- s -

• SaltBridgeFeaturesCOP : protocols::features
• SaltBridgeFeaturesOP : protocols::features
• SameChiBinComboGrouperCOP : protocols::match::output
• SameChiBinComboGrouperOP : protocols::match::output
• SameRotamerComboGrouperCOP : protocols::match::output
• SameRotamerComboGrouperOP : protocols::match::output
• SameSequenceAndDSPositionGrouperCOP : protocols::match::output
• SameSequenceAndDSPositionGrouperOP : protocols::match::output
• SameSequenceGrouperCOP : protocols::match::output
• SameSequenceGrouperOP : protocols::match::output
• SameStrandCOP : protocols::jumping
• SameStrandOP : protocols::jumping
• SaneDockingProtocolOP : protocols::docking::stateless
• SaneMinMoverCOP : protocols::simple_moves
• SaneMinMoverOP : protocols::simple_moves
• SasaOptionsOP : core::scoring::packstat
• SasaResultOP : core::scoring::packstat
• SaveAndRetrieveSidechainsCOP : protocols::protein_interface_design::movers
• SaveAndRetrieveSidechainsOP : protocols::protein_interface_design::movers
• SavePoseMoverCOP : protocols::rosetta_scripts
• SavePoseMoverOP : protocols::rosetta_scripts
• SAXSScoreFilterCOP : protocols::simple_filters
• SAXSScoreFilterOP : protocols::simple_filters
• ScaffoldBuildPointCOP : protocols::match::upstream
• ScaffoldBuildPointOP : protocols::match::upstream
• ScalarWeightedFuncCOP : core::scoring::constraints
• ScalarWeightedFuncOP : core::scoring::constraints
• SCMinMinimizerMapCOP : core::pack::scmin
• SCMinMinimizerMapOP : core::pack::scmin
• SCMinMultifuncCOP : core::pack::scmin
• SCMinMultifuncOP : core::pack::scmin
• Score : core::scoring
• ScoreCutoffFilterCOP : protocols::simple_filters
• ScoreCutoffFilterOP : protocols::simple_filters
• ScoredCandidate : protocols::frag_picker
• ScoredCandidatesVector1 : protocols::frag_picker
• ScoreFunctionCOP : core::scoring
• ScoreFunctionFeaturesCOP : protocols::features
• ScoreFunctionFeaturesOP : protocols::features
• ScoreFunctionInfoCOP : core::scoring
• ScoreFunctionInfoOP : core::scoring
• ScoreFunctionOP : core::scoring
• ScoreFunctionSP : core::scoring
• ScoreList : protocols::nonlocal , protocols::simple_moves
• ScoreMap : protocols::qsar::scoring_grid
• ScoreMoverCOP : protocols::simple_moves
• ScoreMoverOP : protocols::simple_moves
• ScorePair : core::import_pose::atom_tree_diffs
• Scores : core::import_pose::atom_tree_diffs , protocols::sic_dock
• ScoresPair : core::import_pose::atom_tree_diffs
• ScoresPairList : core::import_pose::atom_tree_diffs
• ScoreStructOP : core::io::raw_data
• ScoreTypeFeaturesCOP : protocols::features
• ScoreTypeFeaturesOP : protocols::features
• ScoreTypes : core::scoring
• ScoringGridLoaderCOP : protocols::qsar::scoring_grid
• ScoringGridLoaderOP : protocols::qsar::scoring_grid
• ScoringSchemeOP : core::sequence
• ScoringSecMatchRPECOP : protocols::match::downstream
• ScoringSecMatchRPEOP : protocols::match::downstream
• SearchPatternCOP : protocols::hotspot_hashing
• SearchPatternOP : protocols::hotspot_hashing
• SearchPatternRotSetOpCOP : protocols::hotspot_hashing
• SearchPatternRotSetOpOP : protocols::hotspot_hashing
• SecMatchResiduePairEvaluatorCOP : protocols::match::downstream
• SecMatchResiduePairEvaluatorOP : protocols::match::downstream
• SecondaryMatcherToDownstreamResidueCOP : protocols::match::downstream
• SecondaryMatcherToDownstreamResidueOP : protocols::match::downstream
• SecondaryMatcherToUpstreamResidueCOP : protocols::match::downstream
• SecondaryMatcherToUpstreamResidueOP : protocols::match::downstream
• SecondaryMatchProtocolCAP : protocols::enzdes
• SecondaryMatchProtocolCOP : protocols::enzdes
• SecondaryMatchProtocolOP : protocols::enzdes
• SecondaryMatchUpstreamResProcessorCOP : protocols::match::downstream
• SecondaryMatchUpstreamResProcessorOP : protocols::match::downstream
• SecondarySimilarityCOP : protocols::frag_picker::scores
• SecondarySimilarityOP : protocols::frag_picker::scores
• SecondaryStructureCOP : core::fragment
• SecondaryStructureFilterCOP : protocols::fldsgn::filters
• SecondaryStructureFilterOP : protocols::fldsgn::filters
• SecondaryStructureOP : core::fragment
• SecondaryStructurePoolCOP : protocols::frag_picker::quota
• SecondaryStructurePoolOP : protocols::frag_picker::quota
• SecondaryStructurePotentialCOP : core::scoring
• SecondaryStructurePotentialOP : core::scoring
• SecStructGenAP : core::fragment::picking_old::vall::gen
• SecStructGenCAP : core::fragment::picking_old::vall::gen
• SecStructGenCOP : core::fragment::picking_old::vall::gen
• SecStructGenOP : core::fragment::picking_old::vall::gen
• SeedFoldTreeCOP : protocols::seeded_abinitio
• SeedFoldTreeOP : protocols::seeded_abinitio
• SegmentInsertAP : protocols::forge::build
• SegmentInsertCAP : protocols::forge::build
• SegmentInsertCOP : protocols::forge::build
• SegmentInsertOP : protocols::forge::build
• SegmentRebuildAP : protocols::forge::build
• SegmentRebuildCAP : protocols::forge::build
• SegmentRebuildCOP : protocols::forge::build
• SegmentRebuildOP : protocols::forge::build
• SegmentSwapAP : protocols::forge::build
• SegmentSwapCAP : protocols::forge::build
• SegmentSwapCOP : protocols::forge::build
• SegmentSwapOP : protocols::forge::build
• SelectBySASAOperationCOP : protocols::toolbox::task_operations
• SelectBySASAOperationOP : protocols::toolbox::task_operations
• SelectRDC_EvaluatorCOP : protocols::simple_filters
• SelectRDC_EvaluatorOP : protocols::simple_filters
• SelectResiduesByLayerOP : protocols::toolbox
• SeparateDnaFromNonDnaCOP : protocols::dna
• SeparateDnaFromNonDnaOP : protocols::dna
• SeqprofConsensusOperationOP : protocols::toolbox::task_operations
• SequenceAlignmentCOP : core::sequence
• SequenceAlignmentOP : core::sequence
• SequenceClaimAP : protocols::topology_broker
• SequenceClaimCAP : protocols::topology_broker
• SequenceClaimCOP : protocols::topology_broker
• SequenceClaimerAP : protocols::topology_broker
• SequenceClaimerCAP : protocols::topology_broker
• SequenceClaimerCOP : protocols::topology_broker
• SequenceClaimerOP : protocols::topology_broker
• SequenceClaimOP : protocols::topology_broker
• SequenceClaims : protocols::topology_broker
• SequenceCOP : core::sequence
• SequenceCoupling1BDConstraintCOP : protocols::constraints_additional
• SequenceCoupling1BDConstraintOP : protocols::constraints_additional
• SequenceCouplingConstraintCOP : protocols::constraints_additional
• SequenceCouplingConstraintOP : protocols::constraints_additional
• SequenceCouplingCOP : core::sequence
• SequenceCouplingOP : core::sequence
• SequenceCreatorCOP : core::sequence
• SequenceCreatorOP : core::sequence
• SequenceDependentRefEnergyCOP : core::scoring::methods
• SequenceDependentRefEnergyOP : core::scoring::methods
• SequenceFactoryOP : core::io::silent
• SequenceMappingCOP : core::id
• SequenceMappingOP : core::id
• SequenceMoverCOP : protocols::moves
• SequenceMoverOP : protocols::moves
• SequenceOP : core::sequence
• SequenceProfileConstraintCOP : core::scoring::constraints
• SequenceProfileConstraintOP : core::scoring::constraints
• SequenceProfileCOP : core::sequence
• SequenceProfileMoverCOP : protocols::simple_moves
• SequenceProfileMoverOP : protocols::simple_moves
• SequenceProfileOP : core::sequence
• SequenceRecoveryFilterCOP : protocols::protein_interface_design::filters
• SequenceRecoveryFilterOP : protocols::protein_interface_design::filters
• SequenceScores : protocols::dna
• SequenceSecStructPair : protocols::coarse_rna , protocols::rna
• SequentialSymmetrySliderCOP : protocols::simple_moves::symmetry
• SequentialSymmetrySliderOP : protocols::simple_moves::symmetry
• SerializableState : protocols::moves
• SerializableStateCSP : protocols::moves
• SerializableStateCWP : protocols::moves
• SerializableStateSP : protocols::moves
• SerializableStateWP : protocols::moves
• SerializedLoopList : protocols::loops
• SetAACompositionPotential_AP : protocols::fldsgn
• SetAACompositionPotential_CAP : protocols::fldsgn
• SetAACompositionPotential_COP : protocols::fldsgn
• SetAACompositionPotential_OP : protocols::fldsgn
• SetCatalyticResPackBehaviorCOP : protocols::enzdes
• SetCatalyticResPackBehaviorOP : protocols::enzdes
• SetChiMoverCOP : protocols::simple_moves::sidechain_moves
• SetChiMoverOP : protocols::simple_moves::sidechain_moves
• SetIGTypeOperationCOP : protocols::toolbox::task_operations
• SetIGTypeOperationOP : protocols::toolbox::task_operations
• SetReturningPackRotamersMoverCOP : protocols::simple_moves
• SetReturningPackRotamersMoverOP : protocols::simple_moves
• SetRotamerCouplingsOP : core::pack::task::operation
• SetSecStructEnergies_AP : protocols::fldsgn::potentials
• SetSecStructEnergies_CAP : protocols::fldsgn::potentials
• SetSecStructEnergies_COP : protocols::fldsgn::potentials
• SetSecStructEnergies_OP : protocols::fldsgn::potentials
• SetTemperatureFactorCOP : protocols::protein_interface_design::movers
• SetTemperatureFactorOP : protocols::protein_interface_design::movers
• SetTorsionCOP : protocols::simple_moves
• SetTorsionOP : protocols::simple_moves
• SetupForDensityScoringMoverOP : protocols::electron_density
• SetupForFibrilMoverCOP : protocols::fibril
• SetupForFibrilMoverOP : protocols::fibril
• SetupForSymmetryMoverCOP : protocols::simple_moves::symmetry
• SetupForSymmetryMoverOP : protocols::simple_moves::symmetry
• SetupHotspotConstraintsLoopsMoverCOP : protocols::protein_interface_design::movers
• SetupHotspotConstraintsLoopsMoverOP : protocols::protein_interface_design::movers
• SetupHotspotConstraintsMoverCOP : protocols::protein_interface_design::movers
• SetupHotspotConstraintsMoverOP : protocols::protein_interface_design::movers
• SetupNCSMoverCOP : protocols::simple_moves::symmetry
• SetupNCSMoverOP : protocols::simple_moves::symmetry
• SetupPB : protocols::pb_potential
• SetupPBCreator : protocols::pb_potential
• SetupPoissonBoltzmannPotentialAP : core::scoring
• SetupPoissonBoltzmannPotentialCAP : core::scoring
• SetupPoissonBoltzmannPotentialCOP : core::scoring
• SetupPoissonBoltzmannPotentialOP : core::scoring
• SF_ReplicaAP : protocols::toolbox
• SF_ReplicaCAP : protocols::toolbox
• SF_ReplicaCOP : protocols::toolbox
• SF_ReplicaOP : protocols::toolbox
• SG_Dist_FuncOP : core::scoring::disulfides
• SGSG_Dihedral_FuncOP : core::scoring::disulfides
• ShakeStructureMoverCOP : protocols::simple_moves
• ShakeStructureMoverOP : protocols::simple_moves
• ShapeComplementarityFilterCOP : protocols::simple_filters
• ShapeComplementarityFilterOP : protocols::simple_filters
• SharedSilentDataOP : core::io::silent
• ShearMinCCDTrialCOP : protocols::loops::loop_mover::refine
• ShearMinCCDTrialOP : protocols::loops::loop_mover::refine
• ShearMoverCOP : protocols::simple_moves
• ShearMoverOP : protocols::simple_moves
• SheetConstraintsRCGOP : protocols::fldsgn
• SheetCOP : protocols::fldsgn::topology
• SheetFoldTypes : protocols::fldsgn::topology
• SheetOP : protocols::fldsgn::topology
• Sheets : protocols::fldsgn::topology
• SheetSetCOP : protocols::fldsgn::topology
• SheetSetOP : protocols::fldsgn::topology
• SheetTopologyFilterCOP : protocols::fldsgn::filters
• SheetTopologyFilterOP : protocols::fldsgn::filters
• SheetTranslateCOP : protocols::nonlocal
• SheetTranslateOP : protocols::nonlocal
• ShortestPathInFoldTreeAP : core::kinematics
• ShortestPathInFoldTreeCOP : core::kinematics
• ShortestPathInFoldTreeOP : core::kinematics
• ShortLoopClosureCOP : protocols::loops::loop_closure::ccd
• ShortLoopClosureOP : protocols::loops::loop_closure::ccd
• ShortRangeTwoBodyEnergyCOP : core::scoring::methods
• ShortRangeTwoBodyEnergyOP : core::scoring::methods
• ShortSize : core
• SICFastCOP : protocols::sic_dock
• SICFastOP : protocols::sic_dock
• SidechainContactDistCutoffCOP : protocols::frag_picker
• SidechainContactDistCutoffOP : protocols::frag_picker
• SidechainMCMoverCOP : protocols::simple_moves::sidechain_moves
• SidechainMCMoverOP : protocols::simple_moves::sidechain_moves
• SidechainMinMoverCOP : protocols::docking
• SidechainMinMoverOP : protocols::docking
• SidechainMoverBaseCOP : protocols::simple_moves::sidechain_moves
• SidechainMoverBaseOP : protocols::simple_moves::sidechain_moves
• SidechainMoverCOP : protocols::simple_moves::sidechain_moves
• SidechainMoverOP : protocols::simple_moves::sidechain_moves
• SigmoidCOP : protocols::simple_filters
• SigmoidOP : protocols::simple_filters
• SigmoidWeightedCenListRealOP : core::scoring
• SigmoidWeightedCenListVectorOP : core::scoring
• SilentFileDataOP : core::io::silent
• SilentFileInputterSP : protocols::inputter
• SilentFileJobInputterOP : protocols::jd2
• SilentFileJobOutputterOP : protocols::jd2
• SilentFileLoaderCOP : core::io::silent
• SilentFileLoaderOP : core::io::silent
• SilentFileOptionsCOP : core::io::silent
• SilentFileOptionsOP : core::io::silent
• SilentFileOutputterSP : protocols::outputter
• SilentFilePoseInputStreamOP : core::import_pose::pose_stream
• SilentObserverOP : protocols::viewer
• SilentStructCOP : core::io::silent
• SilentStructCreatorCOP : core::io::silent
• SilentStructCreatorOP : core::io::silent
• SilentStructFactoryOP : core::io::silent
• SilentStructOP : core::io::silent
• SilentStructOPs : core::io::silent
• SilentStructStoreCOP : protocols::wum
• SilentStructStoreOP : protocols::wum
• SilentTrajectoryRecorderOP : protocols::canonical_sampling
• SimAnnealerBaseOP : core::pack::annealer
• SimpleDerivCheckResultCOP : core::optimization
• SimpleDerivCheckResultOP : core::optimization
• SimpleInteractionGraphCOP : core::pack::interaction_graph
• SimpleInteractionGraphOP : core::pack::interaction_graph
• SimpleSequenceDataOP : core::io::silent
• SimpleTreeBuilderCOP : protocols::nonlocal
• SimpleTreeBuilderOP : protocols::nonlocal
• SimulatedTemperingCOP : protocols::canonical_sampling
• SimulatedTemperingObserverCOP : protocols::canonical_sampling
• SimulatedTemperingObserverOP : protocols::canonical_sampling
• SimulatedTemperingOP : protocols::canonical_sampling
• SingleDownstreamResidueWriterCOP : protocols::match::output
• SingleDownstreamResidueWriterOP : protocols::match::output
• SingleFileBufferCOP : protocols::jd2
• SingleFileBufferOP : protocols::jd2
• SingleFragmentMoverCOP : protocols::nonlocal
• SingleFragmentMoverOP : protocols::nonlocal
• SingleGridCOP : protocols::qsar::scoring_grid
• SingleGridOP : protocols::qsar::scoring_grid
• SingleLigandRotamerLibraryAP : core::pack::dunbrack
• SingleLigandRotamerLibraryCAP : core::pack::dunbrack
• SingleLigandRotamerLibraryCOP : core::pack::dunbrack
• SingleLigandRotamerLibraryOP : core::pack::dunbrack
• SingleLoopMoverCOP : protocols::loops::loop_mover
• SingleLoopMoverOP : protocols::loops::loop_mover
• SingleMotifCOP : protocols::motifs
• SingleMotifCOPs : protocols::motifs
• SingleMotifOP : protocols::motifs
• SingleMotifOPs : protocols::motifs
• SingleNodeSP : protocols::elscripts
• SingleResidueDunbrackLibraryAP : core::pack::dunbrack
• SingleResidueDunbrackLibraryCAP : core::pack::dunbrack
• SingleResidueDunbrackLibraryCOP : core::pack::dunbrack
• SingleResidueDunbrackLibraryOP : core::pack::dunbrack
• SingleResidueFragDataCOP : core::fragment
• SingleResidueFragDataOP : core::fragment
• SingleResidueInvrotTargetCOP : protocols::toolbox::match_enzdes_util
• SingleResidueInvrotTargetOP : protocols::toolbox::match_enzdes_util
• SingleResidueRotamerLibraryAP : core::pack::dunbrack
• SingleResidueRotamerLibraryCAP : core::pack::dunbrack
• SingleResidueRotamerLibraryCOP : core::pack::dunbrack
• SingleResidueRotamerLibraryOP : core::pack::dunbrack
• SingleResidueTorsionFragmentLibraryOP : protocols::frags
• SingleStateCOP : protocols::multistate_design
• SingleStateCOPs : protocols::multistate_design
• SingleStateFitnessFunctionCOP : protocols::multistate_design
• SingleStateFitnessFunctionOP : protocols::multistate_design
• SingleStateOP : protocols::multistate_design
• SingleStateOPs : protocols::multistate_design
• SingleStructureDataCOP : protocols::optimize_weights
• SingleStructureDataOP : protocols::optimize_weights
• SingleStructureDataOPs : protocols::optimize_weights
• SiteConstraintCOP : core::scoring::constraints
• SiteConstraintOP : core::scoring::constraints
• SiteConstraintResiduesCOP : core::scoring::constraints
• SiteConstraintResiduesOP : core::scoring::constraints
• Size : core , protocols::flxbb , protocols::hotspot_hashing , protocols::pb_potential , protocols::fldsgn::potentials::sspot , protocols::sic_dock
• Size3 : core::pack::dunbrack , protocols::match
• Size4 : core::pack::dunbrack , protocols::match
• SizeList : protocols::abinitio , protocols::noesy_assign
• Sizes : protocols::kinmatch , protocols::sic_dock
• SlaveSP : protocols::elscripts
• SliceIter : core::scoring::packstat
• Slices : core::scoring::packstat
• SlidingWindowLoopClosureCOP : protocols::loops::loop_closure::ccd
• SlidingWindowLoopClosureOP : protocols::loops::loop_closure::ccd
• SmallFragWeightAP : protocols::topology_broker::weights
• SmallFragWeightCAP : protocols::topology_broker::weights
• SmallFragWeightCOP : protocols::topology_broker::weights
• SmallFragWeightOP : protocols::topology_broker::weights
• SmallMinCCDTrialCOP : protocols::loops::loop_mover::refine
• SmallMinCCDTrialOP : protocols::loops::loop_mover::refine
• SmallMoverCOP : protocols::simple_moves
• SmallMoverOP : protocols::simple_moves
• SmoothEnvPairPotentialCOP : core::scoring
• SmoothEnvPairPotentialOP : core::scoring
• SmoothFragmentMoverCOP : protocols::simple_moves
• SmoothFragmentMoverOP : protocols::simple_moves
• SmoothFragWeightAP : protocols::topology_broker::weights
• SmoothFragWeightCAP : protocols::topology_broker::weights
• SmoothFragWeightCOP : protocols::topology_broker::weights
• SmoothFragWeightOP : protocols::topology_broker::weights
• SnugDockCOP : protocols::antibody2
• SnugDockOP : protocols::antibody2
• SnugDockProtocolCOP : protocols::antibody2
• SnugDockProtocolOP : protocols::antibody2
• SoedingFuncOP : core::scoring::constraints
• SOGFunc_ImplOP : core::scoring::constraints
• SOGFuncOP : core::scoring::constraints
• SolvationGridCOP : protocols::qsar::scoring_grid
• SolvationGridOP : protocols::qsar::scoring_grid
• SourcePositionsOP : protocols::coarse_rna
• SPAtomCIter : core::scoring::packstat
• SPAtomIter : core::scoring::packstat
• SPAtoms : core::scoring::packstat
• SpecialRotamerEnergyOP : protocols::scoring::methods
• SpecialRotamerRSOCOP : protocols::toolbox::rotamer_set_operations
• SpecialRotamerRSOOP : protocols::toolbox::rotamer_set_operations
• SpecialSegmentsObserverCOP : core::pose::datacache
• SpecialSegmentsObserverOP : core::pose::datacache
• SpecificResiduesNearInterfaceFilterCOP : protocols::protein_interface_design::filters
• SpecificResiduesNearInterfaceFilterOP : protocols::protein_interface_design::filters
• SphereCIter : core::scoring::packstat
• SphereIter : core::scoring::packstat
• Spheres : core::scoring::packstat
• SpliceCOP : protocols::protein_interface_design::movers
• SpliceOP : protocols::protein_interface_design::movers
• SpliceSegmentCOP : protocols::protein_interface_design::movers
• SpliceSegmentOP : protocols::protein_interface_design::movers
• SplineFuncCOP : core::scoring::constraints
• SplineFuncOP : core::scoring::constraints
• SquareWell2FuncCOP : core::scoring::constraints
• SquareWell2FuncOP : core::scoring::constraints
• SquareWellFuncCOP : core::scoring::constraints
• SquareWellFuncOP : core::scoring::constraints
• SS_BaseCOP : protocols::fldsgn::topology
• SS_BaseOP : protocols::fldsgn::topology
• SS_Info2_COP : protocols::fldsgn::topology
• SS_Info2_OP : protocols::fldsgn::topology
• SS_InfoCOP : core::scoring
• SS_InfoOP : core::scoring
• SS_Killhairpins_InfoCOP : core::scoring
• SS_Killhairpins_InfoOP : core::scoring
• SSFeatureCOP : protocols::comparative_modeling::features
• SSFeatureOP : protocols::comparative_modeling::features
• SSize : core
• SSPairPotentialOP : protocols::fldsgn::potentials::sspot
• StandardPairingLibraryCOP : protocols::jumping
• StandardPairingLibraryOP : protocols::jumping
• StarAbinitioCOP : protocols::star
• StarAbinitioOP : protocols::star
• StartFromOP : protocols::ligand_docking
• StarTreeBuilderCOP : protocols::nonlocal
• StarTreeBuilderOP : protocols::nonlocal
• StartStructClaimerAP : protocols::topology_broker
• StartStructClaimerCAP : protocols::topology_broker
• StartStructClaimerCOP : protocols::topology_broker
• StartStructClaimerOP : protocols::topology_broker
• StateAccumulatingMatchFilterCOP : protocols::match::output
• StateAccumulatingMatchFilterOP : protocols::match::output
• StatEntries : protocols::abinitio
• StatEntryList : protocols::abinitio
• StealLigandMoverCOP : protocols::comparative_modeling
• StealLigandMoverOP : protocols::comparative_modeling
• StealSideChainsMoverCOP : protocols::comparative_modeling
• StealSideChainsMoverOP : protocols::comparative_modeling
• StepWiseClustererCOP : protocols::swa
• StepWiseClustererOP : protocols::swa
• StepWiseJobParametersCOP : protocols::swa
• StepWiseJobParametersOP : protocols::swa
• StepWisePoseSampleGeneratorCOP : protocols::swa
• StepWisePoseSampleGeneratorOP : protocols::swa
• StepWisePoseSetupCOP : protocols::swa
• StepWisePoseSetupOP : protocols::swa
• StepWiseRNA_Base_Sugar_RotamerCOP : protocols::swa::rna
• StepWiseRNA_Base_Sugar_RotamerOP : protocols::swa::rna
• StepWiseRNA_BaseCentroidScreenerCOP : protocols::swa::rna
• StepWiseRNA_BaseCentroidScreenerOP : protocols::swa::rna
• StepWiseRNA_CombineLongLoopFiltererOP : protocols::swa::rna
• StepWiseRNA_CombineLongLoopFiltererpCOP : protocols::swa::rna
• StepWiseRNA_JobParametersCOP : protocols::swa::rna
• StepWiseRNA_JobParametersOP : protocols::swa::rna
• StepWiseRNA_PoseSetupCOP : protocols::swa::rna
• StepWiseRNA_PoseSetupOP : protocols::swa::rna
• StepWiseRNA_RotamerGenerator_WrapperCOP : protocols::swa::rna
• StepWiseRNA_RotamerGenerator_WrapperOP : protocols::swa::rna
• StepWiseRNA_RotamerGeneratorCOP : protocols::swa::rna
• StepWiseRNA_RotamerGeneratorOP : protocols::swa::rna
• StepWiseRNA_VDW_Bin_ScreenerCOP : protocols::swa::rna
• StepWiseRNA_VDW_Bin_ScreenerOP : protocols::swa::rna
• StrandBundleFeaturesCOP : protocols::features::strand_assembly
• StrandBundleFeaturesOP : protocols::features::strand_assembly
• StrandCOP : protocols::fldsgn::topology
• StrandOP : protocols::fldsgn::topology
• StrandPairingCOP : core::scoring::dssp , protocols::fldsgn::topology
• StrandPairingOP : protocols::fldsgn::topology , core::scoring::dssp
• StrandPairings : protocols::fldsgn::topology
• StrandPairingSetCOP : core::scoring::dssp , protocols::fldsgn::topology
• StrandPairingSetOP : core::scoring::dssp , protocols::fldsgn::topology
• Strands : protocols::fldsgn::topology
• String : protocols::flxbb , core::pose
• string : core::import_pose::pose_stream
• String : core::import_pose , core::io::pdb
• StringFilter_pair : protocols::filters
• StringList : protocols::sparta
• Strings : protocols::optimize_weights , protocols::dna
• StructuralSimilarityEvaluatorCOP : protocols::simple_filters
• StructuralSimilarityEvaluatorOP : protocols::simple_filters
• Structure_Map : core::io::silent
• StructureFeaturesCOP : protocols::features
• StructureFeaturesOP : protocols::features
• StructureMap : core::io::raw_data
• StructureRestrictorCOP : protocols::moves
• StructureRestrictorOP : protocols::moves
• StructureScoresFeaturesCOP : protocols::features
• StructureScoresFeaturesOP : protocols::features
• Stub : protocols::sic_dock
• Stubs : protocols::sic_dock
• StubScoreFilterCOP : protocols::protein_interface_design::filters
• StubScoreFilterOP : protocols::protein_interface_design::filters
• StubScoreLoopsFilterCOP : protocols::protein_interface_design::filters
• StubScoreLoopsFilterOP : protocols::protein_interface_design::filters
• SubroutineMoverCOP : protocols::protein_interface_design::movers
• SubroutineMoverOP : protocols::protein_interface_design::movers
• SubToFullInfoOP : protocols::swa::monte_carlo
• sum_water_weights_iterator : core::scoring::geometric_solvation
• SumFuncOP : core::scoring::constraints
• SuperimposeMoverCOP : protocols::simple_moves
• SuperimposeMoverOP : protocols::simple_moves
• SurfaceDockingProtocolOP : protocols::surface_docking
• SurfaceEnergiesCOP : core::scoring::solid_surface
• SurfaceEnergiesOP : core::scoring::solid_surface
• SurfaceOrientMoverOP : protocols::surface_docking
• SurfaceParametersOP : protocols::surface_docking
• SurrogateVariableExpressionCOP : protocols::pack_daemon
• SurrogateVariableExpressionOP : protocols::pack_daemon
• SWAlignerCOP : core::sequence
• SWAlignerOP : core::sequence
• SwitchChainOrderMoverCOP : protocols::simple_moves
• SwitchChainOrderMoverOP : protocols::simple_moves
• SwitchResidueTypeSetMoverCOP : protocols::simple_moves
• SwitchResidueTypeSetMoverOP : protocols::simple_moves
• SymAtomTreeMinimizerCOP : core::optimization::symmetry
• SymAtomTreeMinimizerOP : core::optimization::symmetry
• SymDockingHiResCOP : protocols::symmetric_docking
• SymDockingHiResOP : protocols::symmetric_docking
• SymDockingInitialPerturbationCOP : protocols::simple_moves::symmetry
• SymDockingInitialPerturbationOP : protocols::simple_moves::symmetry
• SymDockingLowResCOP : protocols::symmetric_docking
• SymDockingLowResOP : protocols::symmetric_docking
• SymDockProtocolCOP : protocols::symmetric_docking
• SymDockProtocolOP : protocols::symmetric_docking
• SymDofCOP : core::conformation::symmetry
• SymDofOP : core::conformation::symmetry
• SymEnergyCutRotamerTrialsMoverCOP : protocols::simple_moves::symmetry
• SymEnergyCutRotamerTrialsMoverOP : protocols::simple_moves::symmetry
• SymFoldandDockMoveRbJumpMoverCOP : protocols::symmetric_docking
• SymFoldandDockMoveRbJumpMoverOP : protocols::symmetric_docking
• SymFoldandDockRbTrialMoverCOP : protocols::symmetric_docking , protocols::simple_moves::symmetry
• SymFoldandDockRbTrialMoverOP : protocols::symmetric_docking , protocols::simple_moves::symmetry
• SymFoldandDockSlideTrialMoverCOP : protocols::symmetric_docking
• SymFoldandDockSlideTrialMoverOP : protocols::symmetric_docking
• SymInterfaceSidechainMinMoverCOP : protocols::symmetric_docking
• SymInterfaceSidechainMinMoverOP : protocols::symmetric_docking
• SymmDataCOP : core::conformation::symmetry
• SymmDataLoaderCOP : core::conformation::symmetry
• SymmDataLoaderOP : core::conformation::symmetry
• SymmDataOP : core::conformation::symmetry
• SymmDataOptionsCOP : core::conformation::symmetry
• SymmDataOptionsOP : core::conformation::symmetry
• SymmetricConformation : core::pack
• SymmetricConformationCOP : core::conformation::symmetry
• SymmetricConformationOP : core::conformation::symmetry
• SymmetricEnergiesCOP : core::scoring::symmetry
• SymmetricEnergiesOP : core::scoring::symmetry
• SymmetricFragmentMoverCOP : protocols::simple_moves
• SymmetricFragmentMoverOP : protocols::simple_moves
• SymmetricRMSMoverCOP : protocols::simple_moves::symmetry
• SymmetricRMSMoverOP : protocols::simple_moves::symmetry
• SymmetricRotamerSetFactoryOP : core::pack::rotamer_set::symmetry
• SymmetricRotamerSetsCOP : core::pack::rotamer_set::symmetry
• SymmetricRotamerSetsOP : core::pack::rotamer_set::symmetry
• SymmetricScoreFunctionCOP : core::scoring::symmetry
• SymmetricScoreFunctionOP : core::scoring::symmetry
• SymmetryInfo : core::pack
• SymmetryInfoCOP : core::conformation::symmetry
• SymmetryInfoOP : core::conformation::symmetry
• SymmetrySliderCOP : protocols::simple_moves::symmetry
• SymmetrySliderOP : protocols::simple_moves::symmetry
• SymMinimizerMapCOP : core::optimization::symmetry
• SymMinimizerMapOP : core::optimization::symmetry
• SymMinMoverCOP : protocols::simple_moves::symmetry
• SymMinMoverOP : protocols::simple_moves::symmetry
• SymmLinearMemoryInteractionGraphCOP : core::pack::interaction_graph
• SymmLinearMemoryInteractionGraphOP : core::pack::interaction_graph
• SymmMinimalistInteractionGraphCOP : core::pack::interaction_graph
• SymmMinimalistInteractionGraphOP : core::pack::interaction_graph
• SymmOnTheFlyInteractionGraphCOP : core::pack::interaction_graph
• SymmOnTheFlyInteractionGraphOP : core::pack::interaction_graph
• SymPackRotamersMoverCOP : protocols::simple_moves::symmetry
• SymPackRotamersMoverOP : protocols::simple_moves::symmetry
• SymRestrictTaskForDockingOP : protocols::symmetric_docking
• SymRotamerTrialsMoverCOP : protocols::simple_moves::symmetry
• SymRotamerTrialsMoverOP : protocols::simple_moves::symmetry
• SymShakeStructureMoverCOP : protocols::simple_moves::symmetry
• SymShakeStructureMoverOP : protocols::simple_moves::symmetry
• SymSidechainMinMoverCOP : protocols::symmetric_docking
• SymSidechainMinMoverOP : protocols::symmetric_docking
• SymSlideInfoCOP : core::conformation::symmetry
• SymSlideInfoOP : core::conformation::symmetry