , protocols::hotspot_hashing::HotspotStub , protocols::hotspot_hashing::HotspotStubSet
• hpairpot_ : protocols::fldsgn::potentials::SetSecStructEnergies
• hpairset() : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hpairset_ : protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential , protocols::fldsgn::filters::HelixPairingFilter
• hpairset_name_ : protocols::fldsgn::topology::HelixPairingSet
• hpatch_energy_alternate_state_assignment_ : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• hpatch_energy_current_state_assignment_ : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• hpatch_score() : core::pack::interaction_graph::SurfacePotential
• HPATCH_SCORE_BIN_SIZE : core::pack::interaction_graph::SurfacePotential
• hpatch_score_min_last_100_ : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• hpatch_score_min_recent_ : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• hpatch_score_weight_ : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• HPatchBackgroundEdge() : core::pack::interaction_graph::HPatchBackgroundEdge< V, E, G >
• HPatchBackgroundNode() : core::pack::interaction_graph::HPatchBackgroundNode< V, E, G >
• HPatchCalculator() : protocols::toolbox::pose_metric_calculators::HPatchCalculator
• HPatchEdge() : core::pack::interaction_graph::HPatchEdge< V, E, G >
• HPatchEnergy() : core::pack::interaction_graph::HPatchEnergy
• HPatchInteractionGraph() : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• HPatchNode() : core::pack::interaction_graph::HPatchNode< V, E, G >
• hphobe_ats_ : core::pack::interaction_graph::HPatchBackgroundNode< V, E, G >
• hphobe_ats_for_restype_group_ : core::pack::interaction_graph::HPatchNode< V, E, G >
• Hpol_bbOrbH : core::scoring::orbitals::OrbitalsLookup
• Hpol_index() : core::chemical::ResidueType , core::conformation::Residue
• Hpol_index_ : core::chemical::ResidueType
• Hpol_scOrbH : core::scoring::orbitals::OrbitalsLookup
• HPool_RMSD() : protocols::canonical_sampling::mc_convergence_checks::HPool_RMSD
• Hpos_apolar() : core::chemical::ResidueType , core::conformation::Residue
• Hpos_apolar_ : core::chemical::ResidueType
• Hpos_polar() : core::conformation::Residue , core::chemical::ResidueType
• Hpos_polar_ : core::chemical::ResidueType
• Hpos_polar_sc() : core::chemical::ResidueType , core::conformation::Residue
• Hpos_polar_sc_ : core::chemical::ResidueType
• hs1_dist() : protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::BetaAlphaBetaMotif
• hs1_dist_ : protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::BetaAlphaBetaMotif
• hs1_orient() : protocols::fldsgn::topology::HSSTriplet
• hs1_orient_ : protocols::fldsgn::topology::HSSTriplet
• hs2_dist() : protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::BetaAlphaBetaMotif
• hs2_dist_ : protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::BetaAlphaBetaMotif
• hs2_orient() : protocols::fldsgn::topology::HSSTriplet
• hs2_orient_ : protocols::fldsgn::topology::HSSTriplet
• hs_angle() : protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::BetaAlphaBetaMotif
• hs_angle_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential , protocols::fldsgn::topology::HSSTriplet , protocols::fldsgn::topology::BetaAlphaBetaMotif
• hs_angle_sigma2_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hs_angle_wts_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• Hs_data : protocols::hotspot_hashing::HotspotStubSet
• hs_dist_ : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hs_dist_sigma2_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hs_dist_wts_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hs_dp_ : core::scoring::SecondaryStructurePotential
• hs_dp_initializer() : core::scoring::SecondaryStructurePotential
• Hs_map : protocols::hotspot_hashing::HotspotStubSet
• hs_pair_weight_ : protocols::fldsgn::potentials::SetSecStructEnergies
• hs_scores_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• Hs_vec : protocols::hotspot_hashing::HotspotStubSet
• hs_weight_ : protocols::fldsgn::potentials::SetSecStructEnergies
• hsheet_dist() : protocols::fldsgn::topology::BetaAlphaBetaMotif , protocols::fldsgn::topology::HSSTriplet
• hsheet_dist_ : protocols::fldsgn::topology::HSSTriplet
• hsheet_dist_repulsive_ : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hsheet_elev_angle() : protocols::fldsgn::topology::BetaAlphaBetaMotif
• hsheet_elev_angle_ : protocols::fldsgn::topology::BetaAlphaBetaMotif
• hspair() : core::scoring::SecondaryStructurePotential
• HSPairPotential() : protocols::fldsgn::potentials::sspot::HSPairPotential
• hspot_ : protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergy , protocols::fldsgn::potentials::SetSecStructEnergies
• hss3set_ : protocols::fldsgn::filters::HSSTripletFilter , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hss_triplet() : protocols::fldsgn::topology::HSSTripletSet
• hss_triplet_set() : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• hss_triplets() : protocols::jd2::parser::BluePrint , protocols::fldsgn::topology::HSSTripletSet
• hss_triplets_ : protocols::fldsgn::topology::HSSTripletSet , protocols::jd2::parser::BluePrint
• HSSConstIterator : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• HSSTriplet : protocols::fldsgn::filters::HSSTripletFilter , protocols::fldsgn::topology::HSSTriplet
• HSSTripletFilter() : protocols::fldsgn::filters::HSSTripletFilter
• HSSTripletOP : protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• HSSTriplets : protocols::fldsgn::filters::HSSTripletFilter
• HSSTripletSet() : protocols::fldsgn::topology::HSSTripletSet , protocols::fldsgn::filters::HSSTripletFilter , protocols::fldsgn::topology::HSSTripletSet
• HSSTripletSetOP : protocols::fldsgn::filters::HSSTripletFilter , protocols::fldsgn::potentials::sspot::NatbiasSecondaryStructureEnergy , protocols::fldsgn::potentials::sspot::NatbiasHelicesSheetPotential
• HSURFACE : protocols::pockets::PocketGrid
• ht_for_chitip_atom() : protocols::match::upstream::UpstreamResTypeGeometry
• ht_for_chitip_atoms() : protocols::match::upstream::UpstreamResTypeGeometry
• ht_for_chitip_atoms_ : protocols::match::upstream::UpstreamResTypeGeometry
• HTReal : protocols::match::downstream::ClassicMatchAlgorithm , protocols::match::upstream::ProteinUpstreamBuilder , protocols::match::downstream::DownstreamBuilder , protocols::toolbox::match_enzdes_util::LigandConformer , protocols::match::upstream::FullChiSampleSet , core::pack::interaction_graph::SymmOnTheFlyInteractionGraph , protocols::toolbox::match_enzdes_util::ExternalGeomSampler , protocols::match::upstream::UpstreamResTypeGeometry , protocols::toolbox::match_enzdes_util::MatchConstraintFileInfo
• hurry() : protocols::protein_interface_design::movers::LoopRemodel , protocols::symmetric_docking::SymDockProtocol , protocols::protein_interface_design::movers::LoopRemodel
• hurry_ : protocols::symmetric_docking::SymDockProtocol , protocols::protein_interface_design::movers::PlaceStubMover , protocols::protein_interface_design::movers::LoopRemodel
• hybridization() : core::chemical::AtomType , core::chemical::orbitals::OrbitalType
• hybridization_ : core::chemical::AtomType , core::chemical::orbitals::OrbitalType
• hybridization_type2name_ : core::scoring::hbonds::HBondTypeManager
• hybridization_type_from_name() : core::scoring::hbonds::HBondTypeManager
• hybridize() : protocols::seeded_abinitio::SegmentHybridizer
• HybridizeFoldtreeDynamic() : protocols::hybridization::HybridizeFoldtreeDynamic
• HybridizeProtocol() : protocols::hybridization::HybridizeProtocol
• HybridVDW_Energy() : core::scoring::methods::HybridVDW_Energy
• hydrogen_interaction : core::scoring::etable::EtableParamsOnePair
• hydrogen_interaction_cutoff() : core::scoring::hackelec::HackElecEnergy , core::scoring::methods::MMLJEnergyInter
• hydrogen_interaction_cutoff2() : core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::hackelec::HackElecEnergy , core::scoring::methods::MMLJEnergyInter , core::scoring::etable::EtableEvaluator , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::hbonds::HBondEnergy , core::scoring::etable::MembEtable , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::etable::Etable
• hydrogen_interaction_cutoff2_ : core::scoring::etable::MembEtable , core::scoring::etable::Etable , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::etable::EtableEvaluator
• hydrogenatom_heavyatom_energy() : core::scoring::hackelec::HackElecEnergy , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::etable::AnalyticEtableEvaluator , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::methods::MMLJEnergyInter , core::scoring::hbonds::HBondEnergy , core::scoring::etable::TableLookupEvaluator
• hydrogenatom_hydrogenatom_energy() : core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::hbonds::HBondEnergy , core::scoring::etable::AnalyticEtableEvaluator , core::scoring::methods::MMLJEnergyInter , core::scoring::etable::TableLookupEvaluator , core::scoring::hackelec::HackElecEnergy
• hydrophobic_ : protocols::simple_filters::InterfaceSasaFilter
• HydrophobicityProfileSimilarity() : protocols::frag_picker::scores::HydrophobicityProfileSimilarity
• HydrophobicitySimilarity() : protocols::frag_picker::scores::HydrophobicitySimilarity