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

- m -

• M : core::kinematics::Stub
• m_ : core::scoring::func::CircularSigmoidalFunc
• m_AtomTypesByDecreasingStability : core::chemical::gasteiger::PossibleAtomTypesForAtom
• m_FinalizeFunction : core::chemical::gasteiger::PossibleAtomTypesForAtom
• m_NumberAtomTypesWithHybridization : core::chemical::gasteiger::PossibleAtomTypesForAtom
• m_NumberConjugatedTypes : core::chemical::gasteiger::PossibleAtomTypesForAtom
• m_term_ : core::scoring::SecondaryStructurePotential
• m_term_initializer() : core::scoring::SecondaryStructurePotential
• MACQ_ : core::scoring::rna::chemical_shift::RNA_CS_residue_parameters
• MACR_ : core::scoring::rna::chemical_shift::RNA_CS_residue_parameters
• magentic_anisotropy_q_coeff() : core::scoring::rna::chemical_shift::RNA_CS_residue_parameters
• magentic_anisotropy_r_coeff() : core::scoring::rna::chemical_shift::RNA_CS_residue_parameters
• magnitude_last_surface_deltaE_ : core::pack::interaction_graph::SurfaceBackgroundEdge< V, E, G > , core::pack::interaction_graph::SurfaceEdge< V, E, G >
• main_group_ : core::chemical::Element
• mainchain_atom() : core::chemical::ResidueType , core::conformation::Residue
• mainchain_atoms() : core::chemical::ResidueType , core::conformation::Residue
• mainchain_atoms_ : core::chemical::ResidueType
• mainchain_atoms_indices_ : core::chemical::ResidueType
• mainchain_glycosidic_bond_acceptor() : core::chemical::carbohydrates::CarbohydrateInfo
• mainchain_glycosidic_bond_acceptor_ : core::chemical::carbohydrates::CarbohydrateInfo
• mainchain_torsion() : core::conformation::Residue , core::io::silent::RNA_SilentStruct
• mainchain_torsions() : core::conformation::Residue , core::io::silent::RNA_SilentStruct
• mainchain_torsions_ : core::conformation::Residue , core::io::silent::RNA_SilentStruct
• make_assymetric_movemap() : core::optimization::symmetry::SymAtomTreeMinimizer
• make_edge_vector_current() : core::graph::UEVertex< V, E >
• make_jump() : core::kinematics::Jump , core::kinematics::RT
• make_multifunc() : core::pack::scmin::AtomTreeSCMinMinimizerMap , core::pack::scmin::CartSCMinMinimizerMap , core::pack::scmin::SCMinMinimizerMap
• make_orbital_element_name() : core::chemical::orbitals::AssignOrbitals
• make_orbital_type_name() : core::chemical::orbitals::AssignOrbitals
• make_pairenergy_table() : core::scoring::etable::Etable , core::scoring::etable::MembEtable
• make_partially_soft_etable() : core::scoring::ScoringManager
• make_semisymmetric_movemap() : core::optimization::symmetry::SymAtomTreeMinimizer
• map() : core::id::CacheableAtomID_MapVector
• Map : core::scoring::constraints::ResidueConstraints
• map_ : core::fragment::MapCacheUnit< T > , core::id::CacheableAtomID_MapVector , core::scoring::constraints::ResidueConstraints , core::scoring::EMapVector
• map_atom_to_bead() : core::coarse::Translator
• map_is_clean_ : core::sequence::AnnotatedSequence
• map_loaded : core::scoring::electron_density::PattersonCorrEnergy
• map_orbital_name_to_enum() : core::chemical::orbitals::OrbitalTypeMapper
• map_reso : core::scoring::electron_density_atomwise::ElectronDensityAtomwise
• map_symmetric_res_pairs() : core::conformation::symmetry::SymmetryInfo
• map_to_CEN() : core::scoring::constraints::AmbiguousNMRDistanceConstraint
• map_type_ : core::scoring::cryst::PhenixInterface
• mapping() : core::id::SequenceMapping
• mapping_ : core::id::SequenceMapping , core::io::pdb::GeometricRenameIsomorphismCallback , core::scoring::constraints::SequenceProfileConstraint
• mapreso_ : core::scoring::electron_density::ElectronDensityOptions
• mapStringToRecord() : core::io::pdb::PDB_DReader
• mapto() : core::scoring::constraints::Obsolet_NamedAtomPairConstraint
• mark_energies_computed() : core::scoring::EnergyEdge
• mark_energies_uncomputed() : core::scoring::EnergyEdge
• mark_energy_computed() : core::scoring::constraints::CstResNeighbIterator , core::scoring::DenseNeighborIterator , core::scoring::disulfides::CentroidDisulfideEnergyContainer , core::scoring::disulfides::CentroidDisulfideNeighborIterator , core::scoring::disulfides::DisulfideMatchingEnergyContainer , core::scoring::disulfides::DisulfideMatchingNeighborIterator , core::scoring::disulfides::DisulfResNeighbIterator , core::scoring::disulfides::FullatomDisulfideEnergyContainer , core::scoring::OneToAllNeighborIterator , core::scoring::PeptideBondedNeighborIterator , core::scoring::ResidueNeighborIterator
• mark_energy_uncomputed() : core::scoring::constraints::CstResNeighbIterator , core::scoring::DenseNeighborIterator , core::scoring::disulfides::CentroidDisulfideEnergyContainer , core::scoring::disulfides::CentroidDisulfideNeighborIterator , core::scoring::disulfides::DisulfideMatchingEnergyContainer , core::scoring::disulfides::DisulfideMatchingNeighborIterator , core::scoring::disulfides::DisulfResNeighbIterator , core::scoring::disulfides::FullatomDisulfideEnergyContainer , core::scoring::OneToAllNeighborIterator , core::scoring::PeptideBondedNeighborIterator , core::scoring::ResidueNeighborIterator
• mark_incomplete() : core::chemical::ResConnID
• mark_residue_moved() : core::kinematics::ResidueCoordinateChangeList
• mark_revision_id_expired() : core::scoring::constraints::ConstraintSet
• mark_rotwell_exists() : core::pack::dunbrack::SingleResidueDunbrackLibrary , core::pack::dunbrack::SingleResiduePeptoidLibrary
• maskbits_ : core::scoring::sasa::LeGrandSasa
• maskResidues() : core::scoring::electron_density::ElectronDensity
• masks_ : core::scoring::sasa::LeGrandSasa
• Mass : core::chemical::Element
• mass() : core::chemical::ResidueType
• mass_ : core::chemical::ResidueType
• master() : core::conformation::ConformationKinWriter , core::conformation::ResidueKinWriter
• master_ : core::conformation::ConformationKinWriter , core::conformation::ResidueKinWriter
• match_aa1() : core::scoring::motif::ResPairMotifQuery
• match_aa1_ : core::scoring::motif::ResPairMotifQuery
• match_aa2() : core::scoring::motif::ResPairMotifQuery
• match_aa2_ : core::scoring::motif::ResPairMotifQuery
• match_chi_rmsd() : core::scoring::motif::ResPairMotifQuery
• match_chi_rmsd_ : core::scoring::motif::ResPairMotifQuery
• match_fragment() : core::scoring::electron_density::ElectronDensity
• match_index : core::indexed_structure_store::FragmentLookupResult
• match_radius() : core::scoring::motif::ResPairMotifQuery
• match_radius_ : core::scoring::motif::ResPairMotifQuery
• match_rmsd : core::indexed_structure_store::FragmentLookupResult
• match_rmsd_threshold : core::indexed_structure_store::FragmentLookupResult
• match_score : core::indexed_structure_store::FragmentLookupResult , core::sequence::SimpleScoringScheme
• match_score_ : core::sequence::SimpleScoringScheme
• match_ss1() : core::scoring::motif::ResPairMotifQuery
• match_ss1_ : core::scoring::motif::ResPairMotifQuery
• match_ss2() : core::scoring::motif::ResPairMotifQuery
• match_ss2_ : core::scoring::motif::ResPairMotifQuery
• match_variants() : core::chemical::ResidueSelector
• matchCentroidPose() : core::scoring::electron_density::ElectronDensity
• matched_tags() : core::io::silent::SilentFileData
• matches() : core::scoring::constraints::CstEnergyContainer
• matching_database_ : core::scoring::disulfides::DisulfideMatchingPotential
• matchPointFast() : core::scoring::electron_density::ElectronDensity
• matchPose() : core::scoring::electron_density::ElectronDensity
• matchPoseToPatterson() : core::scoring::electron_density::ElectronDensity
• matchRes() : core::scoring::electron_density::ElectronDensity
• matchResFast() : core::scoring::electron_density::ElectronDensity
• Matrix : core::chemical::RigidDistanceVisitor , core::conformation::symmetry::SymmData , core::kinematics::Jump , core::kinematics::RT , core::kinematics::Stub , core::kinematics::tree::Atom , core::scoring::dna::DNA_BasePotential , core::scoring::symmetry::SymmetricEnergies , core::sequence::DP_Matrix
• MatrixScoringScheme() : core::sequence::MatrixScoringScheme
• max() : core::id::DOF_ID_Range , core::id::TorsionID_Range
• max0_ : core::scoring::hbonds::FadeInterval
• max_ : core::id::DOF_ID_Range , core::id::TorsionID_Range , core::scoring::func::EtableFunc
• max_atom_depth() : core::scoring::trie::RotamerTrie< AT, CPDATA >
• max_atom_depth_ : core::scoring::trie::RotamerTrie< AT, CPDATA >
• max_atom_radius() : core::pack::interaction_graph::RotamerDots
• max_atom_types() : core::scoring::packing::HolesParams
• max_atom_types_ : core::scoring::packing::HolesParams
• max_atomic_interaction_cutoff() : core::scoring::ScoreFunction
• max_atomic_interaction_distance() : core::scoring::ScoreFunctionInfo
• max_atomic_interaction_distance_ : core::scoring::ScoreFunctionInfo
• max_atoms_per_rotamer_ : core::scoring::trie::RotamerTrie< AT, CPDATA >
• max_bin_ : core::scoring::PairEPotential
• max_branch_depth() : core::scoring::trie::RotamerTrie< AT, CPDATA >
• max_branch_depth_ : core::scoring::trie::RotamerTrie< AT, CPDATA >
• MAX_C_SIZE_LIMIT : core::chemical::carbohydrates::CarbohydrateInfo
• max_ca_dis2() : core::scoring::motif::ResPairMotifQuery
• max_ca_dis2_ : core::scoring::motif::ResPairMotifQuery
• max_chi() : core::io::silent::ProteinSilentStruct_Template< T >
• max_chi_ : core::io::silent::ProteinSilentStruct_Template< T >
• max_connpoints_for_residue() : core::scoring::trie::CPDataCorrespondence
• max_connpoints_for_residue_ : core::scoring::trie::CPDataCorrespondence
• max_context_neighbor_cutoff() : core::scoring::Energies , core::scoring::ScoreFunctionInfo
• max_context_neighbor_cutoff_ : core::scoring::Energies , core::scoring::ScoreFunctionInfo
• max_cst_seq_sep_ : core::scoring::methods::CustomAtomPairEnergy
• max_del_grid : core::scoring::electron_density_atomwise::ElectronDensityAtomwise
• max_dis() : core::scoring::carbon_hbonds::CarbonHBondPotential , core::scoring::custom_pair_distance::DistanceFunc , core::scoring::etable::coulomb::Coulomb , core::scoring::etable::Etable , core::scoring::etable::EtableOptions , core::scoring::etable::MembEtable , core::scoring::methods::GoapEnergy
• max_dis2() : core::scoring::carbon_hbonds::CarbonHBondEnergy , core::scoring::etable::coulomb::Coulomb , core::scoring::etable::Etable , core::scoring::etable::MembEtable
• max_dis2_ : core::scoring::carbon_hbonds::CarbonHBondEnergy , core::scoring::etable::coulomb::Coulomb
• max_dis_ : core::scoring::carbon_hbonds::CarbonHBondEnergy , core::scoring::custom_pair_distance::FullatomCustomPairDistanceEnergy , core::scoring::etable::coulomb::Coulomb , core::scoring::etable::Etable , core::scoring::etable::MembEtable , core::scoring::methods::FACTSEnergy , core::scoring::methods::GoapEnergy , core::scoring::methods::LK_PolarNonPolarEnergy
• max_dist() : core::kinematics::ShortestPathInFoldTree , core::scoring::mm::MMLJEnergyTable
• max_dist_ : core::kinematics::ShortestPathInFoldTree , core::scoring::carbon_hbonds::CarbonHBondPotential , core::scoring::mm::MMLJEnergyTable , core::scoring::saxs::DistanceHistogram
• max_dist_from_dot_to_intersection : core::pack::interaction_graph::InvRotamerDots
• max_dist_squared_ : core::scoring::orbitals::OrbitalsScore
• max_e_contribution_to_pi_system_ : core::chemical::gasteiger::GasteigerAtomTypeData
• max_frag_length() : core::fragment::FragSet
• max_frag_length_ : core::fragment::FragSet
• max_gap_percentage() : core::sequence::SequenceAlignment
• max_heavy_heavy_cutoff() : core::scoring::etable::Etable
• max_heavy_hydrogen_cutoff() : core::scoring::etable::Etable
• max_heavy_hydrogen_cutoff_ : core::scoring::etable::Etable
• max_heavyatom_depth() : core::scoring::trie::RotamerTrie< AT, CPDATA >
• max_heavyatom_depth_ : core::scoring::trie::RotamerTrie< AT, CPDATA >
• MAX_HPATCH_AREA : core::pack::interaction_graph::SurfacePotential
• MAX_HPATCH_SCORE : core::pack::interaction_graph::SurfacePotential
• max_hphobe_atoms_any_restype() : core::pack::interaction_graph::HPatchNode< V, E, G >
• max_hphobes_ : core::pack::interaction_graph::HPatchNode< V, E, G >
• max_hydrogen_hydrogen_cutoff() : core::scoring::etable::Etable
• max_hydrogen_hydrogen_cutoff_ : core::scoring::etable::Etable
• max_hydrogen_lj_radius() : core::scoring::etable::Etable , core::scoring::etable::MembEtable
• max_hydrogen_lj_radius_ : core::scoring::etable::Etable , core::scoring::etable::MembEtable
• max_iter() : core::optimization::MinimizerOptions
• max_iter_ : core::optimization::MinimizerOptions
• max_non_hydrogen_lj_radius() : core::scoring::etable::Etable , core::scoring::etable::MembEtable
• max_non_hydrogen_lj_radius_ : core::scoring::etable::Etable , core::scoring::etable::MembEtable
• max_orbital_dist_squared_ : core::scoring::orbitals::OrbitalsScore
• MAX_PATCH_SURFACE_AREA : core::pack::interaction_graph::SurfaceBackgroundNode< V, E, G > , core::pack::interaction_graph::SurfaceNode< V, E, G > , core::pack::interaction_graph::SurfacePotential
• max_pos() : core::fragment::FragSet
• max_pos_ : core::fragment::FragSet
• max_rot_bumpenergy_ : core::pack::rotamer_set::BumpSelector
• MAX_ROT_ENERGY : core::pack::dunbrack::cenrot::SingleResidueCenrotLibrary
• max_rot_num : core::pack::dunbrack::cenrot::SingleResidueCenrotLibrary
• max_rotbump_energy() : core::pack::task::PackerTask , core::pack::task::PackerTask_
• max_rotbump_energy_ : core::pack::task::PackerTask_
• max_score() : core::scoring::motif::XformScore
• max_strand_dist_cutoff_ : core::scoring::SecondaryStructureWeights
• max_surface_deltaE_last_50_commits_ : core::pack::interaction_graph::SurfaceBackgroundEdge< V, E, G > , core::pack::interaction_graph::SurfaceEdge< V, E, G >
• max_surface_deltaE_recent_50_commits_ : core::pack::interaction_graph::SurfaceBackgroundEdge< V, E, G > , core::pack::interaction_graph::SurfaceEdge< V, E, G >
• MAX_SURFACE_ENERGY : core::pack::interaction_graph::SurfaceBackgroundNode< V, E, G > , core::pack::interaction_graph::SurfaceNode< V, E, G > , core::pack::interaction_graph::SurfacePotential
• max_valence_electrons_sp() : core::chemical::ElectronConfiguration
• MaxAngularMomentumQuantumNumber : core::chemical::ElectronConfiguration
• maxatoms_ : core::scoring::rna::chemical_shift::RNA_CS_residue_parameters
• maxd2 : core::scoring::etable::EtableParamsOnePair
• maxDist : core::coarse::CoarseEtable
• maxID : core::coarse::CoarseEtable
• maxNominalRes() : core::scoring::electron_density::ElectronDensity
• maxouteriterations : core::pack::annealer::SimAnnealerBase
• MaxPrincipleQuantumNumber : core::chemical::ElectronConfiguration
• maxsub : core::scoring::TMscoreStore
• maxsub_max : core::scoring::TMscoreStore
• maxsub_sum : core::scoring::TMscoreStore
• maxType : core::coarse::CoarseEtable
• maxz_ : core::scoring::ResidualDipolarCoupling
• Mbhbond() : core::scoring::hbonds::HBondOptions
• Mbhbond_ : core::scoring::hbonds::HBondOptions
• mca_history_size_ : core::pack::task::PackerTask_
• MCAligner() : core::sequence::MCAligner
• mean() : core::scoring::dna::DNA_BasePotential
• mean1_ : core::scoring::func::SoedingFunc
• mean2_ : core::scoring::func::SoedingFunc
• mean_ : core::chemical::AddChiRotamer , core::scoring::dna::DNA_BasePotential , core::scoring::func::GaussianFunc , core::scoring::methods::D2H_SA_Energy
• means_ : core::scoring::disulfides::Cb_Distance_Func , core::scoring::func::SOGFunc_Impl , core::scoring::func::USOGFunc
• measure_chi4() : core::scoring::methods::ProClosureEnergy
• measure_sp3acc_BAH_from_hvy() : core::scoring::hbonds::HBondOptions
• measure_sp3acc_BAH_from_hvy_ : core::scoring::hbonds::HBondOptions
• median_ : core::pack::dunbrack::BBIndNRChiSample< P >
• mem_cbeta_2TM_den12() : core::scoring::membrane::MembraneData
• mem_cbeta_2TM_den12_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• mem_cbeta_2TM_den6() : core::scoring::membrane::MembraneData
• mem_cbeta_2TM_den6_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• mem_cbeta_4TM_den12() : core::scoring::membrane::MembraneData
• mem_cbeta_4TM_den12_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• mem_cbeta_4TM_den6() : core::scoring::membrane::MembraneData
• mem_cbeta_4TM_den6_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• mem_cbeta_den12() : core::scoring::membrane::MembraneData
• mem_cbeta_den12_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• mem_cbeta_den6() : core::scoring::membrane::MembraneData
• mem_cbeta_den6_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• mem_env_log10() : core::scoring::membrane::MembraneData
• mem_env_log10_ : core::scoring::membrane::FaMPEnvSmoothEnergy , core::scoring::membrane::MembraneData , core::scoring::MembranePotential , core::scoring::methods::MembraneEnvSmoothEnergy
• mem_env_log6() : core::scoring::membrane::MembraneData
• mem_env_log6_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• mem_footprint() : core::io::silent::ProteinSilentStruct_Template< T > , core::io::silent::SilentStruct
• mem_pair_log() : core::scoring::membrane::MembraneData
• mem_pair_log_ : core::scoring::membrane::MembraneData , core::scoring::MembranePotential
• memb_atom_pair_energy() : core::scoring::etable::BaseEtableEnergy< Derived >
• memb_atom_pair_energy_() : core::scoring::etable::BaseEtableEnergy< Derived >
• memb_center_search_ : core::scoring::MembranePotential
• memb_dsolv1() : core::scoring::etable::MembEtable
• memb_dsolv1_ : core::scoring::etable::MembEtable , core::scoring::membrane::FaMPSolvEnergy , core::scoring::methods::Fa_MbsolvEnergy
• memb_dsolv2() : core::scoring::etable::MembEtable
• memb_dsolv2_ : core::scoring::etable::MembEtable , core::scoring::membrane::FaMPSolvEnergy , core::scoring::methods::Fa_MbsolvEnergy
• memb_dsolv_ : core::scoring::etable::BaseEtableEnergy< Derived >
• memb_etable() : core::scoring::ScoringManager
• memb_etable_ : core::scoring::membrane::FaMPEnvEnergy , core::scoring::membrane::FaMPSolvEnergy , core::scoring::methods::Fa_MbenvEnergy , core::scoring::methods::Fa_MbsolvEnergy
• memb_etables_ : core::scoring::ScoringManager
• memb_eval_dE_dR_over_r() : core::scoring::etable::BaseEtableEnergy< Derived >
• memb_eval_dE_dR_over_r_() : core::scoring::etable::BaseEtableEnergy< Derived >
• memb_lk_dgfree() : core::scoring::etable::MembEtable
• memb_lk_dgfree_ : core::scoring::etable::MembEtable
• memb_lk_dgrefce() : core::scoring::etable::MembEtable
• memb_lk_dgrefce_ : core::scoring::etable::MembEtable , core::scoring::membrane::FaMPEnvEnergy , core::scoring::methods::Fa_MbenvEnergy
• memb_normal_search_ : core::scoring::MembranePotential
• memb_solv1() : core::scoring::etable::MembEtable
• memb_solv1_ : core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::etable::MembEtable , core::scoring::membrane::FaMPSolvEnergy , core::scoring::methods::Fa_MbsolvEnergy
• memb_solv2() : core::scoring::etable::MembEtable
• memb_solv2_ : core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::etable::MembEtable , core::scoring::membrane::FaMPSolvEnergy , core::scoring::methods::Fa_MbsolvEnergy
• Membed_init() : core::scoring::MembranePotential
• Membed_init_ : core::scoring::MembranePotential
• member_ : core::scoring::func::SOGFunc
• member_atoms_ : core::scoring::constraints::MultiConstraint
• member_constraints() : core::scoring::constraints::MultiConstraint
• member_constraints_ : core::scoring::constraints::MultiConstraint
• member_residues_ : core::scoring::constraints::MultiConstraint
• MembEtable() : core::scoring::etable::MembEtable
• membrane() : core::import_pose::ImportPoseOptions
• membrane_ : core::import_pose::ImportPoseOptions
• membrane_center() : core::conformation::membrane::MembraneInfo
• membrane_center_magnitude_ : core::scoring::MembranePotential
• membrane_center_max_delta_ : core::scoring::MembranePotential
• MEMBRANE_EMBED : core::pose::datacache::CacheableDataType
• MEMBRANE_FAEMBED : core::pose::datacache::CacheableDataType
• Membrane_FAEmbed() : core::scoring::Membrane_FAEmbed
• Membrane_FAEmbed_from_pose() : core::scoring::methods::Fa_MbenvEnergy , core::scoring::methods::Fa_MbsolvEnergy
• Membrane_FAPotential() : core::scoring::Membrane_FAPotential
• membrane_fapotential_ : core::scoring::ScoringManager
• membrane_info() : core::conformation::Conformation
• membrane_info_ : core::conformation::Conformation
• membrane_jump() : core::conformation::membrane::MembraneInfo
• membrane_jump_ : core::conformation::membrane::MembraneInfo
• membrane_normal() : core::conformation::membrane::MembraneInfo
• membrane_normal_cycles_ : core::scoring::MembranePotential
• membrane_normal_delta_angle_ : core::scoring::MembranePotential
• membrane_normal_magnitude_ : core::scoring::MembranePotential
• membrane_normal_max_angle_ : core::scoring::MembranePotential
• membrane_normal_start_angle_ : core::scoring::MembranePotential
• MEMBRANE_POTENTIAL : core::pose::datacache::CacheableDataType
• membrane_potential_ : core::scoring::Membrane_FAPotential , core::scoring::ScoringManager
• membrane_rsd_num() : core::conformation::membrane::MembraneInfo
• membrane_rsd_num_ : core::conformation::membrane::MembraneInfo
• membrane_steepness() : core::conformation::membrane::MembraneInfo
• membrane_thickness() : core::conformation::membrane::MembraneInfo
• MEMBRANE_TOPOLOGY : core::pose::datacache::CacheableDataType
• MembraneCbetaEnergy() : core::scoring::methods::MembraneCbetaEnergy
• MembraneCenPairEnergy() : core::scoring::methods::MembraneCenPairEnergy
• MembraneData() : core::scoring::membrane::MembraneData
• MembraneEmbed() : core::scoring::MembraneEmbed
• MembraneEmbed_from_pose() : core::scoring::methods::Fa_MbenvEnergy
• MembraneEnvEnergy() : core::scoring::methods::MembraneEnvEnergy
• MembraneEnvPenalties() : core::scoring::methods::MembraneEnvPenalties
• MembraneEnvSmoothEnergy() : core::scoring::methods::MembraneEnvSmoothEnergy
• MembraneInfo() : core::conformation::membrane::MembraneInfo
• MembraneLipo() : core::scoring::methods::MembraneLipo
• MembranePotential() : core::scoring::MembranePotential
• MembraneTopology() : core::scoring::MembraneTopology
• MembraneTopology_from_pose() : core::scoring::methods::Fa_MbenvEnergy , core::scoring::methods::Fa_MbsolvEnergy , core::scoring::methods::MembraneCbetaEnergy , core::scoring::methods::MembraneCenPairEnergy , core::scoring::methods::MembraneEnvEnergy
• memory_max_for_rpes_ : core::pack::interaction_graph::DoubleLazyInteractionGraph
• memory_usage_dynamic() : core::pack::dunbrack::RotamericSingleResidueDunbrackLibrary< T > , core::pack::dunbrack::RotamericSingleResiduePeptoidLibrary< T > , core::pack::dunbrack::SemiRotamericSingleResidueDunbrackLibrary< T > , core::pack::dunbrack::SingleResidueDunbrackLibrary , core::pack::dunbrack::SingleResiduePeptoidLibrary
• memory_usage_in_bytes() : core::pack::dunbrack::SingleResidueDunbrackLibrary , core::pack::dunbrack::SingleResiduePeptoidLibrary
• memory_usage_static() : core::pack::dunbrack::RotamericSingleResidueDunbrackLibrary< T > , core::pack::dunbrack::RotamericSingleResiduePeptoidLibrary< T > , core::pack::dunbrack::SemiRotamericSingleResidueDunbrackLibrary< T > , core::pack::dunbrack::SingleResidueDunbrackLibrary , core::pack::dunbrack::SingleResiduePeptoidLibrary
• Menv_penalties() : core::scoring::MembranePotential
• Menv_penalties_ : core::scoring::MembranePotential
• merge() : core::fragment::Frame , core::scoring::dssp::StrandPairing , core::scoring::dssp::StrandPairingSet , core::scoring::ScoreFunction
• mergeable() : core::scoring::dssp::StrandPairing
• mest_ : core::scoring::disulfides::FullatomDisulfidePotential
• metal_binding_atoms_ : core::chemical::ResidueType
• metal_bond_angle_constraint_multiplier() : core::import_pose::ImportPoseOptions
• metal_bond_angle_constraint_multiplier_ : core::import_pose::ImportPoseOptions
• metal_bond_dist_constraint_multiplier() : core::import_pose::ImportPoseOptions
• metal_bond_dist_constraint_multiplier_ : core::import_pose::ImportPoseOptions
• metal_bond_LJ_multiplier() : core::import_pose::ImportPoseOptions
• metal_bond_LJ_multiplier_ : core::import_pose::ImportPoseOptions
• MetalloPlacementEnergy() : core::scoring::methods::MetalloPlacementEnergy
• MetaPoseInputStream() : core::import_pose::pose_stream::MetaPoseInputStream
• method_ : core::scoring::sasa::SasaCalc
• method_creator_map_ : core::scoring::ScoringManager
• method_type() : core::scoring::methods::ContextDependentLRTwoBodyEnergy , core::scoring::methods::ContextDependentOneBodyEnergy , core::scoring::methods::ContextDependentTwoBodyEnergy , core::scoring::methods::ContextIndependentLRTwoBodyEnergy , core::scoring::methods::ContextIndependentOneBodyEnergy , core::scoring::methods::ContextIndependentTwoBodyEnergy , core::scoring::methods::EnergyMethod , core::scoring::methods::WholeStructureEnergy
• method_type_ : core::scoring::sasa::SasaCalc
• method_weights() : core::scoring::methods::EnergyMethodOptions
• method_weights_ : core::scoring::methods::EnergyMethodOptions
• methods_by_score_type_ : core::scoring::ScoreFunction
• MethodWeights : core::scoring::methods::EnergyMethodOptions
• methyl_probe_dist_ : core::scoring::rna::data::RNA_DMS_Potential
• metric() : core::pose::Pose
• metric_calculators_ : core::pose::metrics::PoseMetricContainer
• metrics_ : core::pose::Pose
• mg_calculation_annotated_sequence() : core::scoring::rna::RNA_ScoringInfo
• mg_calculation_annotated_sequence_ : core::scoring::rna::RNA_ScoringInfo
• might_be_designing_ : core::scoring::rna::RNA_PairwiseLowResolutionEnergy , core::scoring::rna::StackElecEnergy
• min() : core::id::DOF_ID_Range , core::id::TorsionID_Range
• min0_ : core::scoring::hbonds::FadeInterval
• min_ : core::id::DOF_ID_Range , core::id::TorsionID_Range , core::scoring::func::EtableFunc
• MIN_C_SIZE_LIMIT : core::chemical::carbohydrates::CarbohydrateInfo
• min_cav_ball_radius : core::scoring::packstat::SasaOptions
• min_cluster_overlap : core::scoring::packstat::SasaOptions
• min_dis() : core::scoring::custom_pair_distance::DistanceFunc , core::scoring::etable::coulomb::Coulomb , core::scoring::etable::Etable , core::scoring::etable::MembEtable
• min_dis2() : core::scoring::etable::coulomb::Coulomb , core::scoring::etable::Etable , core::scoring::etable::MembEtable
• min_dis2_ : core::scoring::etable::coulomb::Coulomb
• min_dis_ : core::scoring::etable::coulomb::Coulomb
• min_dis_score_ : core::scoring::etable::coulomb::Coulomb
• min_dist() : core::scoring::mm::MMLJScore
• min_edge_count : core::kinematics::FoldTree
• min_error_ : core::optimization::GA_Minimizer
• min_hole_radius : core::scoring::packstat::SasaOptions
• min_map() : core::optimization::AtomTreeMultifunc , core::optimization::CartesianMultifunc
• min_map_ : core::optimization::AtomTreeMultifunc , core::optimization::CartesianMultifunc
• min_occ_energy_ : core::scoring::geometric_solvation::DatabaseOccSolEne
• min_orb_dist_enum_map_ : core::scoring::orbitals::OrbitalsScore
• min_pair_data_type() : core::scoring::etable::BaseEtableEnergy< Derived >
• min_params_ : core::scoring::packing::HolesEnergy
• min_pos() : core::fragment::FragSet
• min_pos_ : core::fragment::FragSet
• MIN_ROT_PROB : core::pack::dunbrack::cenrot::SingleResidueCenrotLibrary
• min_score_ : core::scoring::MinScoreScoreFunction
• MIN_SEQ_SEPARATIONS : core::scoring::methods::GoapEnergy
• min_single_data_type() : core::scoring::etable::BaseEtableEnergy< Derived >
• min_type() : core::optimization::MinimizerOptions
• min_type_ : core::optimization::MinimizerOptions
• mindata_from_pose() : core::scoring::methods::RG_Energy_Fast , core::scoring::methods::RG_LocalEnergy
• MinDebug() : core::optimization::symmetry::MinDebug
• mine() : core::graph::ArrayPool< T > , core::pack::interaction_graph::InteractionGraphBase
• minimization_edge_pool_ : core::scoring::MinimizationGraph
• minimization_graph() : core::scoring::Energies
• minimization_graph_ : core::scoring::Energies
• MinimizationEdge() : core::scoring::MinimizationEdge
• MinimizationGraph() : core::scoring::MinimizationGraph
• MinimizationNode() : core::scoring::MinimizationNode
• minimize_in_whole_structure_context() : core::pack::dunbrack::cenrot::CenRotDunEnergy , core::pack::dunbrack::DunbrackEnergy , core::scoring::carbon_hbonds::CarbonHBondEnergy , core::scoring::constraints::ConstraintsEnergy , core::scoring::custom_pair_distance::FullatomCustomPairDistanceEnergy , core::scoring::disulfides::FullatomDisulfideEnergy , core::scoring::elec::FA_ElecEnergy , core::scoring::elec::FA_ElecEnergyAroAll , core::scoring::elec::FA_ElecEnergyAroAro , core::scoring::elec::FA_GrpElecEnergy , core::scoring::elec::RNA_FA_ElecEnergy , core::scoring::etable::BaseEtableEnergy< Derived > , core::scoring::geometric_solvation::ContextDependentGeometricSolEnergy , core::scoring::geometric_solvation::ContextIndependentGeometricSolEnergy , core::scoring::geometric_solvation::OccludedHbondSolEnergy , core::scoring::hbonds::HBondEnergy , core::scoring::methods::CartesianBondedEnergy , core::scoring::methods::EnergyMethod , core::scoring::methods::GoapEnergy , core::scoring::methods::LK_BallEnergy , core::scoring::methods::NMerPSSMEnergy , core::scoring::methods::NMerRefEnergy , core::scoring::methods::NMerSVMEnergy , core::scoring::methods::OmegaTetherEnergy , core::scoring::methods::P_AA_pp_Energy , core::scoring::methods::PairEnergy , core::scoring::methods::ProClosureEnergy , core::scoring::methods::Rama2BOffsetEnergy , core::scoring::methods::RamachandranEnergy , core::scoring::methods::ReferenceEnergy , core::scoring::methods::SequenceDependentRefEnergy , core::scoring::methods::YHHPlanarityEnergy , core::scoring::orbitals::OrbitalsScore , core::scoring::rna::RNA_SuiteEnergy , core::scoring::rna::StackElecEnergy
• minimize_tolerance() : core::optimization::MinimizerOptions
• minimize_tolerance_ : core::optimization::GA_Minimizer , core::optimization::MinimizerOptions
• Minimizer() : core::optimization::Minimizer
• MinimizerMap() : core::optimization::MinimizerMap
• MinimizerMapBase() : core::kinematics::MinimizerMapBase
• MinimizerOptions() : core::optimization::MinimizerOptions
• minimum_sampling_probability() : core::scoring::Ramachandran2B , core::scoring::Ramachandran
• minimumB : core::scoring::electron_density::ElectronDensity
• MiniPose() : core::pose::MiniPose
• MINMULT : core::scoring::electron_density::ElectronDensity
• MinMultiHarmonicFunc() : core::scoring::func::MinMultiHarmonicFunc
• MinScoreScoreFunction() : core::scoring::MinScoreScoreFunction
• misc1_ : core::scoring::motif::ResPairMotif
• mismatch_score() : core::sequence::SimpleScoringScheme
• mismatch_score_ : core::sequence::SimpleScoringScheme
• missing_dens_as_jump() : core::io::pdb::FileDataOptions
• missing_dens_as_jump_ : core::io::pdb::FileDataOptions
• missing_residues() : core::scoring::loop_graph::LoopGraph
• MissingEnergy() : core::scoring::methods::MissingEnergy
• mixture_param_ : core::scoring::func::MixtureFunc
• MixtureFunc() : core::scoring::func::MixtureFunc
• ml : core::scoring::cryst::XtalMLEnergy
• mm_atom_name() : core::conformation::Residue
• mm_atom_pair_atr_deriv_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_pair_atr_energy_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_pair_atr_three_bond_deriv_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_pair_atr_three_bond_energy_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_pair_rep_deriv_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_pair_rep_energy_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_pair_rep_three_bond_deriv_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_pair_rep_three_bond_energy_table_ : core::scoring::mm::MMLJEnergyTable
• mm_atom_set() : core::scoring::mm::MMLJLibrary
• mm_atom_set_ : core::scoring::mm::MMBondAngleLibrary , core::scoring::mm::MMBondLengthLibrary , core::scoring::mm::MMLJLibrary , core::scoring::mm::MMTorsionLibrary
• mm_atom_type() : core::chemical::ResidueType , core::scoring::mm::mmtrie::MMEnergyTableAtom
• mm_atom_type_index() : core::chemical::Atom
• mm_atom_type_index_ : core::chemical::Atom
• mm_atom_type_name() : core::chemical::Adduct
• mm_atom_type_name_ : core::chemical::AddAtom , core::chemical::Adduct , core::chemical::SetMMAtomType
• mm_atom_type_set() : core::chemical::ChemicalManager , core::chemical::ResidueTypeSet
• mm_atom_type_set_tag() : core::chemical::ResidueLoaderOptions
• mm_atom_type_set_tag_ : core::chemical::ResidueLoaderOptions
• mm_atom_type_sets_ : core::chemical::ChemicalManager
• mm_atom_types_ : core::chemical::ResidueType , core::chemical::ResidueTypeSet
• mm_bondangle_library() : core::scoring::mm::MMBondAngleResidueTypeParamSet
• mm_bondangle_library_ : core::scoring::mm::MMBondAngleResidueTypeParamSet , core::scoring::mm::MMBondAngleScore , core::scoring::ScoringManager
• mm_bondlength_library_ : core::scoring::mm::MMBondLengthLibrary , core::scoring::mm::MMBondLengthScore , core::scoring::ScoringManager
• mm_lj_energy_table_ : core::scoring::ScoringManager
• mm_lj_library() : core::scoring::mm::MMLJScore
• mm_lj_library_ : core::scoring::mm::MMLJLibrary , core::scoring::mm::MMLJScore , core::scoring::ScoringManager
• mm_lj_score() : core::scoring::mm::MMLJEnergyTable
• mm_lj_score_ : core::scoring::mm::MMLJEnergyTable
• mm_lj_three_bond_library_ : core::scoring::mm::MMLJLibrary
• mm_name() : core::chemical::Atom
• mm_name_ : core::chemical::Atom
• mm_torsion_library_ : core::scoring::mm::MMTorsionScore , core::scoring::ScoringManager
• mm_type() : core::conformation::Atom
• mm_type_ : core::conformation::Atom
• MMAtomType() : core::chemical::MMAtomType
• MMAtomTypeSet() : core::chemical::MMAtomTypeSet
• MMAtomTypeSets : core::chemical::ChemicalManager
• MMBondAngleEnergy() : core::scoring::methods::MMBondAngleEnergy
• MMBondAngleLibrary() : core::scoring::mm::MMBondAngleLibrary
• MMBondAngleResidueTypeParam() : core::scoring::mm::MMBondAngleResidueTypeParam
• MMBondAngleResidueTypeParamSet() : core::scoring::mm::MMBondAngleResidueTypeParamSet
• MMBondAngleScore() : core::scoring::mm::MMBondAngleScore
• MMBondLengthEnergy() : core::scoring::methods::MMBondLengthEnergy
• MMBondLengthLibrary() : core::scoring::mm::MMBondLengthLibrary
• MMBondLengthScore() : core::scoring::mm::MMBondLengthScore
• MMEnergyTableAtom() : core::scoring::mm::mmtrie::MMEnergyTableAtom
• MMLJEnergyInter() : core::scoring::methods::MMLJEnergyInter
• MMLJEnergyIntra() : core::scoring::methods::MMLJEnergyIntra
• MMLJEnergyTable() : core::scoring::mm::MMLJEnergyTable
• MMLJLibrary() : core::scoring::mm::MMLJLibrary
• MMLJScore() : core::scoring::mm::MMLJScore
• MMLJScoreTable : core::scoring::mm::MMLJEnergyTable
• MMTorsionEnergy() : core::scoring::methods::MMTorsionEnergy
• MMTorsionLibrary() : core::scoring::mm::MMTorsionLibrary
• MMTorsionScore() : core::scoring::mm::MMTorsionScore
• MNBRAK() : core::optimization::BrentLineMinimization
• mnx_ : core::scoring::packstat::Octree2D
• mny_ : core::scoring::packstat::Octree2D
• MOD : core::scoring::Energies
• mode_tokens_ : core::pack::task::ResidueLevelTask_
• modeltag : core::io::pdb::FileData , core::pose::PDBInfo
• modeltag_ : core::pose::PDBInfo
• modifications_ : core::chemical::carbohydrates::CarbohydrateInfo
• modify_pot() : core::scoring::etable::MembEtable
• modify_pot_one_pair() : core::scoring::etable::Etable
• modify_task() : core::pack::task::TaskFactory
• MOL_ID : core::io::pdb::HeaderInformation
• MolecularSurfaceCalculator() : core::scoring::sc::MolecularSurfaceCalculator
• MOLECULE : core::io::pdb::HeaderInformation
• molecule : core::scoring::sc::Atom
• molecule_string_data_ : core::chemical::sdf::MolFileIOMolecule
• MolFileIOAtom() : core::chemical::sdf::MolFileIOAtom
• MolFileIOBond() : core::chemical::sdf::MolFileIOBond
• MolFileIOMolecule() : core::chemical::sdf::MolFileIOMolecule
• MolFileIOReader() : core::chemical::sdf::MolFileIOReader
• molgraph_ : core::chemical::sdf::MolFileIOMolecule
• moltenres_2_resid() : core::pack::rotamer_set::RotamerSets , core::pack::rotamer_set::RotamerSetsBase , core::pack::rotamer_set::RotamerSubsets
• moltenres_2_resid_ : core::pack::rotamer_set::RotamerSets , core::pack::rotamer_set::RotamerSubsets
• moltenres_2_resid_vector() : core::pack::rotamer_set::FixbbRotamerSets , core::pack::rotamer_set::RotamerSets , core::pack::rotamer_set::RotamerSubsets
• moltenres_atomtree_collection() : core::pack::scmin::AtomTreeCollection
• moltenres_for_rotamer() : core::pack::rotamer_set::RotamerSets , core::pack::rotamer_set::RotamerSetsBase , core::pack::rotamer_set::RotamerSubsets
• moltenres_for_rotamer_ : core::pack::rotamer_set::RotamerSets , core::pack::rotamer_set::RotamerSubsets
• moltenres_for_sample_rot() : core::pack::rotamer_set::ContinuousRotamerSets
• moltenres_for_sample_rot_ : core::pack::rotamer_set::ContinuousRotamerSets
• moltenres_rotid_2_rotid() : core::pack::rotamer_set::RotamerSets , core::pack::rotamer_set::RotamerSetsBase , core::pack::rotamer_set::RotamerSubsets
• moltenres_sample_rot_offset_ : core::pack::rotamer_set::ContinuousRotamerSets
• moltenresid : core::pack::annealer::RotSub
• moltenresid_2_resid() : core::pack::rotamer_set::ContinuousRotamerSets
• moltenresid_2_resid_ : core::pack::rotamer_set::ContinuousRotamerSets , core::pack::scmin::AtomTreeCollection
• MolWriter() : core::chemical::sdf::MolWriter
• momento_for_moltenres() : core::pack::scmin::SidechainStateAssignment
• monomer_test() : core::scoring::elec::FA_ElecEnergy , core::scoring::elec::FA_GrpElecEnergy
• more_ancient_ptr : core::pack::interaction_graph::history_queue_struct
• more_precise_base_pair_classification() : core::scoring::rna::RNA_LowResolutionPotential
• more_precise_base_pair_classification_ : core::scoring::rna::RNA_LowResolutionPotential
• more_recent_ptr : core::pack::interaction_graph::history_queue_struct
• Motif : core::scoring::motif::MotifHash
• motif : core::scoring::motif::MotifHit
• motif_bin_hash() : core::scoring::motif::ResPairMotifMetaBinner
• motif_bin_label() : core::scoring::motif::ResPairMotifMetaBinner
• motif_hash_BB_BB_ : core::scoring::motif::MotifHashManager
• motif_hash_BB_PH_ : core::scoring::motif::MotifHashManager
• motif_hash_BB_PO_ : core::scoring::motif::MotifHashManager
• motif_hash_SC_BB_ : core::scoring::motif::MotifHashManager
• motif_hash_SC_SC_ : core::scoring::motif::MotifHashManager
• motif_set_names() : core::scoring::motif::MotifHashManager
• motif_set_names_ : core::scoring::motif::MotifHashManager
• motif_umap_ : core::scoring::motif::MotifHash
• MotifHash() : core::scoring::motif::MotifHash , core::scoring::motif::ResPairMotifQuery
• MotifHashManager() : core::scoring::motif::MotifHashManager
• MotifHit() : core::scoring::motif::MotifHit
• MotifMap : core::scoring::motif::MotifHash
• motifs_by_fname_ : core::scoring::motif::MotifHashManager
• move_map_torsion_id_map_ : core::kinematics::MoveMap
• move_tolerance_sqr_ : core::scoring::NeighborList
• moved() : core::pack::interaction_graph::SimpleNode , core::scoring::EnergyNode
• moved_ : core::pack::interaction_graph::SimpleNode , core::scoring::EnergyNode
• MoveMap : core::fragment::IndependentBBTorsionSRFD , core::kinematics::MoveMap
• movemap_torsion_id_begin() : core::kinematics::MoveMap
• movemap_torsion_id_end() : core::kinematics::MoveMap
• MoveMapTorsionID : core::kinematics::MoveMap
• MoveMapTorsionID_Map : core::kinematics::MoveMap
• mover() : core::environment::DofPassport
• mover_ : core::environment::DofPassport
• moves_residue() : core::fragment::Frame , core::fragment::NonContinuousFrame
• moving_atoms_ : core::optimization::CartesianMinimizerMap , core::pack::scmin::CartSCMinMinimizerMap
• moving_dofids_ : core::optimization::CartesianMinimizerMap
• moving_torsionids_ : core::optimization::CartesianMinimizerMap
• mp_base_potential_ : core::scoring::ScoringManager
• MPCbetaEnergy() : core::scoring::membrane::MPCbetaEnergy
• mpdata_ : core::scoring::membrane::MPCbetaEnergy , core::scoring::membrane::MPEnvEnergy , core::scoring::membrane::MPLipoEnergy , core::scoring::membrane::MPNonHelixPenalty , core::scoring::membrane::MPPairEnergy , core::scoring::membrane::MPTerminiPenalty , core::scoring::membrane::MPTMProjPenalty
• MPEnvEnergy() : core::scoring::membrane::MPEnvEnergy
• mphbond() : core::scoring::hbonds::HBondOptions
• mphbond_ : core::scoring::hbonds::HBondOptions
• MPLipoEnergy() : core::scoring::membrane::MPLipoEnergy
• MPNonHelixPenalty() : core::scoring::membrane::MPNonHelixPenalty
• mpose() : core::scoring::motif::MotifHit
• mpose_ : core::scoring::motif::MotifHit
• mposeptr() : core::scoring::motif::MotifHit
• MPPairEnergy() : core::scoring::membrane::MPPairEnergy
• MPTerminiPenalty() : core::scoring::membrane::MPTerminiPenalty
• MPTMProjPenalty() : core::scoring::membrane::MPTMProjPenalty
• msa() : core::scoring::packstat::PackingScoreResData
• msa_ : core::scoring::packstat::PackingScoreResData
• mtzfile_ : core::scoring::cryst::PhenixInterface
• mu() : core::scoring::methods::BBDepCartBondedParameters , core::scoring::methods::BBIndepCartBondedParameters , core::scoring::methods::CartBondedParameters
• mu0_ : core::scoring::methods::BBIndepCartBondedParameters
• multi_cool_annealer() : core::pack::task::PackerTask , core::pack::task::PackerTask_
• multi_cool_annealer_ : core::pack::task::PackerTask_
• multi_cool_annealer_history_size() : core::pack::task::PackerTask , core::pack::task::PackerTask_
• MultiConstraint() : core::scoring::constraints::MultiConstraint
• MultiConstraintCreator() : core::scoring::constraints::MultiConstraintCreator
• MultiCoolAnnealer() : core::pack::annealer::MultiCoolAnnealer
• Multifunc() : core::optimization::Multifunc
• MULTIPLE_POSE_INFO : core::pose::datacache::CacheableDataType
• MultiplicitiveFactor() : core::scoring::FACTSPotential
• MultiplicitiveFactor_ : core::scoring::FACTSPotential
• multiplicity() : core::scoring::constraints::AmbiguousNMRDistanceConstraint
• MultiProbePerSphereAccumulator() : core::scoring::packstat::MultiProbePerSphereAccumulator
• MultiProbePoseAccumulator() : core::scoring::packstat::MultiProbePoseAccumulator
• Multivec : core::pack::scmin::CartSCMinMultifunc , core::pack::scmin::SCMinMultifunc
• mus_spline_ : core::scoring::methods::BBDepCartBondedParameters
• mutate() : core::optimization::GA_Minimizer
• MUTATION : core::io::pdb::HeaderInformation
• mutation_ddGs() : core::io::PositionDdGInfo::PositionDdGInfo
• mutation_ddGs_ : core::io::PositionDdGInfo::PositionDdGInfo
• mutation_probability_ : core::optimization::GA_Minimizer
• mxr_ : core::scoring::packstat::Octree2D
• mxx_ : core::scoring::packstat::Octree2D
• mxy_ : core::scoring::packstat::Octree2D
• my_csts_ : core::scoring::constraints::BigBinConstraint
• my_frag_id_ : core::fragment::FragID_Iterator
• my_residue_pair_energy() : core::scoring::methods::DirectReadoutEnergy