- r -

R1_PARA : core::scoring::nmr
R2_PARA : core::scoring::nmr
R3PRIMEHYDROXYBUTYRYLAMINO_SUGAR : core::chemical
R_PEPTOID : core::chemical
Ra : core::chemical::element
RAINBOW_COLOR : protocols::viewer::graphics_states_param
RAINBOW_CPK_COLOR : protocols::viewer::graphics_states_param
rama : core::scoring
rama2b : core::scoring
rama2b_lr : core::scoring::methods
rama_prepro : core::scoring
rama_prepro_check : protocols::generalized_kinematic_closure::filter
rama_ref : core::scoring
ramachandran_method : core::scoring::methods
ramaprepro_lr : core::scoring::methods
RANDOM : core::conformation::symmetry
random : protocols::rigid
random_chunk : protocols::hybridization
random_selector : protocols::generalized_kinematic_closure::selector
RANDOM_SIDE : protocols::forge::build::SegmentInsertConnectionScheme
randomize : protocols::generalized_kinematic_closure::perturber
randomize_alpha_backbone_by_rama : protocols::generalized_kinematic_closure::perturber
randomize_backbone_by_bins : protocols::generalized_kinematic_closure::perturber
randomize_backbone_by_rama_prepro : protocols::generalized_kinematic_closure::perturber
randomize_dihedral : protocols::generalized_kinematic_closure::perturber
Rb : core::chemical::element
RB1 : core::id
RB2 : core::id
RB3 : core::id
RB4 : core::id
RB5 : core::id
RB6 : core::id
RB_DEFAULT : protocols::rbsegment_relax
RB_HELIX : protocols::rbsegment_relax
RB_SHEET : protocols::rbsegment_relax
rcl1 : core::scoring::rna::chemical_shift
rcl2 : core::scoring::rna::chemical_shift
rcl3 : core::scoring::rna::chemical_shift
rdc : core::scoring
rdc_rohl : core::scoring
rdc_segments : core::scoring
RDC_TYPE_CACB : core::scoring::nmr
RDC_TYPE_CACO : core::scoring::nmr
RDC_TYPE_CAHA : core::scoring::nmr
RDC_TYPE_CAHN : core::scoring::nmr
RDC_TYPE_COHN : core::scoring::nmr
RDC_TYPE_NCA : core::scoring::nmr
RDC_TYPE_NCO : core::scoring::nmr
RDC_TYPE_NH : core::scoring::nmr
Re : core::chemical::element
READY : protocols::forge::build::BuildInstructionState
reduce : core::scoring::sasa
ref : core::scoring
ref_nc : core::scoring
reference_e_method : core::scoring::methods
reject : protocols::hotspot_hashing
REJECTED : protocols::monte_carlo
RELAX : protocols::abinitio
relax : protocols::antibody::design
REMARK : core::io::pdb
REMOVE : protocols::enzdes
repack : protocols::antibody::design
REPL_PHOSPHATE : core::chemical
REPLONLY : core::chemical
REPLS_BB : core::chemical
REPULSIVE : core::chemical
REQUEST_SYMMETRIZE_BY_INTERSECTION : core::pack::task
REQUEST_SYMMETRIZE_BY_UNION : core::pack::task
res_type_constraint : core::scoring
res_type_linking_constraint : core::scoring
RESAMPLE : protocols::stepwise::monte_carlo::mover
RESAMPLE_INTERNAL_LOCAL : protocols::stepwise::monte_carlo::mover
RESIDUE_ALTERNATIVE : protocols::toolbox
RESIDUE_ALTERNATIVE_COMB : protocols::toolbox
RESIDUE_APPLIER : protocols::stepwise::screener
RESIDUE_COLOR : protocols::viewer::graphics_states_param
RESIDUE_CONTACT : protocols::stepwise::screener
RESIDUE_CPK_COLOR : protocols::viewer::graphics_states_param
RESIDUE_LIST : protocols::toolbox
resource_deallocation_msg : protocols::jd3::deallocation
RESOURCE_MANAGED_JOB : protocols::jd2::JobInputterInputSource
resSeq : protocols::loops
REVDAT : core::io::pdb
Rf : core::chemical::element
RFd_like : protocols::fldsgn::topology
Rg : core::chemical::element
rg : core::scoring
rg_local : core::scoring
Rh : core::chemical::element
RHIJU_COLOR : protocols::viewer::graphics_states_param
RIGID_BODY : protocols::toolbox
RIGID_BODY_WITH_RESIDUE_ALTERNATIVES : protocols::toolbox
RIGID_BODY_WITH_RESIDUE_LIST : protocols::toolbox
ring_close : core::scoring
RING_CONFORMERS : protocols::toolbox
RING_HYBRID : core::chemical
RM_BB : core::scoring::motif
RM_PH : core::scoring::motif
RM_PO : core::scoring::motif
RM_SC : core::scoring::motif
RM_Type_NONE : core::scoring::motif
rmANGLE : core::scoring
rmATOM : core::scoring
rmBOND : core::scoring
rmIMPROPER : core::scoring
rmNONE : core::scoring
rms : core::scoring
rmsd_all : core::scoring
rmsd_all_heavy : core::scoring
rmsd_atom_total : core::scoring
rmsd_protein_bb_ca : core::scoring
rmsd_protein_bb_heavy : core::scoring
rmsd_protein_bb_heavy_including_O : core::scoring
rmsd_sc : core::scoring
rmsd_sc_heavy : core::scoring
rmTORSION : core::scoring
Rn : core::chemical::element
RNA : core::chemical
RNA_ANTI_CHI : core::pose::full_model_info
rna_backbone_backbone : core::scoring
rna_base_axis : core::scoring
rna_base_axis_pairwise : core::scoring
rna_base_backbone : core::scoring
rna_base_pair : core::scoring
rna_base_pair_pairwise : core::scoring
rna_base_stack : core::scoring
rna_base_stack_axis : core::scoring
rna_base_stack_axis_pairwise : core::scoring
rna_base_stack_pairwise : core::scoring
rna_base_stagger : core::scoring
rna_base_stagger_pairwise : core::scoring
RNA_BLOCK_STACK_ABOVE : core::pose::full_model_info
RNA_BLOCK_STACK_BELOW : core::pose::full_model_info
rna_bond_geometry : core::scoring
RNA_BULGE : core::pose::full_model_info
rna_bulge : core::scoring
RNA_CHAIN_CLOSABLE_GEOMETRY : protocols::stepwise::screener
RNA_CHAIN_CLOSABLE_GEOMETRY_RESIDUE_BASED : protocols::stepwise::screener
RNA_CHAIN_CLOSABLE_GEOMETRY_STUB_BASED : protocols::stepwise::screener
RNA_CHAIN_CLOSURE : protocols::stepwise::screener
rna_chem_map : core::scoring
rna_chem_map_lores : core::scoring
rna_chem_shift : core::scoring
RNA_CHI : protocols::toolbox
rna_data_backbone : core::scoring
rna_data_base : core::scoring
RNA_ELEC_NBLIST : core::scoring::EnergiesCacheableDataType
rna_elec_pair_nblist : core::scoring
rna_fa_atr_base : core::scoring
rna_fa_rep_base : core::scoring
rna_jr_suite : core::scoring
RNA_KIC : protocols::toolbox
RNA_KINEMATIC_CLOSER : protocols::toolbox
rna_mg_point : core::scoring
rna_mg_point_indirect : core::scoring
rna_motif : core::scoring
RNA_NORTH_SUGAR : core::pose::full_model_info
RNA_NUCLEOSIDE : protocols::toolbox
rna_partition : core::scoring
rna_repulsive : core::scoring
rna_rg : core::scoring
RNA_SAMPLE_SUGAR : core::pose::full_model_info
RNA_SOUTH_SUGAR : core::pose::full_model_info
rna_stub_coord_hack : core::scoring
rna_stub_coord_lr : core::scoring::methods
RNA_SUGAR : protocols::toolbox
rna_sugar_close : core::scoring
rna_suite : core::scoring
RNA_SUITE : protocols::toolbox
rna_suite_lr : core::scoring::methods
RNA_SYN_CHI : core::pose::full_model_info
RNA_TERMINAL : core::pose::full_model_info
rna_torsion : core::scoring
rna_torsion_sc : core::scoring
rna_vdw : core::scoring
RNAseH : protocols::fldsgn::topology
rnp_aa_to_rna_backbone : core::scoring
rnp_base_pair : core::scoring
rnp_env : core::scoring
rnp_pair : core::scoring
rnp_pair_dist : core::scoring
rnp_stack : core::scoring
rnp_stack_xy : core::scoring
rnp_vdw : core::scoring
ROSETTA : protocols::cluster::calibur
RosI : protocols::fldsgn::topology
RosO : protocols::fldsgn::topology
rot1 : protocols::jumping
rot2 : protocols::jumping
rotameric_chi_mimic_EX_flags : protocols::match::upstream
rotameric_chi_partition_sd_range : protocols::match::upstream
rotameric_chi_step_by_value : protocols::match::upstream
rotameric_chi_step_wi_sd_range : protocols::match::upstream
RPM_Type_NONE : core::scoring::motif
RPT_end_of_list : core::conformation::parametric
RPT_gaussian : core::conformation::parametric
RPT_uniform : core::conformation::parametric
RPT_unknown_type : core::conformation::parametric
rsigma : core::scoring
Rsmn2x2 : protocols::fldsgn::topology
Rsmn3x3 : protocols::fldsgn::topology
Rsmn3x3_Half : protocols::fldsgn::topology
Ru : core::chemical::element