- p -

• P : core::scoring::packstat
• P_AA_EnergyOP : core::scoring::methods
• P_AA_pp_EnergyOP : core::scoring::methods
• P_AACOP : core::scoring
• P_AAOP : core::scoring
• PackDaemonCOP : protocols::pack_daemon
• PackDaemonOP : protocols::pack_daemon
• PackerEnergy : core , protocols::flexpack
• PackerNeighborGraphFilterCOP : protocols::simple_filters
• PackerNeighborGraphFilterOP : protocols::simple_filters
• PackerTask_COP : core::pack::task
• PackerTask_OP : core::pack::task
• PackerTaskCOP : core::pack::task
• PackerTaskOP : core::pack::task
• PackingScoreCOP : core::scoring::packstat
• PackingScoreOP : core::scoring::packstat
• PackingScoreResDataCOP : core::scoring::packstat
• PackingScoreResDataOP : core::scoring::packstat
• PackingStateCOP : protocols::multistate_design
• PackingStateOP : protocols::multistate_design
• PackRotamersMoverCOP : protocols::simple_moves
• PackRotamersMoverLazyCOP : protocols::simple_moves
• PackRotamersMoverLazyOP : protocols::simple_moves
• PackRotamersMoverOP : protocols::simple_moves
• PackStatFilterCOP : protocols::simple_filters
• PackStatFilterOP : protocols::simple_filters
• PackStatMoverOP : protocols::analysis
• PackstatReal : core::scoring::packstat
• PairEPotentialCOP : core::scoring
• PairEPotentialOP : core::scoring
• PairFeaturesCOP : protocols::features
• PairFeaturesOP : protocols::features
• PairingLibraryCOP : protocols::jumping
• PairingLibraryOP : protocols::jumping
• PairingList : core::scoring::dssp
• PairingsList : core::scoring::dssp
• PairingStatisticsCOP : protocols::abinitio
• PairingStatisticsOP : protocols::abinitio
• PairScoringSchemeOP : core::sequence
• ParallelBetaPairingPreferenceFilterCOP : protocols::fldsgn::filters
• ParallelBetaPairingPreferenceFilterOP : protocols::fldsgn::filters
• ParallelTemperingCOP : protocols::canonical_sampling
• ParallelTemperingOP : protocols::canonical_sampling
• Params : core::scoring::dna
• ParetoOptMutationMoverCOP : protocols::design_opt
• ParetoOptMutationMoverOP : protocols::design_opt
• ParsedProtocolCOP : protocols::rosetta_scripts
• ParsedProtocolOP : protocols::rosetta_scripts
• ParserCOP : protocols::jd2
• ParserOP : protocols::jd2
• ParticleCOP : core::optimization
• ParticleOP : core::optimization
• ParticleOPs : core::optimization
• ParticleSwarmMinimizerCOP : core::optimization
• ParticleSwarmMinimizerOP : core::optimization
• PatchCaseOP : core::chemical
• PatchdockJobInputterCOP : protocols::protein_interface_design
• PatchdockJobInputterOP : protocols::protein_interface_design
• PatchOP : core::chemical
• PatchOperationOP : core::chemical
• PB : core::scoring
• PBLifetimeCacheAP : core::scoring::methods
• PBLifetimeCacheCAP : core::scoring::methods
• PBLifetimeCacheCOP : core::scoring::methods
• PBLifetimeCacheOP : core::scoring::methods
• PCA_OP : protocols::evaluation
• PCS_dataOP : protocols::scoring::methods::pcs
• PCS_EnergyCOP : protocols::scoring::methods::pcs
• PCS_EnergyOP : protocols::scoring::methods::pcs
• PcsDataCenterCOP : protocols::scoring::methods::pcs2
• PcsDataCenterManagerOP : protocols::scoring::methods::pcs2
• PcsDataCenterOP : protocols::scoring::methods::pcs2
• PcsEnergyControllerAP : protocols::topology_broker
• PcsEnergyControllerCAP : protocols::topology_broker
• PcsEnergyControllerCOP : protocols::topology_broker
• PcsEnergyControllerOP : protocols::topology_broker
• PcsEnergyCOP : protocols::scoring::methods::pcs2
• PcsEnergyOP : protocols::scoring::methods::pcs2
• PcsInputCenterCOP : protocols::scoring::methods::pcs2
• PcsInputCenterOP : protocols::scoring::methods::pcs2
• PDB_DReaderOptionsCOP : core::io::pdb
• PDB_DReaderOptionsOP : core::io::pdb
• PDB_Entry : protocols::sparta
• PdbDataFeaturesOP : protocols::features
• PDBDumpMoverCOP : protocols::moves
• PDBDumpMoverOP : protocols::moves
• PdbIdChunkFilterCOP : protocols::frag_picker
• PdbIdChunkFilterOP : protocols::frag_picker
• PDBInfoCOP : core::pose
• PDBInfoOP : core::pose
• PDBInputterSP : protocols::inputter
• PDBJobInputterOP : protocols::jd2
• PDBJobOutputterOP : protocols::jd2
• PDBOutputCOP : protocols::dna
• PDBOutputOP : protocols::dna
• PDBOutputterSP : protocols::outputter
• PDBPoseInputStreamOP : core::import_pose::pose_stream
• PDBPoseMapCOP : core::pose
• PDBPoseMapOP : core::pose
• PDBReloadMoverCOP : protocols::simple_moves
• PDBReloadMoverOP : protocols::simple_moves
• PDBWriterCOP : protocols::match::output
• PDBWriterOP : protocols::match::output
• PDDFEnergyCOP : protocols::scoring::methods::saxs
• PDDFEnergyOP : protocols::scoring::methods::saxs
• PDDFScoreFilterCOP : protocols::simple_filters
• PDDFScoreFilterOP : protocols::simple_filters
• PDHPatchInteractionGraph : core::pack::interaction_graph
• PDHPatchInteractionGraphOP : core::pack::interaction_graph
• PDInteractionGraphOP : core::pack::interaction_graph
• PDSurfaceInteractionGraph : core::pack::interaction_graph
• PDSurfaceInteractionGraphOP : core::pack::interaction_graph
• PeakAssignmentAP : protocols::noesy_assign
• PeakAssignmentCAP : protocols::noesy_assign
• PeakAssignmentCOP : protocols::noesy_assign
• PeakAssignmentOP : protocols::noesy_assign
• PeakAssignmentResidueMapAP : protocols::noesy_assign
• PeakAssignmentResidueMapCAP : protocols::noesy_assign
• PeakAssignmentResidueMapCOP : protocols::noesy_assign
• PeakAssignmentResidueMapOP : protocols::noesy_assign
• PeakAssignments : protocols::noesy_assign
• PeakCalibratorAP : protocols::noesy_assign
• PeakCalibratorCAP : protocols::noesy_assign
• PeakCalibratorCOP : protocols::noesy_assign
• PeakCalibratorOP : protocols::noesy_assign
• PeakFileFormatCOP : protocols::noesy_assign
• PeakFileFormatOP : protocols::noesy_assign
• PeptideBondedEnergyContainerOP : core::scoring
• PeptideBondedNeighborIteratorOP : core::scoring
• PeptideStapleMoverCOP : protocols::simple_moves
• PeptideStapleMoverOP : protocols::simple_moves
• PerNativeRRReporterHumanCOP : protocols::rotamer_recovery
• PerNativeRRReporterHumanOP : protocols::rotamer_recovery
• PerSphereAccumulatorOP : core::scoring::packstat
• PerturbChiSidechainMoverCOP : protocols::simple_moves::sidechain_moves
• PerturbChiSidechainMoverOP : protocols::simple_moves::sidechain_moves
• PerturbRotamerSidechainMoverCOP : protocols::simple_moves::sidechain_moves
• PerturbRotamerSidechainMoverOP : protocols::simple_moves::sidechain_moves
• pHEnergyOP : core::scoring::methods
• PHIPSI_ERR_SURF : protocols::sparta
• Pipe : core::io::serialization
• PipeMap : core::io::serialization
• PipeMapSP : core::io::serialization
• PipeMapWP : core::io::serialization
• PipeSP : core::io::serialization
• PlacementAuctionMoverCOP : protocols::protein_interface_design::movers
• PlacementAuctionMoverOP : protocols::protein_interface_design::movers
• PlacementMinimizationMoverCOP : protocols::protein_interface_design::movers
• PlacementMinimizationMoverOP : protocols::protein_interface_design::movers
• PlaceOnLoopCOP : protocols::protein_interface_design::movers
• PlaceOnLoopOP : protocols::protein_interface_design::movers
• PlaceStubMoverCOP : protocols::protein_interface_design::movers
• PlaceStubMoverOP : protocols::protein_interface_design::movers
• PlaceSurfaceProbeCOP : protocols::hotspot_hashing::movers
• PlaceSurfaceProbeOP : protocols::hotspot_hashing::movers
• PlaidFingerprintCOP : protocols::pockets
• PlaidFingerprintOP : protocols::pockets
• PlainSilentFileJobDistributorOP : protocols::jobdist
• PNatAAOptEPositionDataOP : protocols::optimize_weights
• PNatAAOptERotamerDataOP : protocols::optimize_weights
• PNatAAOptERotamerDataOPs : protocols::optimize_weights
• PNatLigPoseOptEDataCOP : protocols::optimize_weights
• PNatLigPoseOptEDataOP : protocols::optimize_weights
• PNatRotOptEPositionDataOP : protocols::optimize_weights
• PNatRotOptERotamerDataOP : protocols::optimize_weights
• PNatRotOptERotamerDataOPs : protocols::optimize_weights
• PNatStructureOptEDataOP : protocols::optimize_weights
• PocketConstraintOP : protocols::pockets
• PocketGridCOP : protocols::pockets
• PocketGridOP : protocols::pockets
• PointGraph : core::conformation
• PointGraphOP : core::conformation
• PointList : protocols::jumping , core::scoring::dssp
• PointMutationCalculatorCOP : protocols::design_opt
• PointMutationCalculatorOP : protocols::design_opt
• PointPosition : core::conformation , core
• PoissonBoltzmannEnergyAP : core::scoring::methods
• PoissonBoltzmannEnergyCAP : core::scoring::methods
• PoissonBoltzmannEnergyCOP : core::scoring::methods
• PoissonBoltzmannEnergyOP : core::scoring::methods
• PoissonBoltzmannPotentialAP : core::scoring
• PoissonBoltzmannPotentialCAP : core::scoring
• PoissonBoltzmannPotentialCOP : core::scoring
• PoissonBoltzmannPotentialOP : core::scoring
• PolicyCOP : protocols::nonlocal
• PolicyOP : protocols::nonlocal
• Polynomial_1dCOP : core::scoring::hbonds
• Polynomial_1dOP : core::scoring::hbonds
• Pool_RMSD_OP : protocols::canonical_sampling::mc_convergence_checks
• PoolDataCOP : protocols::canonical_sampling::mc_convergence_checks
• PoolDataOP : protocols::canonical_sampling::mc_convergence_checks
• Pose : protocols::rosetta_scripts , protocols::filters , protocols::fldsgn::potentials::sspot , protocols::flxbb , protocols::protein_interface_design::movers , protocols::sic_dock
• PoseAP : core::pose
• PoseCAP : core::pose
• PoseCommentsFeaturesCOP : protocols::features
• PoseCommentsFeaturesOP : protocols::features
• PoseConditionCOP : protocols::moves
• PoseConditionOP : protocols::moves
• PoseConformationFeaturesCOP : protocols::features
• PoseConformationFeaturesOP : protocols::features
• PoseCOP : core::pose
• PoseCOPs : core::pose
• PoseEvaluatorCOP : protocols::evaluation
• PoseEvaluatorOP : protocols::evaluation
• PoseEvaluators : protocols::evaluation
• PoseEvaluatorsCOP : protocols::evaluation
• PoseEvaluatorsOP : protocols::evaluation
• PoseFilterCOP : protocols::swa
• PoseFilterOP : protocols::swa
• PoseFoundResiduesCombinationOP : protocols::enzdes
• PoseFromPDBLoaderCOP : core::import_pose
• PoseFromPDBLoaderOP : core::import_pose
• PoseInputStreamJobInputterOP : protocols::jd2
• PoseInputStreamOP : core::import_pose::pose_stream
• PoseInserterCOP : protocols::match::output
• PoseInserterOP : protocols::match::output
• PoseList : protocols::swa::protein , protocols::swa
• PoseMatchOutputWriterCOP : protocols::match::output
• PoseMatchOutputWriterOP : protocols::match::output
• PoseMetricCalculatorCOP : core::pose::metrics
• PoseMetricCalculatorOP : core::pose::metrics
• PoseMetricContainerCOP : core::pose::metrics
• PoseMetricContainerOP : core::pose::metrics
• PoseMetricCOP : core::pose::metrics
• PoseMetricOP : core::pose::metrics
• PoseOP : core::pose
• PoseOPs : core::pose
• PosePackDataOP : core::scoring::packstat
• PoseSP : core::pose
• PoseWithScore : protocols::abinitio
• PositionConservedResiduesStoreCOP : core::pose::datacache
• PositionConservedResiduesStoreOP : core::pose::datacache
• PositionDdGInfoCOP : core::io::PositionDdGInfo
• PositionDdGInfoOP : core::io::PositionDdGInfo
• PositionList : core::fragment
• Positions : protocols::dna
• PositionTypes : protocols::dna
• PosPair : protocols::frag_picker , protocols::frag_picker::nonlocal
• PostDockAssemblyScorerCOP : protocols::domain_assembly
• PostDockAssemblyScorerOP : protocols::domain_assembly
• PosTypeCOP : protocols::multistate_design
• PosTypeOP : protocols::multistate_design
• PowExpressionCOP : protocols::pack_daemon
• PowExpressionOP : protocols::pack_daemon
• PQRAP : core::scoring
• PQRCAP : core::scoring
• PQRCOP : core::scoring
• PQROP : core::scoring
• PrecomputedFlexbbInteractionGraphCOP : protocols::flexpack::interaction_graph
• PrecomputedFlexbbInteractionGraphOP : protocols::flexpack::interaction_graph
• PrecomputedPairEnergiesInteractionGraphCOP : core::pack::interaction_graph
• PrecomputedPairEnergiesInteractionGraphOP : core::pack::interaction_graph
• PredesignPerturbMoverOP : protocols::enzdes
• PredicateCOP : core::scoring
• PredicateOP : core::scoring
• PreserveCBetaOP : core::pack::task::operation
• PreventChainFromRepackingOperationCOP : protocols::toolbox::task_operations
• PreventChainFromRepackingOperationOP : protocols::toolbox::task_operations
• PreventRepackingOP : core::pack::task::operation
• PreventRepackingRLTOP : core::pack::task::operation
• PreventResiduesFromRepackingOperationCOP : protocols::toolbox::task_operations
• PreventResiduesFromRepackingOperationOP : protocols::toolbox::task_operations
• Probabilities : protocols::star , protocols::medal , protocols::nonlocal
• Probability : core::scoring
• PROBE : core::scoring::sc
• ProcessorFactoryCOP : protocols::match::output
• ProcessorFactoryOP : protocols::match::output
• ProClosureEnergyCOP : core::scoring::methods
• ProClosureEnergyOP : core::scoring::methods
• ProfilerMoverCOP : protocols::moves
• ProfilerMoverOP : protocols::moves
• ProfileScoreCOP : protocols::frag_picker::scores
• ProfileScoreL1COP : protocols::frag_picker::scores
• ProfileScoreL1OP : protocols::frag_picker::scores
• ProfileScoreOP : protocols::frag_picker::scores
• ProlineFixMoverCOP : protocols::simple_moves
• ProlineFixMoverOP : protocols::simple_moves
• ProteinBackboneAtomAtomPairFeaturesCOP : protocols::features
• ProteinBackboneAtomAtomPairFeaturesOP : protocols::features
• ProteinBackboneBuildPointCOP : protocols::match::upstream
• ProteinBackboneBuildPointOP : protocols::match::upstream
• ProteinBackboneTorsionAngleFeaturesCOP : protocols::features
• ProteinBackboneTorsionAngleFeaturesOP : protocols::features
• ProteinBondGeometryFeaturesCOP : protocols::features
• ProteinBondGeometryFeaturesOP : protocols::features
• ProteinInterfaceDesignOperationCOP : protocols::toolbox::task_operations
• ProteinInterfaceDesignOperationOP : protocols::toolbox::task_operations
• ProteinInterfaceMultiStateDesignMoverCOP : protocols::dna
• ProteinInterfaceMultiStateDesignMoverOP : protocols::dna
• ProteinLigandInterfaceUpweighterCOP : protocols::enzdes
• ProteinLigandInterfaceUpweighterOP : protocols::enzdes
• ProteinResidueConformationFeaturesCOP : protocols::features
• ProteinResidueConformationFeaturesOP : protocols::features
• ProteinRMSDFeaturesCOP : protocols::features
• ProteinRMSDFeaturesOP : protocols::features
• ProteinSCSamplerCOP : protocols::match::upstream
• ProteinSCSamplerOP : protocols::match::upstream
• ProteinSilentReportCOP : protocols::features
• ProteinSilentReportOP : protocols::features
• ProteinSilentStruct : core::io::silent
• ProteinSilentStruct_SinglePrec : core::io::silent
• ProteinSilentStructOP : core::io::silent
• ProteinUpstreamBuilderCOP : protocols::match::upstream
• ProteinUpstreamBuilderOP : protocols::match::upstream
• ProtocolCOP : protocols::abinitio
• ProtocolFeaturesCOP : protocols::features
• ProtocolFeaturesOP : protocols::features
• ProtocolOP : protocols::abinitio
• PseudoBondCollectionCOP : core::conformation
• PseudoBondCollectionOP : core::conformation
• PseudocontactShiftEnergyControllerAP : protocols::topology_broker
• PseudocontactShiftEnergyControllerCAP : protocols::topology_broker
• PseudocontactShiftEnergyControllerCOP : protocols::topology_broker
• PseudocontactShiftEnergyControllerOP : protocols::topology_broker
• PSSMOptEPositionDataOP : protocols::optimize_weights
• PyMolMoverCOP : protocols::moves
• PyMolMoverOP : protocols::moves
• PyMolObserverCOP : protocols::moves
• PyMolObserverOP : protocols::moves