- p -

• packmin_unbound_pep() : pepspec.cc
• PATH() : test_carbohydrate_scoring.cc , test_CarbohydrateInfo.cc
• pdb_id() : per_residue_energies.cc , residue_energy_breakdown.cc
• pdb_to_silent_file() : swa_rna_util.cc
• pep_anchor() : pepspec.cc
• pep_begin() : pepspec.cc
• pep_chain() : pepspec.cc
• pep_end() : pepspec.cc
• pep_jump() : pepspec.cc
• pep_phipsi_analysis() : pepspec.cc
• pep_rmsd_analysis() : pepspec.cc , pepspec_anchor_dock.cc
• perturb_pep_bb() : pepspec.cc
• poses_from_cmd_line() : fix_alignment_to_match_pdb.cc , partial_thread.cc , score_aln.cc , score_aln2.cc
• post_rebuild_bulge_assembly() : swa_rna_main.cc
• powi() : Svm.cc
• predict_chem_map_test() : rna_predict_chem_map.cc
• predict_disorder() : ResidueDisorder.cc
• Prepare() : grower_prep.cc
• prepare_threaded_model() : rna_thread.cc
• print_backtrace() : backtrace.hh
• print_ddgs() : ddg_monomer.cc
• print_motifs() : make_motif_tables.cc
• print_pdb_info() : interface_energy.cc
• print_pep_analysis() : pepspec.cc
• print_pep_csts() : pepspec_anchor_dock.cc
• print_scores() : make_motif_tables.cc
• print_seq_map() : score_aln2.cc , score_aln.cc
• print_string_stdout() : Svm.cc
• process_for_motifs() : extract_motifs.cc
• processRegions() : contactMap.cc
• prot_anchor() : pepspec.cc
• prot_begin() : pepspec.cc
• prot_chain() : pepspec.cc
• prot_end() : pepspec.cc