- v -

• V2Parser() : core::chemical::sdf::V2Parser
• V3Parser() : core::chemical::sdf::V3Parser
• valence_electrons_p() : core::chemical::ElectronConfiguration
• valence_electrons_s() : core::chemical::ElectronConfiguration
• valence_electrons_sp() : core::chemical::ElectronConfiguration
• valence_electrons_spd() : core::chemical::ElectronConfiguration
• valid() : core::graph::ArrayPoolElement< T > , core::graph::EdgeListConstIterator , core::graph::EdgeListIterator , core::id::AtomID , core::id::DOF_ID , core::id::JumpID , core::id::NamedAtomID , core::id::NamedStubID , core::id::StubID , core::id::TorsionID , core::kinematics::Edge , core::scoring::DimerPairing
• valid_ends() : core::scoring::dssp::StrandPairing
• validate_input() : core::sequence::Aligner
• VallFragmentEval() : core::fragment::picking_old::vall::eval::VallFragmentEval
• VallFragmentGen() : core::fragment::picking_old::vall::gen::VallFragmentGen
• VallFragmentScore() : core::fragment::picking_old::vall::scores::VallFragmentScore
• VallLibrarian() : core::fragment::picking_old::vall::VallLibrarian
• VallResidue() : core::fragment::picking_old::vall::VallResidue
• value() : core::io::silent::SilentEnergy , core::scoring::hbonds::FadeInterval
• value_deriv() : core::scoring::hbonds::FadeInterval
• values_for_aa() : core::sequence::MatrixScoringScheme
• variant_types() : core::chemical::ResidueType , core::pose::MiniPose
• variant_types_list() : core::pose::MiniPose
• variants_match() : core::chemical::ResidueType
• vd_from_index() : core::chemical::ResidueType
• vd_from_name() : core::chemical::ResidueType
• vdw_atom_list() : core::scoring::rna::RNA_AtomVDW
• vdw_calculation_annotated_sequence() : core::scoring::rna::RNA_ScoringInfo
• VDW_Energy() : core::scoring::vdwaals::VDW_Energy
• vdw_weight() : core::scoring::vdwaals::VDWTrieEvaluator
• VDWAtom() : core::scoring::vdwaals::VDWAtom
• VDWTrieCountPair1B() : core::scoring::vdwaals::VDWTrieCountPair1B
• VDWTrieEvaluator() : core::scoring::vdwaals::VDWTrieEvaluator
• vector_angle_cut() : core::pack::task::residue_selector::InterGroupInterfaceByVectorSelector
• vector_dist_cut() : core::pack::task::residue_selector::InterGroupInterfaceByVectorSelector
• verify_chain_setup() : core::pose::metrics::simple_calculators::InterfaceDefinitionCalculator
• verify_parameters_() : core::scoring::func::MixtureFunc
• verify_patch_areas_correct() : core::pack::interaction_graph::SurfaceNode< V, E, G >
• verify_phipsi_bins() : core::pack::dunbrack::cenrot::SingleResidueCenrotLibrary , core::pack::dunbrack::RotamericSingleResidueDunbrackLibrary< T >
• version() : core::pack::dunbrack::cenrot::CenRotDunEnergy , core::pack::dunbrack::DunbrackEnergy , core::pack::interaction_graph::HPatchEnergy , core::pack::interaction_graph::SurfaceEnergy , core::scoring::carbon_hbonds::CarbonHBondEnergy , core::scoring::constraints::ConstraintsEnergy , core::scoring::cryst::XtalMLEnergy , core::scoring::custom_pair_distance::FullatomCustomPairDistanceEnergy , core::scoring::disulfides::CentroidDisulfideEnergy , core::scoring::disulfides::DisulfideMatchingEnergy , core::scoring::disulfides::FullatomDisulfideEnergy , core::scoring::dna::DNAChiEnergy , core::scoring::dna::DNATorsionEnergy , core::scoring::elec::FA_ElecEnergy , core::scoring::elec::FA_ElecEnergyAroAll , core::scoring::elec::FA_ElecEnergyAroAro , core::scoring::elec::RNA_FA_ElecEnergy , core::scoring::electron_density::ElecDensAllAtomCenEnergy , core::scoring::electron_density::ElecDensCenEnergy , core::scoring::electron_density::ElecDensEnergy , core::scoring::electron_density::FastDensEnergy , core::scoring::electron_density::PattersonCorrEnergy , core::scoring::electron_density_atomwise::ElecDensAtomwiseEnergy , core::scoring::etable::AnalyticEtableEnergy , core::scoring::etable::TableLookupEtableEnergy , core::scoring::geometric_solvation::ContextIndependentGeometricSolEnergy , core::scoring::geometric_solvation::ExactOccludedHbondSolEnergy , core::scoring::geometric_solvation::GeometricSolEnergy , core::scoring::geometric_solvation::OccludedHbondSolEnergy , core::scoring::geometric_solvation::OccludedHbondSolEnergy_onebody , core::scoring::hackaro::HackAroEnergy , core::scoring::hbonds::HBondEnergy , core::scoring::interface_::DDPscore , core::scoring::loop_graph::LoopCloseEnergy , core::scoring::methods::BurialEnergy , core::scoring::methods::CartesianBondedEnergy , core::scoring::methods::CenHBEnergy , core::scoring::methods::CenPairEnergy , core::scoring::methods::CenRotEnvEnergy , core::scoring::methods::CenRotPairEnergy , core::scoring::methods::ChainbreakEnergy , core::scoring::methods::ChemicalShiftAnisotropyEnergy , core::scoring::methods::ContactOrderEnergy , core::scoring::methods::CustomAtomPairEnergy , core::scoring::methods::D2H_SA_Energy , core::scoring::methods::dfire::DFIRE_Energy , core::scoring::methods::DipolarCouplingEnergy , core::scoring::methods::DirectReadoutEnergy , core::scoring::methods::DistanceChainbreakEnergy , core::scoring::methods::DNA_BaseEnergy , core::scoring::methods::EnergyMethod , core::scoring::methods::EnvEnergy , core::scoring::methods::EnvSmoothEnergy , core::scoring::methods::Fa_MbenvEnergy , core::scoring::methods::Fa_MbsolvEnergy , core::scoring::methods::FACTSEnergy , core::scoring::methods::FreeMoietyEnergy , core::scoring::methods::FreeResidueBonusEnergy , core::scoring::methods::GaussianOverlapEnergy , core::scoring::methods::GenBornEnergy , core::scoring::methods::GoapEnergy , core::scoring::methods::HybridVDW_Energy , core::scoring::methods::IntermolEnergy , core::scoring::methods::LinearChainbreakEnergy , core::scoring::methods::LK_BallEnergy , core::scoring::methods::LK_hack , core::scoring::methods::LK_PolarNonPolarEnergy , core::scoring::methods::MembraneCbetaEnergy , core::scoring::methods::MembraneCenPairEnergy , core::scoring::methods::MembraneEnvEnergy , core::scoring::methods::MembraneEnvPenalties , core::scoring::methods::MembraneEnvSmoothEnergy , core::scoring::methods::MembraneLipo , core::scoring::methods::MissingEnergy , core::scoring::methods::MMBondAngleEnergy , core::scoring::methods::MMBondLengthEnergy , core::scoring::methods::MMLJEnergyInter , core::scoring::methods::MMLJEnergyIntra , core::scoring::methods::MMTorsionEnergy , core::scoring::methods::NMerPSSMEnergy , core::scoring::methods::NMerRefEnergy , core::scoring::methods::NMerSVMEnergy , core::scoring::methods::OmegaTetherEnergy , core::scoring::methods::OtherPoseEnergy , core::scoring::methods::P_AA_Energy , core::scoring::methods::P_AA_pp_Energy , core::scoring::methods::PackStatEnergy , core::scoring::methods::PairEnergy , core::scoring::methods::PeptideBondEnergy , core::scoring::methods::pHEnergy , core::scoring::methods::PoissonBoltzmannEnergy , core::scoring::methods::ProClosureEnergy , core::scoring::methods::ProQ_Energy , core::scoring::methods::Rama2BOffsetEnergy , core::scoring::methods::RamachandranEnergy2B , core::scoring::methods::RamachandranEnergy , core::scoring::methods::ReferenceEnergy , core::scoring::methods::ReferenceEnergyNoncanonical , core::scoring::methods::ResidualDipolarCouplingEnergy , core::scoring::methods::ResidualDipolarCouplingEnergy_Rohl , core::scoring::methods::RG_Energy_Fast , core::scoring::methods::RMS_Energy , core::scoring::methods::SA_Energy , core::scoring::methods::SecondaryStructureEnergy , core::scoring::methods::SequenceDependentRefEnergy , core::scoring::methods::SmoothCenPairEnergy , core::scoring::methods::SmoothEnvEnergy , core::scoring::methods::SuckerEnergy , core::scoring::methods::SymmetricLigandEnergy , core::scoring::methods::UnfoldedStateEnergy , core::scoring::methods::WaterAdductHBondEnergy , core::scoring::methods::WaterAdductIntraEnergy , core::scoring::methods::YHHPlanarityEnergy , core::scoring::nv::NVscore , core::scoring::orbitals::OrbitalsScore , core::scoring::packing::HolesEnergy , core::scoring::packing::HolesEnergyRes , core::scoring::packing::SurfEnergy , core::scoring::packing::SurfVolEnergy , core::scoring::rna::chemical_shift::RNA_ChemicalShiftEnergy , core::scoring::rna::RG_Energy_RNA , core::scoring::rna::RNA_BulgeEnergy , core::scoring::rna::RNA_DataBackboneEnergy , core::scoring::rna::RNA_FullAtomStackingEnergy , core::scoring::rna::RNA_FullAtomVDW_BasePhosphate , core::scoring::rna::RNA_LJ_BaseEnergy , core::scoring::rna::RNA_Mg_Energy , core::scoring::rna::RNA_PairwiseLowResolutionEnergy , core::scoring::rna::RNA_SugarCloseEnergy , core::scoring::rna::RNA_TorsionEnergy , core::scoring::rna::RNA_VDW_Energy , core::scoring::rna::StackElecEnergy , core::scoring::saxs::FastSAXSEnergy , core::scoring::saxs::SAXSEnergy , core::scoring::saxs::SAXSEnergyCreatorCEN , core::scoring::saxs::SAXSEnergyCreatorFA , core::scoring::sym_e::symEnergy , core::scoring::vdwaals::VDW_Energy , core::SVNVersion
• vertex() : core::chemical::ICoorAtomID , core::chemical::ResidueConnection
• vertex1() : core::chemical::orbitals::ICoorOrbitalData
• vertex2() : core::chemical::orbitals::ICoorOrbitalData
• vertex3() : core::chemical::orbitals::ICoorOrbitalData
• vertex_already_reached() : core::pack::interaction_graph::InteractionGraphBase
• viols() : core::scoring::func::CountViolFunc , core::scoring::func::SkipViolFunc
• virtual_cyclic_oxygen_index() : core::chemical::carbohydrates::CarbohydrateInfo
• VirtualCoordinate() : core::conformation::symmetry::VirtualCoordinate
• VirtualCoordinates() : core::conformation::symmetry::VirtualCoordinates
• visit() : core::conformation::AddEdgeVisitor< Vertex, Edge > , core::environment::FoldTreeSketch
• visited() : core::environment::FoldTreeSketch::Node
• volume() : core::scoring::FACTSRsdTypeInfo
• voxel_volume() : core::scoring::electron_density::ElectronDensity