- m -

• m_inv_gen() : core::scoring
• magnetic_anisotropy_effect() : core::scoring::rna::chemical_shift
• main_atom_tree_diff_mover() : protocols::jobdist
• main_plain_mover() : protocols::jobdist
• main_plain_pdb_mover() : protocols::jobdist
• main_watchdog() : protocols::boinc::watchdog
• MainChainTorsionSet() : protocols::swa , protocols::swa::protein , protocols::swa
• make_asymmetric_pose() : core::pose::symmetry
• make_atr_rep_grid() : protocols::ligand_docking
• make_atr_rep_grid_without_ligand() : protocols::ligand_docking
• make_atr_rep_grid_without_ligands() : protocols::ligand_docking
• make_base_pair_aware_fold_tree() : protocols::dna
• make_base_pair_mutation() : protocols::motifs
• make_coarse_pose() : protocols::rna
• make_continuous_true_regions_in_bool_vector() : protocols::enzdes::enzutil
• make_cut_at_moving_suite() : protocols::swa::rna , protocols::swa
• make_dna_mutations() : protocols::motifs
• make_dna_rigid() : protocols::relax
• make_extended_coarse_pose() : protocols::rna
• make_hbBasetoAcc_unitvector() : core::scoring::hbonds
• make_hotspot_foldtree() : protocols::protein_interface_design
• make_new_symmetric_PackerTask_by_intersection() : core::pack
• make_new_symmetric_PackerTask_by_requested_method() : core::pack
• make_new_symmetric_PackerTask_by_truncation() : core::pack
• make_new_symmetric_PackerTask_by_union() : core::pack
• make_phosphate_nomenclature_matches_mini() : protocols::rna
• make_pose_from_frags() : core::fragment
• make_pose_from_saccharide_sequence() : core::pose
• make_pose_from_sequence() : core::pose
• make_pose_from_sequence_() : core::fragment
• make_residue_mask_symmetric() : core::pose::symmetry
• make_selection() : protocols::nonlocal
• make_sequence_combinations() : protocols::dna
• make_simple_fold_tree_from_jump_frame() : core::fragment
• make_single_mutants() : protocols::dna
• make_star_foldtree() : protocols::forge::methods
• make_stub_scorefxn() : protocols::protein_interface_design::movers
• make_subdirs() : protocols::dna
• make_symmetric_fibril() : protocols::fibril
• make_symmetric_movemap() : core::pose::symmetry
• make_symmetric_PackerTask_by_truncation() : core::pack
• make_symmetric_pdb_info() : core::pose::symmetry
• make_symmetric_pose() : core::pose::symmetry
• map_of_weighted_scores() : core::import_pose::atom_tree_diffs
• map_seq1_seq2() : core::sequence
• map_to_comma_strings() : core::conformation::symmetry
• mapping_to_alignment() : core::sequence
• masks() : core::scoring , core::scoring::packstat::old
• max_allowed_rot_mag() : protocols::rigid
• max_interchain_sites() : protocols::scoring
• max_rad() : core::scoring::packstat
• Medal_main() : protocols::medal
• MedalExchange_main() : protocols::medal
• MEMB_HIGHRES_WTS() : core::scoring
• Membrane_FAEmbed_from_pose() : core::scoring
• MembraneEmbed_from_pose() : core::scoring
• MembraneTopology_from_pose() : core::scoring
• merge() : protocols::forge::methods
• merge_frags() : core::fragment
• merge_vectors() : protocols::swa
• METHYLATED_CTERMINUS() : core::chemical
• METHYLATION() : core::chemical
• min_index() : protocols::ddg
• min_mod() : core::scoring::electron_density
• min_pack() : core::pack
• min_rotamers() : protocols::MakeRotLib
• minimize_all_sampled_floating_bases() : protocols::swa::rna
• minimize_alt_rotamer() : core::pack
• minimize_backbone_tracer() : protocols::ligand_docking
• minimize_with_constraints() : protocols::swa::rna
• MinimizeLigand_tracer() : protocols::ligand_docking
• minimizer_sort_criteria() : protocols::swa::rna
• minirosetta_svn_url() : core
• minirosetta_svn_version() : core
• MKDIR() : protocols::sparta
• mm_bond_angle_residue_type_param_set() : core::scoring::mm
• MM_STD_WTS() : core::scoring
• modify_atom_properties_from_command_line() : core::chemical
• modify_ResId_based_object() : protocols::moves
• molar_mass() : core::pose
• MolDataTracer() : core::chemical::sdf
• molecular_mass() : core::pose
• molecular_mass_tracer() : protocols::ligand_docking
• MolParserTracer() : core::chemical::sdf
• move_jump_atom_to_base() : protocols::swa::rna
• move_ligand_to_desired_centroid() : protocols::ligand_docking
• MoveMapBuilder_tracer() : protocols::ligand_docking
• MPI_BLOCK_FILE() : protocols::jd2
• MPI_CLOSE_FILE() : protocols::jd2
• MPI_JOB_DIST_TAG() : protocols::jd2
• mpi_npes() : protocols::wum
• mpi_rank() : protocols::wum
• MPI_RELEASE_FILE() : protocols::jd2
• MPI_WIND_DOWN() : protocols::jd2
• ms_tr() : protocols::motifs
• mstype_from_name() : protocols::moves
• mt() : protocols::motifs
• mu_tr() : protocols::motifs
• multstubs() : protocols::sic_dock
• mutate_loops_for_search() : protocols::motifs
• mv_tr() : protocols::enzdes
• mvmul() : core::scoring
• my_RG() : protocols::ligand_docking