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- p -
P :
core::chemical::element
p_aa :
core::scoring
p_aa_pp :
core::scoring
p_aa_pp_ref :
core::scoring
p_aa_ss :
core::scoring
Pa :
core::chemical::element
PACK :
protocols::stepwise::screener
pack_stat :
core::scoring
PackingAngleEnum_start :
protocols::antibody
PackingAngleEnum_total :
protocols::antibody
pair :
core::scoring
pair_e_method :
core::scoring::methods
PARALLEL :
core::chemical::rna
PARTITION_CONTACT :
protocols::stepwise::screener
partner_downstream :
protocols::rigid
partner_upstream :
protocols::rigid
patterson_corr_energy :
core::scoring::methods
Pb :
core::chemical::element
PB_elec :
core::scoring
PB_elec_lr :
core::scoring::methods
pci_cation_pi :
core::scoring
pci_hbond :
core::scoring
pci_pi_pi :
core::scoring
pci_salt_bridge :
core::scoring
pcs :
core::scoring
pcs2 :
core::scoring
pcsTs1 :
core::scoring
pcsTs2 :
core::scoring
pcsTs3 :
core::scoring
pcsTs4 :
core::scoring
Pd :
core::chemical::element
PDB_file :
core::import_pose
PDB_FILE :
protocols::jd2::JobInputterInputSource
pddf_score :
core::scoring
PENTOSE :
core::chemical
PEPTIDE :
protocols::make_rot_lib
peptide_bond :
core::scoring
PEPTOID :
core::chemical
,
protocols::make_rot_lib
perturb_backbone_by_bins :
protocols::generalized_kinematic_closure::perturber
perturb_dihedral :
protocols::generalized_kinematic_closure::perturber
perturb_dihedral_bbg :
protocols::generalized_kinematic_closure::perturber
perturbtorsion_gaussian :
protocols::simple_moves
perturbtorsion_uniform :
protocols::simple_moves
perturbtorsion_unknown :
protocols::simple_moves
PG_like :
protocols::fldsgn::topology
PH_PO :
core::scoring::motif
PHI :
core::chemical::rings
,
core::id
,
core::scoring
PHI_ATOM :
core::chemical
phi_dihedral :
core::id
PHOSPHATE :
core::chemical
,
core::chemical::rna
PHOSPHATE_PACK :
protocols::stepwise::screener
PHOSPHONATE :
core::chemical
PHOSPHONATE_UPPER :
core::chemical
PHOSPHONATE_UPPER_VARIANT :
core::chemical
PHOSPHORYLATION :
core::chemical
PI_ATOM :
core::chemical
pik_pdb_file :
protocols::jd3
pik_silent_file :
protocols::jd3
pik_unknown :
protocols::jd3
piso_command_line :
protocols::jd3
piso_job_definition_file :
protocols::jd3
piso_unknown :
protocols::jd3
Ploop2x3 :
protocols::fldsgn::topology
Ploop3x3 :
protocols::fldsgn::topology
Pm :
core::chemical::element
PNA :
core::chemical
Po :
core::chemical::element
pocket_constraint :
core::scoring
POLAR :
core::chemical
POLAR_HYDROGEN :
core::chemical
POLYMER :
core::chemical
POSE :
protocols::jd2::JobInputterInputSource
POSE_SELECTION :
protocols::stepwise::screener
PoseCoordPickMode_ALL :
core::pose
PoseCoordPickMode_BB :
core::pose
PoseCoordPickMode_BNP :
core::pose
PoseCoordPickMode_CA :
core::pose
PoseCoordPickMode_CB :
core::pose
PoseCoordPickMode_CB_else_CA :
core::pose
PoseCoordPickMode_CBorCA :
core::pose
PoseCoordPickMode_HVY :
core::pose
PoseCoordPickMode_HVY_IF_NP :
core::pose
PoseCoordPickMode_N_C_O :
core::pose
PoseCoordPickMode_N_CA_C :
core::pose
PoseCoordPickMode_N_CA_C_CB :
core::pose
PoseCoordPickMode_NBR :
core::pose
PoseCoordPickMode_NUL :
core::pose
POSITIVE_CHARGE :
core::chemical
ppo_torbin_A :
core::conformation
ppo_torbin_a :
core::conformation
ppo_torbin_b :
core::conformation
ppo_torbin_B :
core::conformation
ppo_torbin_E :
core::conformation
ppo_torbin_e :
core::conformation
ppo_torbin_G :
core::conformation
ppo_torbin_g :
core::conformation
ppo_torbin_U :
core::conformation
ppo_torbin_X :
core::conformation
Pr :
core::chemical::element
PREFERRED_ROOT :
core::pose::full_model_info
prepend :
protocols::cyclic_peptide
PRF_BASIC :
protocols::analysis
PRF_MARKDOWN :
protocols::analysis
PRIMARY_ATOM :
core::chemical
pro_close :
core::scoring
pro_close_ref :
core::scoring
prob_native_amino_acid :
protocols::optimize_weights
prob_native_amino_acid_with_unfolded_energy :
protocols::optimize_weights
prob_native_ligand_pose :
protocols::optimize_weights
prob_native_rotamer :
protocols::optimize_weights
prob_native_structure :
protocols::optimize_weights
probability :
protocols::simple_moves::bb_sampler
PRODUCT :
protocols::simple_filters
ProQ :
core::scoring
ProQM :
core::scoring
PROTEIN :
core::chemical
PROTEIN_ATR_REP :
protocols::stepwise::screener
PROTEIN_BETA_ANTIPARALLEL :
protocols::stepwise::sampler
PROTEIN_CCD_CLOSURE :
protocols::stepwise::screener
PROTEIN_FRAGMENT :
protocols::stepwise::sampler
PROTEIN_MAIN_CHAIN :
protocols::stepwise::sampler
protein_torsion_end :
core::scoring
proto_h4 :
protocols::antibody
proto_l4 :
protocols::antibody
PROTONATED :
core::chemical
PROTONATED_H1_ADENOSINE :
core::chemical
PseudoBondOrder :
core::chemical
PSF_NEED_FULL_POSE_SET :
protocols::rosetta_scripts
PSF_NONE :
protocols::rosetta_scripts
PSI :
core::scoring
PSI_ATOM :
core::chemical
psi_dihedral :
core::id
pssm_data :
protocols::optimize_weights
Pt :
core::chemical::element
pt_gaussian :
protocols::helical_bundle
pt_undefined_perturbation :
protocols::helical_bundle
pt_uniform :
protocols::helical_bundle
Pu :
core::chemical::element
PYRANOSE :
core::chemical
python :
core::scoring
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