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

- l -

• L() : core::scoring::func , protocols::features
• L1 : protocols::antibody
• l1 : protocols::antibody
• L1_10_1 : protocols::antibody::clusters
• L1_10_2 : protocols::antibody::clusters
• L1_11_1 : protocols::antibody::clusters
• L1_11_2 : protocols::antibody::clusters
• L1_11_3 : protocols::antibody::clusters
• L1_12_1 : protocols::antibody::clusters
• L1_12_2 : protocols::antibody::clusters
• L1_12_3 : protocols::antibody::clusters
• L1_13_1 : protocols::antibody::clusters
• L1_13_2 : protocols::antibody::clusters
• L1_14_1 : protocols::antibody::clusters
• L1_14_2 : protocols::antibody::clusters
• L1_15_1 : protocols::antibody::clusters
• L1_15_2 : protocols::antibody::clusters
• L1_16_1 : protocols::antibody::clusters
• L1_17_1 : protocols::antibody::clusters
• l2 : protocols::antibody
• L2 : protocols::antibody
• L2_12_1 : protocols::antibody::clusters
• L2_12_2 : protocols::antibody::clusters
• L2_8_1 : protocols::antibody::clusters
• L2_8_2 : protocols::antibody::clusters
• L2_8_3 : protocols::antibody::clusters
• L2_8_4 : protocols::antibody::clusters
• L2_8_5 : protocols::antibody::clusters
• L3 : protocols::antibody
• l3 : protocols::antibody
• L3_10_1 : protocols::antibody::clusters
• L3_10_cis7_8_1 : protocols::antibody::clusters
• L3_10_cis8_1 : protocols::antibody::clusters
• L3_11_1 : protocols::antibody::clusters
• L3_11_cis7_1 : protocols::antibody::clusters
• L3_12_1 : protocols::antibody::clusters
• L3_13_1 : protocols::antibody::clusters
• L3_7_1 : protocols::antibody::clusters
• L3_8_1 : protocols::antibody::clusters
• L3_8_2 : protocols::antibody::clusters
• L3_8_cis6_1 : protocols::antibody::clusters
• L3_9_1 : protocols::antibody::clusters
• L3_9_2 : protocols::antibody::clusters
• L3_9_cis6_1 : protocols::antibody::clusters
• L3_9_cis7_1 : protocols::antibody::clusters
• L3_9_cis7_2 : protocols::antibody::clusters
• L3_9_cis7_3 : protocols::antibody::clusters
• l4 : protocols::antibody
• L4 : protocols::antibody
• L_AA : core::chemical
• L_chain_last_loop : protocols::antibody
• L_CHIRALITY : protocols::simple_moves::chiral
• L_RNA : core::chemical
• L_SS : protocols::comparative_modeling::features
• L_SUGAR : core::chemical
• La : core::chemical::element
• LA3_COORDINATION : core::chemical
• label_atom_name() : protocols::noesy_assign
• label_with_index() : core::chemical::rdkit
• LabelPoseFromResidueSelectorMoverCOP : protocols::fold_from_loops::movers
• LabelPoseFromResidueSelectorMoverOP : protocols::fold_from_loops::movers
• LabelResonanceAP : protocols::noesy_assign
• LabelResonanceCAP : protocols::noesy_assign
• LabelResonanceCOP : protocols::noesy_assign
• LabelResonanceOP : protocols::noesy_assign
• LACTYL_SUGAR : core::chemical
• lambda : protocols::antibody
• lambda6 : protocols::antibody
• LAMBDA_ATOM : core::chemical
• LargeFragWeightAP : protocols::topology_broker::weights
• LargeFragWeightCAP : protocols::topology_broker::weights
• LargeFragWeightCOP : protocols::topology_broker::weights
• LargeFragWeightOP : protocols::topology_broker::weights
• LargeNstructJobInputterAP : protocols::jd2
• LargeNstructJobInputterCAP : protocols::jd2
• LargeNstructJobInputterCOP : protocols::jd2
• LargeNstructJobInputterOP : protocols::jd2
• largest_continuous_atom_map() : protocols::legacy_sewing
• LarvalJobCOP : protocols::jd3
• LarvalJobOP : protocols::jd3
• LarvalJobs : protocols::jd3
• LAST_ADD_OR_DELETE_CHOICE : protocols::stepwise::monte_carlo::mover
• last_atomdesc : core::scoring::rna::chemical_shift
• LAST_ATTACHMENT_TYPE : protocols::stepwise::monte_carlo::mover
• last_beta3_aa : core::chemical
• last_D_aa : core::chemical
• last_DNA_aa : core::chemical
• last_oligourea : core::chemical
• last_protein_residue() : protocols::constraint_generator
• LAST_STAGE : protocols::abinitio
• LAST_TYPE : core::pose::full_model_info
• layer_design_ss_layer_group() : protocols::flxbb
• layer_design_ss_layer_naming_func() : protocols::flxbb
• layer_design_ss_layer_or_taskop_group() : protocols::flxbb
• LayerDesignOperationOP : protocols::flxbb
• LayerSelectorCOP : core::select::residue_selector
• LayerSelectorOP : core::select::residue_selector
• LazyInteractionGraphCOP : core::pack::interaction_graph
• LazyInteractionGraphOP : core::pack::interaction_graph
• LazySilentFileJobInputterOP : protocols::jd2
• LazySilentFilePoseInputStreamOP : core::import_pose::pose_stream
• LeastNativeLike9merFilterCOP : protocols::simple_filters
• LeastNativeLike9merFilterOP : protocols::simple_filters
• left : core::sequence
• legacy : core::scoring::sasa
• legacy_saved_pose_or_input() : protocols::rosetta_scripts
• LegacyAssemblyConstraintsMoverCOP : protocols::legacy_sewing
• LegacyAssemblyConstraintsMoverOP : protocols::legacy_sewing
• LegacyAssemblyMoverCOP : protocols::legacy_sewing
• LegacyAssemblyMoverOP : protocols::legacy_sewing
• LegacyAssemblyScoreFunctionCOP : protocols::legacy_sewing::scoring
• LegacyAssemblyScoreFunctionOP : protocols::legacy_sewing::scoring
• LegacyAssemblyScorerCOP : protocols::legacy_sewing::scoring
• LegacyAssemblyScorerOP : protocols::legacy_sewing::scoring
• LegacyBlosumScorerCOP : protocols::legacy_sewing::scoring
• LegacyBlosumScorerOP : protocols::legacy_sewing::scoring
• LegacyCalciumMotifScorerCOP : protocols::legacy_sewing::scoring
• LegacyCalciumMotifScorerOP : protocols::legacy_sewing::scoring
• LegacyClashScorerCOP : protocols::legacy_sewing::scoring
• LegacyClashScorerOP : protocols::legacy_sewing::scoring
• LegacyEnumerateAssemblyMoverCOP : protocols::legacy_sewing
• LegacyEnumerateAssemblyMoverOP : protocols::legacy_sewing
• LegacyGlobalLengthRequirementCOP : protocols::legacy_sewing::sampling::requirements
• LegacyGlobalLengthRequirementOP : protocols::legacy_sewing::sampling::requirements
• LegacyGlobalRequirementCOP : protocols::legacy_sewing::sampling::requirements
• LegacyGlobalRequirementCreatorCOP : protocols::legacy_sewing::sampling::requirements
• LegacyGlobalRequirementCreatorOP : protocols::legacy_sewing::sampling::requirements
• LegacyGlobalRequirementOP : protocols::legacy_sewing::sampling::requirements
• LegacyInterModelMotifScorerCOP : protocols::legacy_sewing::scoring
• LegacyInterModelMotifScorerOP : protocols::legacy_sewing::scoring
• LegacyIntraSegmentRequirementCOP : protocols::legacy_sewing::sampling::requirements
• LegacyIntraSegmentRequirementCreatorCOP : protocols::legacy_sewing::sampling::requirements
• LegacyIntraSegmentRequirementCreatorOP : protocols::legacy_sewing::sampling::requirements
• LegacyIntraSegmentRequirementOP : protocols::legacy_sewing::sampling::requirements
• LegacyKicSamplerCOP : protocols::loop_modeling::samplers
• LegacyKicSamplerOP : protocols::loop_modeling::samplers
• LegacyLoophashAssemblyMoverCOP : protocols::legacy_sewing
• LegacyLoophashAssemblyMoverOP : protocols::legacy_sewing
• LegacyMonteCarloAssemblyMoverCOP : protocols::legacy_sewing
• LegacyMonteCarloAssemblyMoverOP : protocols::legacy_sewing
• LegacyMotifScorerCOP : protocols::legacy_sewing::scoring
• LegacyMotifScorerOP : protocols::legacy_sewing::scoring
• LegacyNodeConstraintAssemblyMoverCOP : protocols::legacy_sewing
• LegacyNodeConstraintAssemblyMoverOP : protocols::legacy_sewing
• LegacyPartnerMotifScorerCOP : protocols::legacy_sewing::scoring
• LegacyPartnerMotifScorerOP : protocols::legacy_sewing::scoring
• LegacyRehashAssemblyMoverCOP : protocols::legacy_sewing
• LegacyRehashAssemblyMoverOP : protocols::legacy_sewing
• LegacyRequirementSetCOP : protocols::legacy_sewing::sampling::requirements
• LegacyRequirementSetOP : protocols::legacy_sewing::sampling::requirements
• LegacyResidueRetentionRequirementCOP : protocols::legacy_sewing::sampling::requirements
• LegacyResidueRetentionRequirementOP : protocols::legacy_sewing::sampling::requirements
• LegacyRootClaimAP : protocols::topology_broker::claims
• LegacyRootClaimCAP : protocols::topology_broker::claims
• LegacyRootClaimCOP : protocols::topology_broker::claims
• LegacyRootClaimOP : protocols::topology_broker::claims
• LegacyRootClaims : protocols::topology_broker::claims
• LegacySegmentDsspRequirementCOP : protocols::legacy_sewing::sampling::requirements
• LegacySegmentDsspRequirementOP : protocols::legacy_sewing::sampling::requirements
• LegacySegmentLengthRequirementCOP : protocols::legacy_sewing::sampling::requirements
• LegacySegmentLengthRequirementOP : protocols::legacy_sewing::sampling::requirements
• legolas_what_do_your_elf_eyes_see() : protocols::protein_interface_design::movers
• LeGrand : core::scoring::sasa
• LeGrandSasaCOP : core::scoring::sasa
• LeGrandSasaOP : core::scoring::sasa
• Length : core
• LENGTH_EVENT_COLLECTOR : core::pose::datacache
• LENGTH_TLC() : protocols::unfolded_state_energy_calculator
• LengthEventCollectorAP : core::pose::datacache
• LengthEventCollectorCAP : core::pose::datacache
• LengthEventCollectorCOP : core::pose::datacache
• LengthEventCollectorOP : core::pose::datacache
• LengthGenAP : core::fragment::picking_old::vall::gen
• LengthGenCAP : core::fragment::picking_old::vall::gen
• LengthGenCOP : core::fragment::picking_old::vall::gen
• LengthGenOP : core::fragment::picking_old::vall::gen
• LengthInResiduesRequirementCOP : protocols::sewing::requirements
• LengthInResiduesRequirementCreatorCOP : protocols::sewing::requirements
• LengthInResiduesRequirementCreatorOP : protocols::sewing::requirements
• LengthInResiduesRequirementOP : protocols::sewing::requirements
• Lengths : protocols::denovo_design::architects
• LengthSquared : core
• let_rigid_body_jumps_move() : protocols::rna::denovo
• LHRepulsiveRampCOP : protocols::antibody
• LHRepulsiveRampLegacyCOP : protocols::antibody
• LHRepulsiveRampLegacyOP : protocols::antibody
• LHRepulsiveRampOP : protocols::antibody
• LHSnugFitLegacyCOP : protocols::antibody
• LHSnugFitLegacyOP : protocols::antibody
• Li : core::chemical::element
• lib_full_path() : protocols::canonical_sampling::mc_convergence_checks
• LIGAND : core::chemical , protocols::motifs
• ligand : protocols::sewing::data_storage
• ligand_area_tracer() : protocols::ligand_docking
• ligand_design_tracer() : protocols::ligand_docking
• LigandAlignerCOP : protocols::ligand_docking::ga_ligand_dock
• LigandAlignerOP : protocols::ligand_docking::ga_ligand_dock
• LigandAreaCOP : protocols::ligand_docking
• LigandAreaCOPs : protocols::ligand_docking
• LigandAreaOP : protocols::ligand_docking
• LigandAreaOPs : protocols::ligand_docking
• LigandAreas : protocols::ligand_docking
• LigandAssemblyRequirementCOP : protocols::sewing::requirements
• LigandAssemblyRequirementOP : protocols::sewing::requirements
• LigandAssemblyScorerCOP : protocols::sewing::scoring
• LigandAssemblyScorerOP : protocols::sewing::scoring
• LigandBaseProtocolCOP : protocols::ligand_docking
• LigandBaseProtocolOP : protocols::ligand_docking
• LigandBindingAssemblyMoverCOP : protocols::sewing::movers
• LigandBindingAssemblyMoverOP : protocols::sewing::movers
• LigandBindingResPlacerCOP : protocols::sewing::hashing
• LigandBindingResPlacerOP : protocols::sewing::hashing
• LigandClashRequirementCOP : protocols::sewing::requirements
• LigandClashRequirementCreatorCOP : protocols::sewing::requirements
• LigandClashRequirementCreatorOP : protocols::sewing::requirements
• LigandClashRequirementOP : protocols::sewing::requirements
• LigandConformerBuilderCOP : protocols::match::downstream
• LigandConformerBuilderOP : protocols::match::downstream
• LigandConformerCOP : protocols::toolbox::match_enzdes_util
• LigandConformerOP : protocols::toolbox::match_enzdes_util
• LigandConformers : protocols::ligand_docking::ga_ligand_dock
• LigandContactCOP : protocols::sewing::data_storage
• LigandContactOP : protocols::sewing::data_storage
• LigandDesignCOP : protocols::ligand_docking
• LigandDesignOP : protocols::ligand_docking
• LigandDockMainOP : protocols::ligand_docking
• LigandDockProtocolCOP : protocols::ligand_docking
• LigandDockProtocolOP : protocols::ligand_docking
• LigandHashMap : protocols::sewing::hashing
• LigandMetalContactSelectorCOP : protocols::residue_selectors
• LigandMetalContactSelectorOP : protocols::residue_selectors
• LigandMotifSearchCOP : protocols::motifs
• LigandMotifSearchOP : protocols::motifs
• LigandResidueCOP : protocols::sewing::data_storage
• LigandResidueOP : protocols::sewing::data_storage
• LigandScorerCOP : protocols::sewing::scoring
• LigandScorerCreatorCOP : protocols::sewing::scoring
• LigandScorerCreatorOP : protocols::sewing::scoring
• LigandScorerOP : protocols::sewing::scoring
• LigandSegmentCOP : protocols::sewing::data_storage
• LigandSegmentOP : protocols::sewing::data_storage
• LightChainTypeEnum : protocols::antibody
• LightChainTypeEnum_start : protocols::antibody
• LightChainTypeEnum_total : protocols::antibody
• LightWeightResidueGraph : core::chemical
• limit_chunk_size() : protocols::nonlocal
• limit_rotamer_set() : protocols::multistate_design
• LimitAromaChi2_RotamerSetOperationCOP : protocols::task_operations
• LimitAromaChi2_RotamerSetOperationOP : protocols::task_operations
• LimitAromaChi2OperationCOP : protocols::task_operations
• LimitAromaChi2OperationOP : protocols::task_operations
• LimitHitsPerRotamerFilterCOP : protocols::match::output
• LimitHitsPerRotamerFilterOP : protocols::match::output
• linear : protocols::canonical_sampling
• linear_branch_conn : core::scoring
• linear_chainbreak : core::scoring , protocols::denovo_design , protocols::forge::methods
• linear_interpolate() : core::scoring::constraints
• linear_regression() : protocols::monte_carlo
• LinearBranchEnergyCreator_registrator : core::init
• LinearChainbreakEnergyCreator_registrator : core::init
• linearize_fold_tree() : core::kinematics
• LinearMemoryHPatchInteractionGraph : core::pack::interaction_graph
• LinearMemoryHPatchInteractionGraphOP : core::pack::interaction_graph
• LinearMemoryInteractionGraphCOP : core::pack::interaction_graph
• LinearMemoryInteractionGraphOP : core::pack::interaction_graph
• LinearMemoryNPDHBondInteractionGraph : core::pack::interaction_graph
• LinearMemoryNPDHBondInteractionGraphOP : core::pack::interaction_graph
• LinearMemorySurfaceInteractionGraph : core::pack::interaction_graph
• LinearMemorySurfaceInteractionGraphOP : core::pack::interaction_graph
• LineMinimizationAlgorithmCOP : core::optimization
• LineMinimizationAlgorithmOP : core::optimization
• LINK : core::io::pdb
• link_in_vector() : core::io
• link_vertex_to_generators() : core::scoring::power_diagram
• LINKAGE_NA : core::scoring::carbohydrates
• LinkageConformerMoverCOP : protocols::carbohydrates
• LinkageConformerMoverOP : protocols::carbohydrates
• LinkageConformers : core::chemical::carbohydrates
• linker_count2score() : protocols::sic_dock
• LinkerScoreCOP : protocols::sic_dock
• LinkerScoreOP : protocols::sic_dock
• linkres_subelement_ctname() : protocols::task_operations
• linkres_subelement_group() : protocols::task_operations
• LinkResiduesCOP : protocols::task_operations
• LinkResiduesOP : protocols::task_operations
• Links : core::kinematics
• LIPID : core::chemical
• LIST : protocols::cluster::calibur
• list_amino_acid_options() : protocols::multistate_design
• list_read_options_in_get_score_function() : core::scoring
• list_read_options_in_get_score_function_legacy() : core::scoring
• LIST_TYPE : protocols::cluster::calibur
• LITE : protocols::cluster::calibur
• LJ : core::scoring::sasa
• lk_ball : core::scoring
• lk_ball_bridge : core::scoring
• lk_ball_bridge_uncpl : core::scoring
• LK_BALL_INFO : core::conformation::residue_datacache
• lk_ball_iso : core::scoring
• LK_BALL_ROTAMER_SET_INFO : core::conformation::RotamerSetCacheableDataType
• lk_ball_wtd : core::scoring
• LK_BallEnergyCOP : core::scoring::lkball
• LK_BallEnergyCreator_registrator : core::init
• LK_BallEnergyOP : core::scoring::lkball
• lk_costheta : core::scoring
• lk_hack : core::scoring
• LK_hackCreator_registrator : core::init
• LK_MATCHING_INTERCEPT : core::energy_methods
• LK_MATCHING_SLOPE : core::energy_methods
• LK_MATCHING_WEIGHT_OLD_EXACT : core::energy_methods
• lk_nonpolar : core::scoring
• lk_nonpolar_intra_RNA : core::scoring
• lk_polar : core::scoring
• lk_polar_intra_RNA : core::scoring
• LK_POLARNONPOLAR_NBLIST : core::scoring::EnergiesCacheableDataType
• lk_PolarNonPolar_pair_nblist : core::scoring
• LK_PolarNonPolarEnergyCreator_registrator : core::init
• LKB_PoseInfo : core::scoring::lkball
• LKB_PoseInfoOP : core::scoring::lkball
• lkb_res_data : core::scoring
• LKB_ResidueInfoCOP : core::scoring::lkball
• LKB_ResidueInfoOP : core::scoring::lkball
• lkb_respair_data : core::scoring
• LKB_ResPairMinDataCOP : core::scoring::lkball
• LKB_ResPairMinDataOP : core::scoring::lkball
• LKB_RotamerSetInfo : core::scoring::lkball
• LKB_RotamerSetInfoOP : core::scoring::lkball
• LKB_TRIE_COLLECTION : core::scoring::EnergiesCacheableDataType
• lkball_method : core::scoring::methods
• lkball_nblist : core::scoring
• LKBRotamerTrieCOP : core::scoring::lkball::lkbtrie
• LKBRotamerTrieOP : core::scoring::lkball::lkbtrie
• ln() : core::scoring::epr_deer
• LnExpressionCOP : protocols::pack_daemon
• LnExpressionOP : protocols::pack_daemon
• Lnorm : protocols::hybridization
• load_avge_polynomial_coefficients() : protocols::sasa_scores
• load_build_position_data() : protocols::motifs
• load_checkpoint() : protocols::dna , protocols::rna::movers
• load_component_weights() : protocols::optimize_weights
• load_coords_and_torsions() : protocols::loops::loop_closure::ccd
• load_dna_design_defs_from_file() : protocols::dna
• load_dna_design_defs_from_options() : protocols::dna
• load_dna_design_defs_from_strings() : protocols::dna
• load_fastsax_spectrum() : core::energy_methods
• load_form_factors() : core::energy_methods
• load_heterogen_info() : core::io::mmtf
• load_loop_definitions() : protocols::loops::loops_definers
• load_motifs() : core::scoring::motif
• load_pdb_segments_from_pose_comments() : protocols::splice
• load_poses() : protocols::simple_filters
• load_s_and_l() : protocols::jobdist , protocols::stepwise::setup
• load_sasapack_polynomial_coefficients() : protocols::sasa_scores
• load_sdf() : core::chemical::rdkit
• load_unboundrot() : core::pack::dunbrack
• LoadPDBMoverCOP : protocols::simple_moves
• LoadPDBMoverOP : protocols::simple_moves
• LoadUnboundRotMoverCOP : protocols::simple_moves
• LoadUnboundRotMoverOP : protocols::simple_moves
• local_count_data : protocols::stepwise::legacy::modeler::rna
• LocalBackboneMoverCOP : protocols::backbone_moves::local_backbone_mover
• LocalBackboneMoverOP : protocols::backbone_moves::local_backbone_mover
• LocalCoordinateConstraintCOP : core::scoring::constraints
• LocalCoordinateConstraintCreator_registrator : core::init
• LocalCoordinateConstraintOP : core::scoring::constraints
• LocalInserter_SimpleMinCOP : protocols::loophash
• LocalInserter_SimpleMinOP : protocols::loophash
• LocalInserterCOP : protocols::loophash
• LocalInserterOP : protocols::loophash
• LocalJobID : protocols::jd3
• LocalPosition : core::environment , protocols::topology_broker::claims
• LocalPositionCOP : core::environment
• LocalPositionOP : core::environment
• LocalPositions : core::environment
• LocalRelaxAP : protocols::relax
• LocalRelaxCAP : protocols::relax
• LocalRelaxCOP : protocols::relax
• LocalRelaxOP : protocols::relax
• locate_rosetta_database() : core::init
• logdgaussian() : core::scoring::constraints
• logdgaussian_deriv() : core::scoring::constraints
• LogFilePerturberCOP : protocols::kinematic_closure::perturbers
• LogFilePerturberOP : protocols::kinematic_closure::perturbers
• logic_map() : core::select::residue_selector
• LogicResidueSelectorCOP : core::select::residue_selector
• LogicResidueSelectorOP : core::select::residue_selector
• logit() : core::scoring::epr_deer
• LongAxisRotationFreePeptideMoverCOP : protocols::backbone_moves::local_backbone_mover::free_peptide_movers
• LongAxisRotationFreePeptideMoverOP : protocols::backbone_moves::local_backbone_mover::free_peptide_movers
• LongestContinuousApolarSegmentFilterCOP : protocols::simple_filters
• LongestContinuousApolarSegmentFilterOP : protocols::simple_filters
• LongestContinuousPolarSegmentFilterCOP : protocols::simple_filters
• LongestContinuousPolarSegmentFilterOP : protocols::simple_filters
• LongRangeEnergyType : core::scoring::methods
• LongRangeTwoBodyEnergyCOP : core::scoring::methods
• LongRangeTwoBodyEnergyOP : core::scoring::methods
• look_for_dna() : core::import_pose
• look_for_jumps() : protocols::stepwise::modeler::rna::sugar
• look_for_jumps_to_next() : protocols::stepwise::modeler::rna::sugar
• look_for_jumps_to_previous() : protocols::stepwise::modeler::rna::sugar
• look_for_non_jump_reference_to_next() : protocols::stepwise::modeler::rna::sugar
• look_for_non_jump_reference_to_previous() : protocols::stepwise::modeler::rna::sugar
• look_for_unique_jump_to_moving_res() : protocols::stepwise::modeler
• lookup_cp_map() : core::scoring::trie
• lookup_idx() : core::scoring::rna::data
• lookup_pseudoprotons() : core::scoring::nmr
• lookup_type_for_orbital_type() : core::scoring::orbitals
• LookupMode : protocols::indexed_structure_store::filters
• loop_bump_check : protocols::generalized_kinematic_closure::filter
• loop_close : core::scoring
• LOOP_CLOSURE : protocols::abinitio
• LOOP_E_SUBMOTIF : core::scoring::rna
• loop_local_rmsd() : protocols::loops
• loop_mover_from_tag() : protocols::loop_modeling::utilities
• loop_rmsd() : protocols::loops
• loop_rmsd_with_superimpose() : protocols::loops
• loop_rmsd_with_superimpose_core() : protocols::loops
• loop_start_without_overlap() : protocols::denovo_design
• loop_stop_comp() : protocols::abinitio::abscript
• loop_stop_without_overlap() : protocols::denovo_design
• loop_subelement_namer() : protocols::loop_modeling::utilities
• LoopAAs : protocols::denovo_design::task_operations
• LoopAnalyzerFilterCOP : protocols::loops::filters
• LoopAnalyzerFilterOP : protocols::loops::filters
• LoopAnalyzerMover_subelement_ct_name() : protocols::analysis
• LoopAnalyzerMoverOP : protocols::analysis
• LoopAnchorFeaturesCOP : protocols::features
• LoopAnchorFeaturesOP : protocols::features
• LoopBuild_main() : protocols::loop_build
• LoopBuilderCOP : protocols::loop_modeling
• LoopBuilderOP : protocols::loop_modeling
• LoopBuildMoverCOP : protocols::loop_build
• LoopBuildMoverOP : protocols::loop_build
• LoopCloseEnergyCreator_registrator : core::init
• LoopClosePotentialEvaluatorCOP : core::scoring::loop_graph::evaluator
• LoopClosePotentialEvaluatorOP : core::scoring::loop_graph::evaluator
• LoopClosureCOP : protocols::loops::loop_closure::ccd
• LoopClosureOP : protocols::loops::loop_closure::ccd
• LoopCMAP : protocols::loops::loop_mover
• LoopCMCAP : protocols::loops::loop_mover
• LoopCMCOP : protocols::loops::loop_mover
• LoopCMOP : protocols::loops::loop_mover
• LoopConfiguration : protocols::loops
• LoopCOP : core::scoring::loop_graph , protocols::fldsgn::topology , protocols::loops
• LoopCycleCOP : core::scoring::loop_graph
• LoopCycleOP : core::scoring::loop_graph
• LoopFilterCOP : protocols::loop_modeling::utilities
• LoopFilterOP : protocols::loop_modeling::utilities
• loopfinder() : protocols::loops
• LoopFragmentClaimerAP : protocols::topology_broker
• LoopFragmentClaimerCAP : protocols::topology_broker
• LoopFragmentClaimerCOP : protocols::topology_broker
• LoopFragmentClaimerOP : protocols::topology_broker
• LoopGraphCOP : core::scoring::loop_graph
• LoopGraphOP : core::scoring::loop_graph
• LoopGrowerCOP : protocols::loop_grower
• LoopGrowerOP : protocols::loop_grower
• loophash_main() : protocols::loophash
• LoopHashLibraryCOP : protocols::loophash
• LoopHashLibraryLoaderCOP : protocols::loophash
• LoopHashLibraryLoaderOP : protocols::loophash
• LoopHashLibraryOP : protocols::loophash
• LoopHashLibraryOptionsCOP : protocols::loophash
• LoopHashLibraryOptionsOP : protocols::loophash
• LoopHashPerturberCOP : protocols::loop_modeler::perturbers
• LoopHashPerturberOP : protocols::loop_modeler::perturbers
• LoopHashRelaxProtocolCOP : protocols::loophash
• LoopHashRelaxProtocolOP : protocols::loophash
• LoopHashSamplerCOP : protocols::loophash
• LoopHashSamplerOP : protocols::loophash
• LoopInfoVec : protocols::denovo_design::task_operations
• LoopJumpFoldCstCOP : protocols::abinitio
• LoopJumpFoldCstOP : protocols::abinitio
• LoopLengthChangeCOP : protocols::protein_interface_design::movers
• LoopLengthChangeOP : protocols::protein_interface_design::movers
• LoopModelerCOP : protocols::loop_modeler
• LoopModelerOP : protocols::loop_modeler
• LoopmodelWrapperCOP : protocols::loop_build
• LoopmodelWrapperOP : protocols::loop_build
• LoopMover_Perturb_CCDCOP : protocols::loops::loop_mover::perturb
• LoopMover_Perturb_CCDOP : protocols::loops::loop_mover::perturb
• LoopMover_Perturb_KICCOP : protocols::loops::loop_mover::perturb
• LoopMover_Perturb_KICOP : protocols::loops::loop_mover::perturb
• LoopMover_Perturb_QuickCCD_MovesCOP : protocols::loops::loop_mover::perturb
• LoopMover_Perturb_QuickCCD_MovesOP : protocols::loops::loop_mover::perturb
• LoopMover_Perturb_QuickCCDCOP : protocols::loops::loop_mover::perturb
• LoopMover_Perturb_QuickCCDOP : protocols::loops::loop_mover::perturb
• LoopMover_Refine_BackrubCOP : protocols::loops::loop_mover::refine
• LoopMover_Refine_BackrubOP : protocols::loops::loop_mover::refine
• LoopMover_Refine_CCDAP : protocols::loops::loop_mover::refine
• LoopMover_Refine_CCDCAP : protocols::loops::loop_mover::refine
• LoopMover_Refine_CCDCOP : protocols::loops::loop_mover::refine
• LoopMover_Refine_CCDOP : protocols::loops::loop_mover::refine
• LoopMover_Refine_KICCOP : protocols::loops::loop_mover::refine
• LoopMover_Refine_KICOP : protocols::loops::loop_mover::refine
• LoopMover_subelement_ct_name() : protocols::loop_modeling
• LoopMoverAP : protocols::loops::loop_mover
• LoopMoverCAP : protocols::loops::loop_mover
• LoopMoverCOP : protocols::loop_modeling , protocols::loops::loop_mover
• LoopMoverCOPs : protocols::loop_modeling
• LoopMoverFromCommandLineCOP : protocols::protein_interface_design::movers
• LoopMoverFromCommandLineOP : protocols::protein_interface_design::movers
• LoopMoverGroupCOP : protocols::loop_modeling::utilities
• LoopMoverGroupOP : protocols::loop_modeling::utilities
• LoopMoverOP : protocols::loop_modeling , protocols::loops::loop_mover
• LoopMoverOPs : protocols::loop_modeling
• LoopMovers : protocols::loop_modeling
• LoopOP : core::scoring::loop_graph , protocols::fldsgn::topology , protocols::loops
• LoopPivotsCOP : protocols::kinematic_closure::pivot_pickers
• LoopPivotsOP : protocols::kinematic_closure::pivot_pickers
• LoopProtocolCOP : protocols::loop_modeling
• LoopProtocolOP : protocols::loop_modeling
• LoopRefineInnerCycleContainerCOP : protocols::loops::loop_mover::refine
• LoopRefineInnerCycleContainerOP : protocols::loops::loop_mover::refine
• LoopRefineInnerCycleCOP : protocols::loops::loop_mover::refine
• LoopRefineInnerCycleName : protocols::loops::loop_mover::refine
• LoopRefineInnerCycleOP : protocols::loops::loop_mover::refine
• LoopRelaxMoverCOP : protocols::relax::loop
• LoopRelaxMoverOP : protocols::relax::loop
• LoopRelaxThreadingMoverCOP : protocols::comparative_modeling , protocols::relax::loop
• LoopRelaxThreadingMoverOP : protocols::comparative_modeling , protocols::relax::loop
• LoopRemodelCOP : protocols::protein_interface_design::movers
• LoopRemodelOP : protocols::protein_interface_design::movers
• LoopResult : protocols::loops::loop_mover
• LoopRlxMoverCOP : protocols::antibody_legacy
• LoopRlxMoverOP : protocols::antibody_legacy
• Loops : protocols::fldsgn::topology
• loops_are_closed() : protocols::comparative_modeling
• loops_around_residues() : protocols::loops
• loops_from_alignment() : protocols::comparative_modeling
• loops_from_string() : protocols::loops
• loops_from_transitive_alignments() : protocols::comparative_modeling
• loops_set_chainbreak_weight() : protocols::loops::loop_mover
• loops_set_move_map() : protocols::loops
• LoopsCOP : protocols::loops
• LoopsDatabaseDefinerCOP : protocols::loops::loops_definers
• LoopsDatabaseDefinerCreatorCOP : protocols::loops::loops_definers
• LoopsDatabaseDefinerCreatorOP : protocols::loops::loops_definers
• LoopsDatabaseDefinerOP : protocols::loops::loops_definers
• LoopsDefinerCOP : protocols::loops::loops_definers
• LoopsDefinerCreatorCOP : protocols::loops::loops_definers
• LoopsDefinerCreatorOP : protocols::loops::loops_definers
• LoopsDefinerOP : protocols::loops::loops_definers
• LoopsExplicitDefinerCOP : protocols::loops::loops_definers
• LoopsExplicitDefinerCreatorCOP : protocols::loops::loops_definers
• LoopsExplicitDefinerCreatorOP : protocols::loops::loops_definers
• LoopsExplicitDefinerOP : protocols::loops::loops_definers
• LoopsFileDataCOP : protocols::loops
• LoopsFileDataOP : protocols::loops
• LoopsFileDefinerCOP : protocols::loops::loops_definers
• LoopsFileDefinerCreatorCOP : protocols::loops::loops_definers
• LoopsFileDefinerCreatorOP : protocols::loops::loops_definers
• LoopsFileDefinerOP : protocols::loops::loops_definers
• LoopsFileIOCOP : protocols::loops
• LoopsFileIOOP : protocols::loops
• LoopsFileLoaderCOP : protocols::loops
• LoopsFileLoaderOP : protocols::loops
• LoopsOP : protocols::loops
• LoopsStringDefinerCOP : protocols::loops::loops_definers
• LoopsStringDefinerOP : protocols::loops::loops_definers
• loopstring_to_loopregions() : protocols::mpi_refinement
• loopstring_to_loopvector() : protocols::mpi_refinement
• LOWER_TERMINUS : core::chemical
• LOWER_TERMINUS_VARIANT : core::chemical
• lower_upper_connected_across_cutpoint() : core::scoring::methods
• LOWERTERM_CAP : core::chemical
• LOWERTERM_TRUNC : core::chemical
• LOWERTERM_TRUNC_VARIANT : core::chemical
• lowest_delta_torsion_selector : protocols::generalized_kinematic_closure::selector
• lowest_energy_selector : protocols::generalized_kinematic_closure::selector
• lowest_max_packet_size : protocols::moves
• lowest_rmsd_selector : protocols::generalized_kinematic_closure::selector
• Lr : core::chemical::element
• LREnergyContainerCOP : core::scoring
• LREnergyContainerOP : core::scoring
• lsf_normal() : core::scoring::dna
• lt : protocols::simple_filters
• lt_OP_deref() : protocols::genetic_algorithm
• lt_or_eq : protocols::simple_filters
• Lu : core::chemical::element
• LU3_COORDINATION : core::chemical
• Lv : core::chemical::element
• LW_BaseDoubletOrientation : core::chemical::rna
• LW_Table : core::pose::rna
• lwrg_ED : core::chemical
• lwrg_edge_iter : core::chemical
• lwrg_out_edge_iter : core::chemical
• lwrg_out_edge_iter_pair : core::chemical
• lwrg_VD : core::chemical
• lwrg_vd_iter : core::chemical
• lwrg_vd_pair_iter : core::chemical
• lzs() : protocols::kinmatch