Here is a list of all namespace members with links to the namespace documentation for each member:

- r -

• R2quat() : protocols::simple_filters
• R3z : protocols::sic_dock::scores
• R3z1() : protocols::sic_dock::scores
• R3z2() : protocols::sic_dock::scores
• R3z3() : protocols::sic_dock::scores
• RadiusOfGyrationFeaturesCOP : protocols::features
• RadiusOfGyrationFeaturesOP : protocols::features
• RAINBOW_COLOR : protocols::viewer::graphics_states_param
• RAINBOW_CPK_COLOR : protocols::viewer::graphics_states_param
• Rama2bPerturberCOP : protocols::kinematic_closure::perturbers
• Rama2bPerturberOP : protocols::kinematic_closure::perturbers
• rama_list_pred() : protocols::relax
• RamachandranHash : protocols::features
• RamaCheck1BCOP : protocols::loops::loop_closure::ccd
• RamaCheck1BOP : protocols::loops::loop_closure::ccd
• RamaCheck2BCOP : protocols::loops::loop_closure::ccd
• RamaCheck2BOP : protocols::loops::loop_closure::ccd
• RamaCheckBaseCOP : protocols::loops::loop_closure::ccd
• RamaCheckBaseOP : protocols::loops::loop_closure::ccd
• RamaPerturberCOP : protocols::kinematic_closure::perturbers
• RamaPerturberOP : protocols::kinematic_closure::perturbers
• RamaScoreCOP : protocols::frag_picker::scores
• RamaScoreOP : protocols::frag_picker::scores
• ramp_minpack_loop() : protocols::mpi_refinement
• ramp_minpack_pose() : protocols::mpi_refinement
• RampingFuncCOP : protocols::moves
• RampingFuncOP : protocols::moves
• RampingMoverCOP : protocols::moves
• RampingMoverOP : protocols::moves
• random : protocols::rigid
• random_chunk : protocols::hybridization
• random_conformer_tracer() : protocols::ligand_docking
• random_connection() : protocols::ligand_docking
• random_reorientation_matrix() : protocols::geometry
• random_selector : protocols::generalized_kinematic_closure::selector
• RANDOM_SIDE : protocols::forge::build::SegmentInsertConnectionScheme
• RandomConformerMoverCOP : protocols::ligand_docking
• RandomConformerMoverOP : protocols::ligand_docking
• randomize_alpha_backbone_by_rama : protocols::generalized_kinematic_closure::perturber
• randomize_backbone_by_bins : protocols::generalized_kinematic_closure::perturber
• randomize_dihedral : protocols::generalized_kinematic_closure::perturber
• randomize_selected_atoms() : protocols::comparative_modeling
• RandomMoverCOP : protocols::moves
• RandomMoverOP : protocols::moves
• RandomMutationCOP : protocols::protein_interface_design::movers
• RandomMutationOP : protocols::protein_interface_design::movers
• RandomOmegaFlipMoverCOP : protocols::simple_moves
• RandomOmegaFlipMoverOP : protocols::simple_moves
• RandomPositionRotationMoverCOP : protocols::membrane
• RandomPositionRotationMoverOP : protocols::membrane
• RandomPositionTranslationMoverCOP : protocols::membrane
• RandomPositionTranslationMoverOP : protocols::membrane
• RandomSolutionsCOP : protocols::kinematic_closure::solution_pickers
• RandomSolutionsOP : protocols::kinematic_closure::solution_pickers
• RandomSymmetrySliderCOP : protocols::simple_moves::symmetry
• RandomSymmetrySliderOP : protocols::simple_moves::symmetry
• RandomTorsionMoverCOP : protocols::simple_moves
• RandomTorsionMoverOP : protocols::simple_moves
• range() : protocols::sic_dock
• RangeFilterCOP : protocols::simple_filters
• RangeFilterOP : protocols::simple_filters
• RationalMonteCarloCOP : protocols::simple_moves::rational_mc
• RationalMonteCarloOP : protocols::simple_moves::rational_mc
• RationalMonteCarloTrigger : protocols::simple_moves::rational_mc
• RB_DEFAULT : protocols::rbsegment_relax
• rb_grid_rotamer_trials_atr_rep() : protocols::ligand_docking
• rb_grid_score_atr_rep() : protocols::ligand_docking
• RB_HELIX : protocols::rbsegment_relax
• RB_SHEET : protocols::rbsegment_relax
• RBConsIt : protocols::rbsegment_relax
• RBIt : protocols::rbsegment_relax
• RBSegmentMoverOP : protocols::rbsegment_relax
• RBSegmentOP : protocols::rbsegment_relax
• RBSegmentRelax_main() : protocols
• RBSegmentRelaxImplOP : protocols
• RBSegmentType : protocols::rbsegment_relax
• RDC_lines : protocols::scoring
• RDC_lines_collection : protocols::scoring
• RDFBaseOP : protocols::ligand_docking::rdf
• RDFFunctionCreatorCOP : protocols::ligand_docking::rdf
• RDFFunctionCreatorOP : protocols::ligand_docking::rdf
• RDFResultList : protocols::ligand_docking::rdf
• read1() : protocols::cluster
• read_biounit() : protocols::sic_dock
• read_disulf_pairing_list() : protocols::jumping
• read_extra_residues() : protocols::comparative_modeling
• read_fragment_candidates() : protocols::frag_picker
• read_frags() : protocols::topology_broker
• read_H3_cter_fragment() : protocols::antibody_legacy
• read_in_mutations() : protocols
• read_loop_fragments() : protocols::loops
• read_minor_helix_params() : protocols::helical_bundle
• read_pairing_list() : protocols::jumping
• read_pose_from_pdb() : protocols::enzdes::enzutil
• read_RBSegment_file() : protocols::rbsegment_relax
• read_rigid_core() : protocols::abinitio::abscript
• read_ss2() : protocols::mpi_refinement
• read_template_scores() : protocols::cluster
• ReadResfileFromDBOP : protocols::toolbox::task_operations
• READY : protocols::forge::build::BuildInstructionState
• Real : protocols::fldsgn::potentials::sspot , protocols::flxbb , protocols::moves , protocols::protein_interface_design::movers , protocols::rosetta_scripts , protocols::sic_dock , protocols::sic_dock::scores
• Real6 : protocols::match
• RealAngleToShort() : protocols::loophash
• REALLY_BAD_SCORE : protocols::loops::loop_closure::ccd
• Reals : protocols::kinmatch , protocols::sasa_scores , protocols::sic_dock , protocols::sic_dock::scores
• rebuild_loops_until_closed() : protocols::comparative_modeling
• RECEIVE_MESSAGE_TAG : protocols::jd2
• RecoverSideChainsMoverCOP : protocols::comparative_modeling
• RecoverSideChainsMoverOP : protocols::comparative_modeling
• recreate_task() : protocols::enzdes::enzutil
• recursive_multiple_disulfide_former() : protocols::forge::remodel
• reduced_size() : protocols::scoring::methods::pcs2
• REFINE() : protocols::loops::loop_mover
• refine_mindis_with_xyzHash() : protocols::sic_dock
• RefineBetaBarrelCOP : protocols::antibody
• RefineBetaBarrelOP : protocols::antibody
• RefineOneCDRLoopCentroidCOP : protocols::antibody
• RefineOneCDRLoopCentroidOP : protocols::antibody
• RefineOneCDRLoopCOP : protocols::antibody
• RefineOneCDRLoopOP : protocols::antibody
• RegionCOP : protocols::nonlocal
• RegionOP : protocols::nonlocal
• register_cutoff() : protocols::abinitio
• register_options() : protocols::evaluation , protocols::jd2
• register_options_broker() : protocols::abinitio
• register_options_universal_main() : protocols::jobdist
• regular_edges_within_interval() : protocols::forge::methods
• regular_facet_containing_position() : protocols::forge::methods
• reject : protocols::hotspot_hashing
• RelativeConnectRightAP : protocols::forge::build
• RelativeConnectRightCAP : protocols::forge::build
• RelativeConnectRightCOP : protocols::forge::build
• RelativeConnectRightOP : protocols::forge::build
• RelativePoseFilterCOP : protocols::simple_filters
• RelativePoseFilterOP : protocols::simple_filters
• RelativeSegmentCOP : protocols::protein_interface_design::filters
• RelativeSegmentOP : protocols::protein_interface_design::filters
• RelativeSequencePositionAP : protocols::forge::build
• RelativeSequencePositionCAP : protocols::forge::build
• RelativeSequencePositionCOP : protocols::forge::build
• RelativeSequencePositionOP : protocols::forge::build
• RELAX : protocols::abinitio
• relax : protocols::antibody::design
• Relax_main() : protocols::relax
• relax_pose() : protocols::relax
• relaxed_design : protocols::antibody::design
• RelaxProtocolBaseAP : protocols::relax
• RelaxProtocolBaseCAP : protocols::relax
• RelaxProtocolBaseCOP : protocols::relax
• RelaxProtocolBaseOP : protocols::relax
• remap_rb_segments() : protocols::rbsegment_relax
• remodel_generic_taskfactory() : protocols::forge::methods
• RemodelConstraintGeneratorAP : protocols::forge::remodel
• RemodelConstraintGeneratorCAP : protocols::forge::remodel
• RemodelConstraintGeneratorCOP : protocols::forge::remodel
• RemodelConstraintGeneratorOP : protocols::forge::remodel
• RemodelEnzdesCstModuleOP : protocols::forge::remodel
• RemodelGlobalFrame_AP : protocols::forge::remodel
• RemodelGlobalFrame_CAP : protocols::forge::remodel
• RemodelGlobalFrame_COP : protocols::forge::remodel
• RemodelGlobalFrame_OP : protocols::forge::remodel
• RemodelLoopMoverAP : protocols::forge::remodel
• RemodelLoopMoverCAP : protocols::forge::remodel
• RemodelLoopMoverCOP : protocols::forge::remodel
• RemodelLoopMoverOP : protocols::forge::remodel
• RemodelMover_AP : protocols::forge::remodel
• RemodelMover_CAP : protocols::forge::remodel
• RemodelMover_COP : protocols::forge::remodel
• RemodelMover_OP : protocols::forge::remodel
• RemodelRotamerLinksOP : protocols::forge::remodel
• REMOVE : protocols::enzdes
• remove_all_enzdes_constraints() : protocols::enzdes::enzutil
• remove_all_variant_types() : protocols::stepwise::modeler::rna
• remove_all_virtual_phosphates() : protocols::stepwise::modeler::rna
• remove_chain_break_jump_point() : protocols::stepwise::legacy::modeler::rna
• remove_chain_break_variants() : protocols::stepwise::modeler::rna
• remove_chainbreaks_according_to_jumps() : protocols::toolbox::pose_manipulation
• remove_coordinate_constraints_from_pose() : protocols::protein_interface_design
• remove_cut() : protocols::jumping
• remove_cutpoint() : protocols::forge::methods
• remove_cutpoint_closed() : protocols::farna
• remove_cutpoint_variants() : protocols::forge::methods , protocols::loops
• remove_cutpoint_variants_for_ccd() : protocols::grafting
• remove_cutpoints() : protocols::forge::methods
• remove_cutpoints_closed() : protocols::farna
• remove_file() : protocols::stepwise::modeler::rna
• remove_hotspot_constraints_from_pose() : protocols::hotspot_hashing
• remove_missing_density() : protocols::loops
• remove_non_protein_residues() : protocols::toolbox::pose_manipulation
• remove_remark_header_for_geomcst() : protocols::enzdes::enzutil
• remove_residues() : protocols::hybridization
• remove_short_chunks() : protocols::loops
• remove_silent_file_if_it_exists() : protocols::stepwise::modeler
• remove_small_gaps() : protocols::loops
• remove_terminal_phosphates() : protocols::stepwise::modeler::rna::phosphate
• remove_virtual_O2Prime_hydrogen() : protocols::stepwise::modeler::rna
• RemoveLigandFilterOP : protocols::enzdes
• renumber_with_pdb_info() : protocols::hybridization
• reorder_membrane_foldtree() : protocols::membrane::geometry
• reorder_root_partition_res() : protocols::stepwise::modeler
• reorder_with_first_non_mobile_as_root() : protocols::ligand_docking
• reorient_extended_fibril() : protocols::fibril
• repack : protocols::antibody::design
• repack_connection_and_residues_in_movemap() : protocols::grafting
• repack_connection_and_residues_in_movemap_and_piece() : protocols::grafting
• repack_connection_and_residues_in_movemap_and_piece_and_neighbors() : protocols::grafting
• RepackingRefinerCOP : protocols::loop_modeling::refiners
• RepackingRefinerOP : protocols::loop_modeling::refiners
• RepackSidechainsMoverCOP : protocols::simple_moves
• RepackSidechainsMoverOP : protocols::simple_moves
• RepackTrialCOP : protocols::loops::loop_mover::refine
• RepackTrialOP : protocols::loops::loop_mover::refine
• RepeatMoverCOP : protocols::moves
• RepeatMoverOP : protocols::moves
• RepeatParameterFilterCOP : protocols::simple_filters
• RepeatParameterFilterOP : protocols::simple_filters
• RepeatPropagationMoverCOP : protocols::simple_moves
• RepeatPropagationMoverOP : protocols::simple_moves
• RepGridTracer() : protocols::qsar::scoring_grid
• replace() : protocols::forge::methods
• replace_region() : protocols::grafting
• replace_residue_keeping_all_atom_positions() : protocols::toolbox::match_enzdes_util
• ReplaceRegionMoverCOP : protocols::grafting
• ReplaceRegionMoverOP : protocols::grafting
• ReplicaExchangeMC_COP : protocols::moves
• ReplicaExchangeMC_OP : protocols::moves
• ReplicateFilterCOP : protocols::filters
• ReplicateFilterOP : protocols::filters
• report_batch_inconsistency() : protocols::jd2::archive
• report_heading_directions_of_all_AA_in_a_strand() : protocols::features::strand_assembly
• report_tag_error() : protocols::jd2::archive
• report_value_error() : protocols::jd2::archive
• ReportCOP : protocols::features
• ReportOP : protocols::features
• ReportToDBCOP : protocols::features
• ReportToDBOP : protocols::features
• RepulsiveOnlyMoverCOP : protocols::simple_moves
• RepulsiveOnlyMoverOP : protocols::simple_moves
• REQUEST_MESSAGE_TAG : protocols::jd2
• reroot() : protocols::stepwise::modeler
• reroot_based_on_full_model_info() : protocols::stepwise::modeler
• res_res_min_distance() : protocols::simple_filters
• res_rmsd() : protocols::simple_filters
• RESAMPLE : protocols::stepwise::monte_carlo
• RESAMPLE_INTERNAL_LOCAL : protocols::stepwise::monte_carlo
• ResampleMoverCOP : protocols::stepwise::monte_carlo::mover
• ResampleMoverOP : protocols::stepwise::monte_carlo::mover
• rescale_scorefxn() : protocols::stepwise::modeler::rna
• reset_x() : protocols::toolbox
• ResetBaselineMoverCOP : protocols::simple_moves
• ResetBaselineMoverOP : protocols::simple_moves
• ResFileOutputterSP : protocols::outputter
• ResIdCOP : protocols::moves
• ResIdOP : protocols::moves
• ResidualDipolarCouplingEnergyRigidSegmentsOP : protocols::scoring::methods
• ResidualDipolarCouplingRigidSegmentsCOP : protocols::scoring
• ResidualDipolarCouplingRigidSegmentsOP : protocols::scoring
• RESIDUE_ALTERNATIVE : protocols::stepwise::sampler
• RESIDUE_ALTERNATIVE_COMB : protocols::stepwise::sampler
• RESIDUE_APPLIER : protocols::stepwise::screener
• residue_burial_filter_tracer() : protocols::simple_filters
• residue_center_of_mass() : protocols::membrane::geometry
• RESIDUE_COLOR : protocols::viewer::graphics_states_param
• RESIDUE_CONTACT : protocols::stepwise::screener
• RESIDUE_CPK_COLOR : protocols::viewer::graphics_states_param
• residue_cutoff() : protocols::abinitio
• residue_distance_filter_tracer() : protocols::simple_filters
• residue_is_floppy() : protocols::sic_dock
• RESIDUE_LIST : protocols::stepwise::sampler
• residue_packer_states() : protocols::rosetta_scripts
• residue_sc_rmsd_no_super() : protocols::hotspot_hashing
• ResidueAlternativeSetCOP : protocols::stepwise::sampler::copy_dofs
• ResidueAlternativeSetOP : protocols::stepwise::sampler::copy_dofs
• ResidueAlternativeStepWiseSamplerCombCOP : protocols::stepwise::sampler::copy_dofs
• ResidueAlternativeStepWiseSamplerCombOP : protocols::stepwise::sampler::copy_dofs
• ResidueAlternativeStepWiseSamplerCOP : protocols::stepwise::sampler::copy_dofs
• ResidueAlternativeStepWiseSamplerOP : protocols::stepwise::sampler::copy_dofs
• ResidueBurialFeaturesCOP : protocols::features
• ResidueBurialFeaturesOP : protocols::features
• ResidueConformationFeaturesCOP : protocols::features
• ResidueConformationFeaturesOP : protocols::features
• ResidueContactScreenerCOP : protocols::stepwise::screener
• ResidueContactScreenerOP : protocols::stepwise::screener
• ResidueDecompositionByChainCalculatorCOP : protocols::toolbox::pose_metric_calculators
• ResidueDecompositionByChainCalculatorOP : protocols::toolbox::pose_metric_calculators
• ResidueElements : protocols::environment::claims
• ResidueFeatureCOP : protocols::comparative_modeling::features
• ResidueFeatureOP : protocols::comparative_modeling::features
• ResidueFeaturesCOP : protocols::features
• ResidueFeaturesOP : protocols::features
• ResidueGridScoresFeaturesCOP : protocols::features
• ResidueGridScoresFeaturesOP : protocols::features
• ResidueIdentifier : protocols::loops
• ResidueIEFilterCOP : protocols::simple_filters
• ResidueIEFilterOP : protocols::simple_filters
• ResidueListStepWiseSamplerCOP : protocols::stepwise::sampler::copy_dofs
• ResidueListStepWiseSamplerOP : protocols::stepwise::sampler::copy_dofs
• ResidueNetworkCOP : protocols::toolbox
• ResidueNetworkOP : protocols::toolbox
• ResiduePairJumpCOP : protocols::jumping
• ResiduePairJumpOP : protocols::jumping
• ResiduePairJumpSetupCOP : protocols::jumping
• ResiduePairJumpSetupOP : protocols::jumping
• ResiduePairJumpSetupSingleCOP : protocols::jumping
• ResiduePairJumpSetupSingleOP : protocols::jumping
• ResiduePairJumpSingleCOP : protocols::jumping
• ResiduePairJumpSingleOP : protocols::jumping
• ResidueProbDesignOperationCOP : protocols::antibody::design
• ResidueProbDesignOperationOP : protocols::antibody::design
• residues_in_interface_tracer() : protocols::simple_filters
• ResidueScoresFeaturesCOP : protocols::features
• ResidueScoresFeaturesOP : protocols::features
• ResidueSecondaryStructureFeaturesCOP : protocols::features
• ResidueSecondaryStructureFeaturesOP : protocols::features
• ResidueTorsionRestraintsCOP : protocols::ligand_docking
• ResidueTorsionRestraintsOP : protocols::ligand_docking
• ResidueTotalScoresFeaturesCOP : protocols::features
• ResidueTotalScoresFeaturesOP : protocols::features
• ResidueTypeConstraintMoverCOP : protocols::simple_moves
• ResidueTypeConstraintMoverOP : protocols::simple_moves
• ResidueTypesFeaturesCOP : protocols::features
• ResidueTypesFeaturesOP : protocols::features
• ResidueVicinityInfoCOP : protocols::forge::remodel
• ResidueVicinityInfoOP : protocols::forge::remodel
• ResidueVicinityRCGCAP : protocols::forge::remodel
• ResidueVicinityRCGOP : protocols::forge::remodel
• ResMap : protocols::stepwise::modeler::protein
• ResolutionSwitcherCOP : protocols::abinitio
• ResolutionSwitcherOP : protocols::abinitio
• ResonanceAP : protocols::noesy_assign
• ResonanceCAP : protocols::noesy_assign
• ResonanceCOP : protocols::noesy_assign
• ResonanceListAP : protocols::noesy_assign
• ResonanceListCAP : protocols::noesy_assign
• ResonanceListCOP : protocols::noesy_assign
• ResonanceListOP : protocols::noesy_assign
• ResonanceOP : protocols::noesy_assign
• RESOURCE_MANAGED_JOB : protocols::jd2::JobInputterInputSource
• resSeq : protocols::loops
• restore_pose_from_rbsegs() : protocols::rbsegment_relax
• restore_residues() : protocols::forge::methods
• restrain_ligand_nbr_atom() : protocols::ligand_docking
• restrict_dna_rotamers() : protocols::dna
• restrict_to_canonical_aas() : protocols::multistate_design
• restrict_to_protein_residues() : protocols::ligand_docking
• restrict_to_single_sequence() : protocols::dna
• RestrictByCalculatorsOperationCOP : protocols::toolbox::task_operations
• RestrictByCalculatorsOperationOP : protocols::toolbox::task_operations
• RestrictChainToRepackingOperationCOP : protocols::toolbox::task_operations
• RestrictChainToRepackingOperationOP : protocols::toolbox::task_operations
• RestrictConservedLowDdgOperationOP : protocols::toolbox::task_operations
• RestrictDesignToProteinDNAInterfaceOP : protocols::dna
• RestrictIdentitiesAtAlignedPositionsOperationCOP : protocols::toolbox::task_operations
• RestrictIdentitiesAtAlignedPositionsOperationOP : protocols::toolbox::task_operations
• RestrictIdentitiesOperationCOP : protocols::toolbox::task_operations
• RestrictIdentitiesOperationOP : protocols::toolbox::task_operations
• RestrictInterGroupVectorOperationCOP : protocols::toolbox::task_operations
• RestrictInterGroupVectorOperationOP : protocols::toolbox::task_operations
• RestrictNativeResiduesOperationOP : protocols::toolbox::task_operations
• RestrictNonSurfaceToRepackingOperationOP : protocols::toolbox::task_operations
• RestrictOperationsBaseCOP : protocols::toolbox::task_operations
• RestrictOperationsBaseOP : protocols::toolbox::task_operations
• RestrictResiduesToRepackingOperationCOP : protocols::toolbox::task_operations
• RestrictResiduesToRepackingOperationOP : protocols::toolbox::task_operations
• RestrictToAlignedSegmentsOperationCOP : protocols::toolbox::task_operations
• RestrictToAlignedSegmentsOperationOP : protocols::toolbox::task_operations
• RestrictToCDRH3LoopOP : protocols::toolbox::task_operations
• RestrictToInterfaceCOP : protocols::toolbox::task_operations
• RestrictToInterfaceOP : protocols::toolbox::task_operations
• RestrictToInterfaceOperationCOP : protocols::toolbox::task_operations
• RestrictToInterfaceOperationOP : protocols::toolbox::task_operations
• RestrictToInterfaceVectorOperationCOP : protocols::toolbox::task_operations
• RestrictToInterfaceVectorOperationOP : protocols::toolbox::task_operations
• RestrictToLoopsAndNeighborsOP : protocols::toolbox::task_operations
• RestrictToLoopsOP : protocols::toolbox::task_operations
• RestrictToMoveMapChiOperationOP : protocols::toolbox::task_operations
• RestrictToNeighborhoodOperationCOP : protocols::toolbox::task_operations
• RestrictToNeighborhoodOperationOP : protocols::toolbox::task_operations
• RestrictToTerminiOperationCOP : protocols::toolbox::task_operations
• RestrictToTerminiOperationOP : protocols::toolbox::task_operations
• ResTypeFragmentMoverCOP : protocols::simple_moves
• ResTypeFragmentMoverOP : protocols::simple_moves
• ResTypeSequence : protocols::dna
• ResTypeSequences : protocols::dna
• retrieve_assignment() : protocols::noesy_assign
• retrieve_RDC_segments_from_pose() : protocols::scoring
• retrieve_residue_num_of_rkde() : protocols::features::strand_assembly
• RetrieveStoredTaskOperationCOP : protocols::toolbox::task_operations
• RetrieveStoredTaskOperationOP : protocols::toolbox::task_operations
• return_nearest_residue() : protocols::membrane::geometry
• return_region() : protocols::grafting
• ReturnSidechainMoverCOP : protocols::simple_moves
• ReturnSidechainMoverOP : protocols::simple_moves
• Reversions : protocols::dna
• revise_root_and_moving_res() : protocols::stepwise::modeler
• revise_root_and_moving_res_list() : protocols::stepwise::modeler
• RFd_like : protocols::fldsgn::topology
• RHIJU_COLOR : protocols::viewer::graphics_states_param
• RIGID_BODY : protocols::stepwise::sampler
• RIGID_BODY_WITH_RESIDUE_ALTERNATIVES : protocols::stepwise::sampler
• RIGID_BODY_WITH_RESIDUE_LIST : protocols::stepwise::sampler
• RigidBodyDeterministicSpinMoverCOP : protocols::rigid
• RigidBodyDeterministicSpinMoverOP : protocols::rigid
• RigidBodyDofPerturbMoverCOP : protocols::rigid
• RigidBodyDofPerturbMoverOP : protocols::rigid
• RigidBodyDofRandomizeMoverCOP : protocols::rigid
• RigidBodyDofRandomizeMoverOP : protocols::rigid
• RigidBodyDofRandomTransMoverCOP : protocols::rigid
• RigidBodyDofRandomTransMoverOP : protocols::rigid
• RigidBodyDofSeqPerturbMoverCOP : protocols::rigid
• RigidBodyDofSeqPerturbMoverOP : protocols::rigid
• RigidBodyDofSeqRandomizeMoverCOP : protocols::rigid
• RigidBodyDofSeqRandomizeMoverOP : protocols::rigid
• RigidBodyDofSeqTransMoverCOP : protocols::rigid
• RigidBodyDofSeqTransMoverOP : protocols::rigid
• RigidBodyDofTransMoverCOP : protocols::rigid
• RigidBodyDofTransMoverOP : protocols::rigid
• RigidBodyInfoOP : protocols::docking
• RigidBodyMotionMoverCOP : protocols::rigid
• RigidBodyMotionMoverOP : protocols::rigid
• RigidBodyMoverCOP : protocols::rigid
• RigidBodyMoverOP : protocols::rigid
• RigidBodyMoveRSOCOP : protocols::toolbox::rotamer_set_operations
• RigidBodyMoveRSOOP : protocols::toolbox::rotamer_set_operations
• RigidBodyPerturbMoverCOP : protocols::rigid
• RigidBodyPerturbMoverOP : protocols::rigid
• RigidBodyPerturbNoCenterMoverCOP : protocols::rigid
• RigidBodyPerturbNoCenterMoverOP : protocols::rigid
• RigidBodyPerturbRandomJumpMoverCOP : protocols::rigid
• RigidBodyPerturbRandomJumpMoverOP : protocols::rigid
• RigidBodyRandomizeMoverCOP : protocols::rigid
• RigidBodyRandomizeMoverOP : protocols::rigid
• RigidBodyRandomTMHMoverCOP : protocols::topology_broker
• RigidBodyRandomTMHMoverOP : protocols::topology_broker
• RigidBodySpinMoverCOP : protocols::rigid
• RigidBodySpinMoverOP : protocols::rigid
• RigidBodyStepWiseSamplerCOP : protocols::stepwise::sampler::rigid_body
• RigidBodyStepWiseSamplerOP : protocols::stepwise::sampler::rigid_body
• RigidBodyStepWiseSamplerValueRangeCOP : protocols::stepwise::sampler::rigid_body
• RigidBodyStepWiseSamplerValueRangeOP : protocols::stepwise::sampler::rigid_body
• RigidBodyStepWiseSamplerWithResidueAlternativesCOP : protocols::stepwise::sampler::rigid_body
• RigidBodyStepWiseSamplerWithResidueAlternativesOP : protocols::stepwise::sampler::rigid_body
• RigidBodyStepWiseSamplerWithResidueListCOP : protocols::stepwise::sampler::rigid_body
• RigidBodyStepWiseSamplerWithResidueListOP : protocols::stepwise::sampler::rigid_body
• RigidBodyTransMoverCOP : protocols::rigid
• RigidBodyTransMoverOP : protocols::rigid
• RigidChunkClaimerAP : protocols::topology_broker
• RigidChunkClaimerCAP : protocols::topology_broker
• RigidChunkClaimerCOP : protocols::topology_broker
• RigidChunkClaimerOP : protocols::topology_broker
• RigidChunkCMCOP : protocols::abinitio::abscript
• RigidChunkCMOP : protocols::abinitio::abscript
• RigidLigandBuilderCOP : protocols::match::downstream
• RigidLigandBuilderOP : protocols::match::downstream
• RigidScoreCOP : protocols::sic_dock
• RigidScoreOP : protocols::sic_dock
• RigidSearchMoverCOP : protocols::ligand_docking
• RigidSearchMoverOP : protocols::ligand_docking
• RingConformationMoverCOP : protocols::simple_moves
• RingConformationMoverOP : protocols::simple_moves
• rm_variant() : protocols::environment
• RMSD_FRAG_STORE : protocols::loops::loop_closure::ccd
• rmsd_over_residue_list() : protocols::stepwise::modeler::rna
• RMSwrapper() : protocols::simple_filters
• RNA_AddDeleteMonteCarloOP : protocols::stepwise::monte_carlo::rna
• RNA_AnalyticLoopCloserOP : protocols::stepwise::legacy::modeler::rna
• RNA_AtrRepCheckerCOP : protocols::stepwise::modeler::rna::checker
• RNA_AtrRepCheckerOP : protocols::stepwise::modeler::rna::checker
• RNA_AtrRepScreenerCOP : protocols::stepwise::legacy::screener
• RNA_AtrRepScreenerOP : protocols::stepwise::legacy::screener
• RNA_BaseCentroidCheckerCOP : protocols::stepwise::modeler::rna::checker
• RNA_BaseCentroidCheckerOP : protocols::stepwise::modeler::rna::checker
• RNA_CHAIN_CLOSABLE_GEOMETRY : protocols::stepwise::screener
• RNA_CHAIN_CLOSABLE_GEOMETRY_RESIDUE_BASED : protocols::stepwise::screener
• RNA_CHAIN_CLOSABLE_GEOMETRY_STUB_BASED : protocols::stepwise::screener
• RNA_CHAIN_CLOSURE : protocols::stepwise::screener
• RNA_ChainClosableGeometryCheckerCOP : protocols::stepwise::modeler::rna::checker
• RNA_ChainClosableGeometryCheckerOP : protocols::stepwise::modeler::rna::checker
• RNA_ChainClosableGeometryResidueBasedScreenerCOP : protocols::stepwise::screener
• RNA_ChainClosableGeometryResidueBasedScreenerOP : protocols::stepwise::screener
• RNA_ChainClosableGeometryScreenerCOP : protocols::stepwise::screener
• RNA_ChainClosableGeometryScreenerOP : protocols::stepwise::screener
• RNA_ChainClosableGeometryStubBasedScreenerCOP : protocols::stepwise::screener
• RNA_ChainClosableGeometryStubBasedScreenerOP : protocols::stepwise::screener
• RNA_ChainClosureCheckerCOP : protocols::stepwise::modeler::rna::checker
• RNA_ChainClosureCheckerOP : protocols::stepwise::modeler::rna::checker
• RNA_ChainClosureScreenerCOP : protocols::stepwise::screener
• RNA_ChainClosureScreenerOP : protocols::stepwise::screener
• RNA_CHI : protocols::stepwise::sampler
• RNA_ChiStepWiseSamplerOP : protocols::stepwise::sampler::rna
• RNA_ChunkLibraryOP : protocols::farna
• RNA_FragmentMoverOP : protocols::farna
• RNA_FragmentsOP : protocols::farna
• RNA_HelixAssemblerOP : protocols::stepwise::modeler::rna::helix
• RNA_JumpLibraryOP : protocols::farna
• RNA_KIC : protocols::stepwise::sampler
• RNA_KIC_SamplerOP : protocols::stepwise::sampler::rna
• RNA_KINEMATIC_CLOSER : protocols::stepwise::sampler
• RNA_KinematicCloserOP : protocols::stepwise::sampler::rna
• RNA_LoopCloserOP : protocols::farna
• RNA_MC_MULTI_SUITE : protocols::stepwise::sampler
• RNA_MC_MultiSuiteOP : protocols::stepwise::sampler::rna
• RNA_MC_SUGAR : protocols::stepwise::sampler
• RNA_MC_SugarAP : protocols::stepwise::sampler::rna
• RNA_MC_SugarOP : protocols::stepwise::sampler::rna
• RNA_MC_SUITE : protocols::stepwise::sampler
• RNA_MC_SuiteOP : protocols::stepwise::sampler::rna
• RNA_MinimizerOP : protocols::farna
• RNA_NUCLEOSIDE : protocols::stepwise::sampler
• RNA_NucleosideStepWiseSamplerOP : protocols::stepwise::sampler::rna
• RNA_O2PrimeMoverOP : protocols::stepwise::monte_carlo::rna
• RNA_PairingList : protocols::farna
• RNA_PairingTemplateList : protocols::farna
• RNA_PairingTemplateMap : protocols::farna
• RNA_PairingTemplateOP : protocols::farna
• RNA_RelaxerOP : protocols::farna
• RNA_SecStructInfoOP : protocols::farna
• RNA_StructureParametersOP : protocols::farna
• RNA_SUGAR : protocols::stepwise::sampler
• RNA_SugarStepWiseSamplerOP : protocols::stepwise::sampler::rna
• RNA_SUITE : protocols::stepwise::sampler
• RNA_SuiteStepWiseSamplerOP : protocols::stepwise::sampler::rna
• RNA_TorsionMoverOP : protocols::stepwise::monte_carlo::rna
• RNA_TorsionScreenerOP : protocols::stepwise::sampler::screener
• RNA_VDW_BinCheckerCOP : protocols::stepwise::modeler::rna::checker
• RNA_VDW_BinCheckerOP : protocols::stepwise::modeler::rna::checker
• RNAseH : protocols::fldsgn::topology
• rolling_score() : protocols::frag_picker::scores
• RollMoverCOP : protocols::rigid
• RollMoverOP : protocols::rigid
• RosI : protocols::fldsgn::topology
• RosO : protocols::fldsgn::topology
• rot1 : protocols::jumping
• rot2 : protocols::jumping
• rot_mat() : protocols::forge::remodel
• rot_pose() : protocols::matdes , protocols::sic_dock
• RotamerBoltzCalculatorCOP : protocols::toolbox::pose_metric_calculators
• RotamerBoltzCalculatorOP : protocols::toolbox::pose_metric_calculators
• RotamerBoltzmannWeightFeaturesCOP : protocols::features
• RotamerBoltzmannWeightFeaturesOP : protocols::features
• RotamerBoltzmannWeightFilterCOP : protocols::simple_filters
• RotamerBoltzmannWeightFilterOP : protocols::simple_filters
• RotamerDNAHBondFilterOP : protocols::dna
• RotamerFeaturesCOP : protocols::features
• RotamerFeaturesOP : protocols::features
• rotameric_chi_mimic_EX_flags : protocols::match::upstream
• rotameric_chi_partition_sd_range : protocols::match::upstream
• rotameric_chi_step_by_value : protocols::match::upstream
• rotameric_chi_step_wi_sd_range : protocols::match::upstream
• RotamerizeMoverCOP : protocols::simple_moves
• RotamerizeMoverOP : protocols::simple_moves
• RotamerRecoveryCOP : protocols::rotamer_recovery
• RotamerRecoveryFactoryCOP : protocols::rotamer_recovery
• RotamerRecoveryFactoryOP : protocols::rotamer_recovery
• RotamerRecoveryFeaturesCOP : protocols::features
• RotamerRecoveryFeaturesOP : protocols::features
• RotamerRecoveryMoverCOP : protocols::rotamer_recovery
• RotamerRecoveryMoverOP : protocols::rotamer_recovery
• RotamerRecoveryOP : protocols::rotamer_recovery
• RotamerReporterCOP : protocols::rotamer_recovery
• RotamerReporterSimpleCOP : protocols::rotamer_recovery
• RotamerReporterSQLiteCOP : protocols::rotamer_recovery
• rotamers_for_trials() : protocols::ligand_docking
• RotamerTracer() : protocols::RotamerDump
• RotamerTrialsMinMoverCOP : protocols::simple_moves
• RotamerTrialsMinMoverOP : protocols::simple_moves
• RotamerTrialsMoverCOP : protocols::simple_moves
• RotamerTrialsMoverOP : protocols::simple_moves
• RotamerTrialsRefinerCOP : protocols::loop_modeling::refiners
• RotamerTrialsRefinerOP : protocols::loop_modeling::refiners
• rotate() : protocols::toolbox::rigid_body
• rotate_into_nucleobase_frame() : protocols::toolbox::sample_around
• rotate_into_phosphate_frame() : protocols::toolbox::sample_around
• rotate_tracer() : protocols::ligand_docking
• rotate_vec() : protocols::toolbox
• RotateCOP : protocols::ligand_docking
• RotateCOPs : protocols::ligand_docking
• RotateJumpAxisMoverCOP : protocols::rigid
• RotateJumpAxisMoverOP : protocols::rigid
• RotateOP : protocols::ligand_docking
• RotateOPs : protocols::ligand_docking
• rotates_tracer() : protocols::ligand_docking
• RotatesCOP : protocols::ligand_docking
• RotatesCOPs : protocols::ligand_docking
• RotatesOP : protocols::ligand_docking
• RotatesOPs : protocols::ligand_docking
• RotationMoverCOP : protocols::membrane
• RotationMoverOP : protocols::membrane
• RotDataVec : protocols::make_rot_lib
• rots_from_pose() : protocols::comparative_modeling
• RotVec : protocols::make_rot_lib
• round() : protocols::noesy_assign
• round_to_float() : protocols::features::strand_assembly
• round_to_Real() : protocols::features::strand_assembly
• round_to_Size() : protocols::features::strand_assembly
• RRComparerAutomorphicRMSDCOP : protocols::rotamer_recovery
• RRComparerAutomorphicRMSDOP : protocols::rotamer_recovery
• RRComparerChiDiffCOP : protocols::rotamer_recovery
• RRComparerChiDiffOP : protocols::rotamer_recovery
• RRComparerCOP : protocols::rotamer_recovery
• RRComparerCreatorCOP : protocols::rotamer_recovery
• RRComparerCreatorOP : protocols::rotamer_recovery
• RRComparerElecDensDiffCOP : protocols::rotamer_recovery
• RRComparerElecDensDiffOP : protocols::rotamer_recovery
• RRComparerOP : protocols::rotamer_recovery
• RRComparerRotBinsCOP : protocols::rotamer_recovery
• RRComparerRotBinsOP : protocols::rotamer_recovery
• RRProtocolCOP : protocols::rotamer_recovery
• RRProtocolCreatorCOP : protocols::rotamer_recovery
• RRProtocolCreatorOP : protocols::rotamer_recovery
• RRProtocolMinPackCOP : protocols::rotamer_recovery
• RRProtocolMinPackOP : protocols::rotamer_recovery
• RRProtocolMoverCOP : protocols::rotamer_recovery
• RRProtocolMoverOP : protocols::rotamer_recovery
• RRProtocolOP : protocols::rotamer_recovery
• RRProtocolPackRotamersCOP : protocols::rotamer_recovery
• RRProtocolPackRotamersOP : protocols::rotamer_recovery
• RRProtocolReferenceStructureCOP : protocols::rotamer_recovery
• RRProtocolReferenceStructureOP : protocols::rotamer_recovery
• RRProtocolRelaxCOP : protocols::rotamer_recovery
• RRProtocolRelaxOP : protocols::rotamer_recovery
• RRProtocolRotamerTrialsCOP : protocols::rotamer_recovery
• RRProtocolRotamerTrialsOP : protocols::rotamer_recovery
• RRProtocolRTMinCOP : protocols::rotamer_recovery
• RRProtocolRTMinOP : protocols::rotamer_recovery
• RRReporterCreatorCOP : protocols::rotamer_recovery
• RRReporterCreatorOP : protocols::rotamer_recovery
• RRReporterHumanCOP : protocols::rotamer_recovery
• RRReporterHumanOP : protocols::rotamer_recovery
• RRReporterOP : protocols::rotamer_recovery
• RRReporterSimpleOP : protocols::rotamer_recovery
• RRReporterSQLiteOP : protocols::rotamer_recovery
• Rsmn2x2 : protocols::fldsgn::topology
• Rsmn3x3 : protocols::fldsgn::topology
• Rsmn3x3_Half : protocols::fldsgn::topology
• RT_from_epos() : protocols::jumping
• run_boinc_debug() : protocols::abinitio
• RunningJobCOP : protocols::jd2
• RunningJobOP : protocols::jd2
• RuntimeFeaturesCOP : protocols::features
• RuntimeFeaturesOP : protocols::features
• rvec : protocols::scoring , protocols::toolbox