- d -

• d2r() : core::scoring::electron_density , core::scoring::electron_density_atomwise
• debug_dump_rotamers() : core::pack::rotamer_set
• default_jump_atom() : core::chemical::rna
• default_stub() : core::kinematics
• define_mainchain_atoms() : core::chemical
• delete_all_intragroup_edges() : core::graph
• delete_comment() : core::pose
• dellinte_dm() : core::scoring::rna::chemical_shift
• dellintk_dm() : core::scoring::rna::chemical_shift
• delta_magnetic_anisotropy() : core::scoring::rna::chemical_shift
• delta_ring_current() : core::scoring::rna::chemical_shift
• delta_ring_current_term() : core::scoring::rna::chemical_shift
• determine_crossover_behavior() : core::scoring::methods
• dexponential() : core::scoring::constraints
• dgaussian() : core::scoring::constraints
• dihedral_bin() : core::scoring::dna
• dimer_pairing_pointer_sorter() : core::scoring
• distance() : core::kinematics , core::kinematics::tree
• distance_squared() : core::kinematics::tree
• disulfide_bonds() : core::conformation
• dna_deriv_atom() : core::scoring::methods
• DNA_INT_WTS() : core::scoring
• DNA_INT_WTS_GB() : core::scoring
• do_not_edit_warning() : update_ResidueType_enum_files
• DOCK_LOW_PATCH() : core::scoring
• DOCK_PATCH() : core::scoring
• DOF_Node_sorter() : core::optimization , core::optimization::symmetry
• DOF_type_is_rb() : core::id
• Doxygen_info() : update_ResidueType_enum_files
• drop_constraints() : core::scoring::constraints
• dround() : core::scoring::rna::chemical_shift
• DUMMY_HBGEODIMTYPE() : core::scoring::hbonds
• dummy_nodeop() : core::pack::scmin
• dump_atom_tree_diff() : core::import_pose::atom_tree_diffs
• dump_bfactor_pdb() : core::io::pdb
• dump_comment_pdb() : core::pose
• dump_connect_info() : core::io::pdb
• dump_frames_as_pdb() : core::fragment
• dump_graph() : core::chemical::sdf
• dump_gws() : core::io::carbohydrates
• dump_gws_chain() : core::io::carbohydrates
• dump_library() : core::pack::dunbrack
• dump_pdb() : core::io::pdb
• dump_pdb_residue() : core::io::pdb
• dump_reference_pose() : core::import_pose::atom_tree_diffs
• dump_score_line() : core::import_pose::atom_tree_diffs
• dup_residue() : core::pack::dunbrack , core::pack::rotamer_set