- l -

• L() : core::scoring::func
• label_atom_name() : protocols::noesy_assign
• largest_continuous_atom_map() : protocols::legacy_sewing
• last_protein_residue() : protocols::constraint_generator
• layer_design_ss_layer_group() : protocols::flxbb
• layer_design_ss_layer_naming_func() : protocols::flxbb
• layer_design_ss_layer_or_taskop_group() : protocols::flxbb
• legacy_saved_pose_or_input() : protocols::rosetta_scripts
• legolas_what_do_your_elf_eyes_see() : protocols::protein_interface_design::movers
• LENGTH_TLC() : protocols::unfolded_state_energy_calculator
• let_rigid_body_jumps_move() : protocols::rna::denovo
• lib_full_path() : protocols::canonical_sampling::mc_convergence_checks
• ligand_area_tracer() : protocols::ligand_docking
• ligand_design_tracer() : protocols::ligand_docking
• limit_chunk_size() : protocols::nonlocal
• limit_rotamer_set() : protocols::multistate_design
• linear_chainbreak() : protocols::denovo_design , protocols::forge::methods
• linear_interpolate() : core::scoring::constraints
• linear_regression() : protocols::monte_carlo
• linearize_fold_tree() : core::kinematics
• link_in_vector() : core::io
• link_vertex_to_generators() : core::scoring::power_diagram
• linker_count2score() : protocols::sic_dock
• linkres_subelement_ctname() : protocols::task_operations
• linkres_subelement_group() : protocols::task_operations
• 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
• 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::scoring::saxs
• load_form_factors() : core::scoring::saxs
• 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_unboundrot() : core::pack::dunbrack
• locate_rosetta_database() : core::init
• logdgaussian() : core::scoring::constraints
• logdgaussian_deriv() : core::scoring::constraints
• logic_map() : core::select::residue_selector
• 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
• 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
• LoopAnalyzerMover_subelement_ct_name() : protocols::analysis
• LoopBuild_main() : protocols::loop_build
• loopfinder() : protocols::loops
• loophash_main() : protocols::loophash
• LoopMover_subelement_ct_name() : protocols::loop_modeling
• 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
• loopstring_to_loopregions() : protocols::mpi_refinement
• loopstring_to_loopvector() : protocols::mpi_refinement
• lower_upper_connected_across_cutpoint() : core::scoring::methods
• lsf_normal() : core::scoring::dna
• lt_OP_deref() : protocols::genetic_algorithm
• lzs() : protocols::kinmatch