- t -

• TableLookupEtableEnergy() : core::scoring::etable::TableLookupEtableEnergy
• TableLookupEvaluator() : core::scoring::etable::TableLookupEvaluator
• tabulate() : core::scoring::saxs::FormFactor , core::scoring::saxs::FormFactorManager
• tag() : core::scoring::motif::ResPairMotif
• tags() : core::import_pose::pose_stream::SilentFilePoseInputStream , core::io::silent::SilentFileData
• take_coordinates_from_pose() : core::scoring::BB_Pos
• takeoff_atom() : core::scoring::loop_graph::LoopScoreInfo
• takeoff_domain() : core::scoring::loop_graph::Loop
• takeoff_pos() : core::scoring::loop_graph::Loop
• target_type() : core::pack::task::PackerTask_ , core::pack::task::ResidueLevelTask , core::pack::task::ResidueLevelTask_
• task() : core::pack::rotamer_set::RotamerSets
• task_mode() : core::pack::task::ResidueLevelTask_
• task_string() : core::pack::task::PackerTask , core::pack::task::PackerTask_
• TaskFactory() : core::pack::task::TaskFactory
• TaskOperationFactory() : core::pack::task::operation::TaskOperationFactory
• TaskOperationRegistrator() : core::pack::task::operation::TaskOperationRegistrator< T >
• Tau() : core::scoring::FACTSPotential
• tell_neighbors_to_prep_for_relaxation() : core::pack::interaction_graph::FASTERNode
• temp() : core::pose::UnrecognizedAtomRecord , core::sequence::SequenceCoupling , core::sequence::SequenceProfile
• temp1() : core::scoring::AtomNeighbor
• temp2() : core::scoring::AtomNeighbor
• temp3() : core::scoring::AtomNeighbor
• temp4() : core::scoring::AtomNeighbor
• temperature() : core::pose::PDBInfo
• temporarily_fix_everything() : core::pack::task::PackerTask , core::pack::task::PackerTask_
• temporarily_set_pack_residue() : core::pack::task::PackerTask , core::pack::task::PackerTask_
• tenA_neighbor_graph() : core::scoring::Energies
• TenANeighborEdge() : core::scoring::TenANeighborEdge
• TenANeighborGraph() : core::scoring::TenANeighborGraph
• TenANeighborNode() : core::scoring::TenANeighborNode
• tensor() : core::scoring::ResidualDipolarCoupling
• term_length() : core::scoring::methods::NMerSVMEnergy
• termini_feature() : core::scoring::methods::ProQ_Energy
• termini_penalty() : core::scoring::MembranePotential
• theta() : core::chemical::Adduct , core::chemical::AtomICoor , core::chemical::orbitals::ICoorOrbitalData , core::pose::Pose
• theta0() : core::scoring::mm::MMBondAngleResidueTypeParam
• thickness() : core::scoring::Membrane_FAEmbed
• ThirdLoop() : core::scoring::sc::MolecularSurfaceCalculator
• threshold() : core::pack::task::residue_selector::NumNeighborsSelector
• tighten_memory() : core::fragment::picking_old::vall::VallLibrary , core::fragment::picking_old::vall::VallSection , core::pose::PDBInfo
• title() : core::io::pdb::HeaderInformation
• tm_projection_penalty() : core::scoring::MembranePotential
• tmh_inserted() : core::scoring::MembraneTopology
• tmhelix() : core::scoring::MembraneTopology
• tmregion() : core::scoring::MembraneTopology
• TMscore() : core::scoring::TMscore
• TMscoreStore() : core::scoring::TMscoreStore
• to_string() : core::fragment::picking_old::vall::scores::VallFragmentScore , core::id::NamedAtomID , core::id::SequenceMapping , core::kinematics::FoldTree , core::scoring::constraints::Constraint , core::sequence::CompositeSequence , core::sequence::Sequence , core::sequence::SequenceAlignment
• tol() : core::scoring::func::FlatHarmonicFunc
• top_fragments() : core::fragment::picking_old::vall::VallLibrarian
• topological_match_to() : core::kinematics::AtomTree
• topological_observers() : core::kinematics::AtomTree
• topology_feature() : core::scoring::methods::ProQ_Energy
• TopOutFunc() : core::scoring::func::TopOutFunc
• tor_for_dof() : core::pack::scmin::AtomTreeSCMinMinimizerMap , core::pack::scmin::CartSCMinMinimizerMap , core::pack::scmin::SCMinMinimizerMap
• torsion() : core::conformation::Conformation , core::fragment::BBTorsionSRFD , core::id::TorsionID , core::pose::Pose
• torsion2index() : core::util::ABEGOManager
• torsion2index_level1() : core::util::ABEGOManager
• torsion2index_level2() : core::util::ABEGOManager
• torsion2index_level3() : core::util::ABEGOManager
• torsion2index_level4() : core::util::ABEGOManager
• torsion_angle() : core::conformation::Conformation , core::kinematics::AtomTree
• torsion_angle_dof_id() : core::kinematics::AtomTree
• torsion_changes_move_other_monomers() : core::conformation::symmetry::SymmetryInfo
• torsion_id() : core::id::TorsionID_Range , core::optimization::DOF_Node
• torsion_id_begin() : core::kinematics::MoveMap
• torsion_id_end() : core::kinematics::MoveMap
• torsion_is_independent() : core::conformation::symmetry::SymmetryInfo
• torsion_parameters() : core::scoring::methods::ResidueCartBondedParameters
• torsion_potential() : core::scoring::rna::RNA_EnergyMethodOptions
• torsion_scale_factor() : core::optimization::MinimizerMap , core::optimization::symmetry::SymMinimizerMap
• torsion_type_begin() : core::kinematics::MoveMap
• torsion_type_end() : core::kinematics::MoveMap
• TorsionFourierComponent() : core::scoring::dna::TorsionFourierComponent
• TorsionID() : core::id::TorsionID
• TorsionID_Range() : core::id::TorsionID_Range
• tot_score() : core::scoring::motif::XformScore
• total() : core::scoring::saxs::DistanceHistogram
• total_atoms() : core::pose::Pose
• total_energies() : core::scoring::Energies
• total_energy() : core::pack::interaction_graph::SimpleInteractionGraph , core::scoring::Energies , core::scoring::loop_graph::LoopGraph , core::scoring::saxs::SAXSEnergy
• total_number_abego() : core::util::ABEGOManager
• total_residue() : core::fragment::SecondaryStructure , core::kinematics::ResidueCoordinateChangeList , core::pack::rotamer_set::ContinuousRotamerSets , core::pack::rotamer_set::RotamerSets , core::pack::rotamer_set::RotamerSetsBase , core::pack::rotamer_set::RotamerSubsets , core::pack::rotamer_set::UnboundRotamersOperation , core::pack::task::PackerTask , core::pack::task::PackerTask_ , core::pose::MiniPose , core::pose::Pose , core::scoring::trie::TrieCollection
• total_rotamers_2_unique_rotamers() : core::scoring::trie::RotamerTrie< AT, CPDATA >
• trace() : core::io::rna::RDAT , core::scoring::packstat::trace
• traceback() : core::sequence::Aligner
• track_hpatch_E_min() : core::pack::interaction_graph::HPatchInteractionGraph< V, E, G >
• track_max_magnitude_surface_deltaE() : core::pack::interaction_graph::SurfaceBackgroundEdge< V, E, G > , core::pack::interaction_graph::SurfaceEdge< V, E, G >
• track_surface_E_min() : core::pack::interaction_graph::SurfaceNode< V, E, G >
• trajectory_file_name() : core::pack::annealer::FixbbSimAnnealer
• transfer_constraint_set() : core::pose::Pose
• transform() : core::conformation::UltraLightResidue
• transform_Ax_plus_b_recursive() : core::kinematics::tree::Atom , core::kinematics::tree::Atom_
• translate() : core::grid::CartGrid< T >
• translation_along_axis() : core::kinematics::Jump
• Translator() : core::coarse::Translator
• TranslatorSet() : core::coarse::TranslatorSet
• tree_edge() : core::chemical::RerootRestypeVisitor
• tree_from_jumps_and_cuts() : core::kinematics::FoldTree
• TreeVizBuilder() : core::kinematics::TreeVizBuilder
• trie() : core::scoring::trie::TrieCollection
• trie_vs_path() : core::scoring::etable::AnalyticEtableEvaluator , core::scoring::etable::TableLookupEvaluator , core::scoring::trie::RotamerTrie< AT, CPDATA > , core::scoring::trie::RotamerTrieBase
• trie_vs_trie() : core::scoring::etable::AnalyticEtableEvaluator , core::scoring::etable::TableLookupEvaluator , core::scoring::trie::RotamerTrie< AT, CPDATA > , core::scoring::trie::RotamerTrieBase
• TrieCountPair1BC3() : core::scoring::etable::etrie::TrieCountPair1BC3
• TrieCountPair1BC4() : core::scoring::etable::etrie::TrieCountPair1BC4
• TrieCountPairAll() : core::scoring::etable::etrie::TrieCountPairAll
• TrieCountPairGeneric() : core::scoring::etable::etrie::TrieCountPairGeneric
• TrieNode() : core::scoring::trie::TrieNode< AT, CPDATA >
• trilinear_gradient() : core::scoring::electron_density_atomwise::ElectronDensityAtomwise
• trilinear_interpolation() : core::scoring::electron_density_atomwise::ElectronDensityAtomwise
• TrimPeripheralBand() : core::scoring::sc::ShapeComplementarityCalculator
• TrimPeripheralBandCheckDot() : core::scoring::sc::ShapeComplementarityCalculator
• TrueResidueSelector() : core::pack::task::residue_selector::TrueResidueSelector
• truncate_cenlist_values() : core::scoring::EnvPairPotential
• trySeveral_ciBRs() : core::pack::annealer::FASTERAnnealer
• twelveA_neighbor_graph() : core::scoring::Energies
• TwelveANeighborEdge() : core::scoring::TwelveANeighborEdge
• TwelveANeighborGraph() : core::scoring::TwelveANeighborGraph
• TwelveANeighborNode() : core::scoring::TwelveANeighborNode
• TwoBodyEnergy() : core::scoring::methods::TwoBodyEnergy
• type() : core::chemical::ICoorAtomID , core::chemical::ResidueLoaderOptions , core::conformation::Atom , core::conformation::orbitals::OrbitalXYZCoords , core::conformation::Residue , core::conformation::symmetry::SymmDataOptions , core::fragment::BBTorsionAndAnglesSRFD , core::fragment::BBTorsionSRFD , core::fragment::DownJumpSRFD , core::fragment::Frame , core::fragment::JumpingFrame , core::fragment::SecstructSRFD , core::fragment::SingleResidueFragData , core::fragment::UpJumpSRFD , core::id::DOF_ID , core::id::TorsionID , core::import_pose::ImportPoseOptions , core::io::pdb::FileDataOptions , core::io::pdb::PDB_DReaderOptions , core::io::silent::SilentFileOptions , core::optimization::DOF_Node , core::pack::dunbrack::DunbrackConstraint , core::pack::dunbrack::RotamerConstraint , core::scoring::constraints::AmbiguousConstraint , core::scoring::constraints::AmbiguousNMRConstraint , core::scoring::constraints::AmbiguousNMRDistanceConstraint , core::scoring::constraints::AngleConstraint , core::scoring::constraints::AtomPairConstraint , core::scoring::constraints::BackboneStubConstraint , core::scoring::constraints::BackboneStubLinearConstraint , core::scoring::constraints::BigBinConstraint , core::scoring::constraints::BoundFunc , core::scoring::constraints::ConstantConstraint , core::scoring::constraints::Constraint , core::scoring::constraints::CoordinateConstraint , core::scoring::constraints::DihedralConstraint , core::scoring::constraints::DihedralPairConstraint , core::scoring::constraints::DistancePairConstraint , core::scoring::constraints::FabConstraint , core::scoring::constraints::KofNConstraint , core::scoring::constraints::LocalCoordinateConstraint , core::scoring::constraints::MultiConstraint , core::scoring::constraints::SequenceProfileConstraint , core::scoring::constraints::SiteConstraint , core::scoring::constraints::SiteConstraintResidues , core::scoring::DC , core::scoring::electron_density::ElectronDensityOptions , core::scoring::motif::MotifHash , core::scoring::motif::ResPairMotif , core::scoring::RDC , core::scoring::RDC_Rohl , core::scoring::rna::data::RNA_Reactivity , core::sequence::CompositeSequence , core::sequence::ScoringScheme , core::sequence::Sequence , core::sequence::SequenceCoupling , core::sequence::SequenceProfile
• type1() : core::scoring::motif::MotifHash , core::scoring::motif::ResPairMotif
• type2() : core::scoring::motif::MotifHash , core::scoring::motif::ResPairMotif
• type_for_fake_atoms() : core::chemical::gasteiger::GasteigerAtomTypeSet
• types() : core::chemical::Patch