- p -

• pack_missing_sidechains() : core::pack
• pack_rotamers() : core::pack
• pack_rotamers_loop() : core::pack
• pack_rotamers_run() : core::pack
• pack_rotamers_setup() : core::pack
• pack_scorefxn_pose_handshake() : core::pack
• pad_dash() : core::kinematics
• pad_dash_left() : core::kinematics
• pad_dash_right() : core::kinematics
• pair_map_to_comma_strings() : core::conformation::symmetry
• parse_adduct_string() : core::chemical
• parse_atom_type_data() : core::chemical::sdf
• parse_bond_type_data() : core::chemical::sdf
• parse_enum_set() : core::chemical::gasteiger
• parse_NMR_name() : core::scoring::constraints
• parse_NMR_name_old() : core::scoring::constraints
• parse_resfile() : core::pack::task
• parse_resfile_string() : core::pack::task
• parse_resnum() : core::pose
• parse_selection_block() : core::pose
• parse_sequence() : core::pose
• partition_by_symm_jumps() : core::pose::symmetry
• partition_pose_by_jump() : core::pose
• pass_metropolis() : core::pack
• PATCH_LINKER() : core::chemical
• patch_operation_from_patch_file_line() : core::chemical
• pdbslice() : core::pose
• phi_torsion() : core::id
• phi_torsion_beta_aa() : core::id
• pick_fragments() : core::fragment::picking_old::vall
• pick_fragments_by_ss() : core::fragment::picking_old::vall
• pick_fragments_by_ss_plus_aa() : core::fragment::picking_old::vall
• pick_loopy_cutpoint() : core::kinematics
• pos_mod() : core::scoring::electron_density , core::scoring::electron_density_atomwise
• pose_from_atom_tree_diff() : core::import_pose::atom_tree_diffs
• pose_from_pdb() : core::import_pose
• pose_from_pdb_stream() : core::import_pose
• pose_from_pdbstring() : core::import_pose
• pose_from_pose() : core::io::pdb
• pose_from_saccharide_sequence() : core::pose
• pose_has_nonzero_Bs() : core::scoring::electron_density
• pose_max_nbr_radius() : core::pose
• pose_to_pack_data() : core::scoring::packstat
• poseOPs_from_pdbs() : core::import_pose
• poses_from_pdbs() : core::import_pose
• possibly_canonical() : core::chemical::rna
• possibly_canonical_strict() : core::chemical::rna
• PRE_TALARIS_2013_STANDARD_WTS() : core::scoring
• preload_motif_data() : core::scoring::motif
• preload_motif_data_pthread_wrapper() : core::scoring::motif
• prepare_scratch_residue() : core::pose::rna
• pretty_print_atomicoor() : core::chemical
• print_atom() : core::conformation
• print_atom_pair_constraints() : core::scoring::constraints
• print_chemical_shift_data() : core::scoring::rna::chemical_shift
• print_chis() : core::chemical
• print_d() : core::io::pdb
• print_i() : core::io::pdb
• print_node() : core::conformation
• print_torsion_info() : core::pose::rna
• process_residue_request() : core::conformation::symmetry
• promote_sameresidue_child_of_jump_atom() : core::conformation
• prune_1pass() : core::scoring::packstat
• prune_cavity_balls() : core::scoring::packstat
• prune_hidden_cavity_balls() : core::scoring::packstat
• psc_compare() : core::pack::dunbrack
• psi_torsion() : core::id
• psi_torsion_beta_aa() : core::id
• pss_tr() : core::io::silent
• put_line3() : core::scoring::electron_density::SplineInterp
• put_line4() : core::scoring::electron_density::SplineInterp