Here is a list of all namespace members with links to the namespace documentation for each member:

- b -

• b : basic::options::OptionKeys::score::fiber_diffraction , score::fiber_diffraction , test::T850_SubClassing
• b_factor : basic::options::OptionKeys::score::fiber_diffraction , score::fiber_diffraction
• b_factor_solv : basic::options::OptionKeys::score::fiber_diffraction , score::fiber_diffraction
• b_factor_solv_K : basic::options::OptionKeys::score::fiber_diffraction , score::fiber_diffraction
• backbone_angle_max : demo::D070_Refinement
• backbone_mover : basic::options::OptionKeys::coupled_moves , coupled_moves
• backbone_only1 : basic::options::OptionKeys::stepwise , stepwise
• backbone_only2 : basic::options::OptionKeys::stepwise , stepwise
• background_weight : basic::options::OptionKeys::mh::score , mh::score
• backrub() : backrub , basic::options::OptionKeys::backrub , basic::options::OptionKeys::canonical_sampling::probabilities , canonical_sampling::probabilities
• BACKRUB_MOVER : basic
• backrub_peptide : basic::options::OptionKeys::flexPepDocking , flexPepDocking
• backrub_trials : basic::options::OptionKeys::loops , loops
• bad_calls : basic
• BAD_INPUT_TAG : basic::mpi
• bad_nter() : antibody , basic::options::OptionKeys::antibody
• base64_chars : utility::io
• base64_decode() : utility::io
• base64_encode() : utility::io
• base_cdr_instructions() : antibody::design , basic::options::OptionKeys::antibody::design
• base_contacts_only : basic::options::OptionKeys::dna::design , dna::design
• base_default_default_constructor_available() : binder
• base_dir : rna_rosetta_ready_set
• base_namespace() : binder
• base_native_bonus : basic::options::OptionKeys::legacy_sewing , legacy_sewing
• base_pair : basic::options::OptionKeys::recces::base_pair , recces::base_pair
• BaseCOP : utility::py
• basename : basic::options::OptionKeys::ProQ , ProQ
• BaseOP : utility::py
• basic_array_to_structured() : pyrosetta::utility::array
• BasicDataCacheAP : basic::datacache
• BasicDataCacheCAP : basic::datacache
• BasicDataCacheCOP : basic::datacache
• BasicDataCacheOP : basic::datacache
• batch_relax : basic::options::OptionKeys::batch_relax , batch_relax
• batch_size : basic::options::OptionKeys::batch_relax , basic::options::OptionKeys::hotspot , batch_relax , hotspot
• batches : basic::options::OptionKeys::run , run
• bb_average_weight : basic::options::OptionKeys::mean_field , mean_field
• bb_boltz_probs : basic::options::OptionKeys::mean_field , mean_field
• bb_bump_cutoff : basic::options::OptionKeys::enzdes , enzdes
• bb_list : basic::options::OptionKeys::mean_field , mean_field
• bb_min : basic::options::OptionKeys::enzdes , enzdes
• bb_min_allowed_dev : basic::options::OptionKeys::enzdes , enzdes
• bb_min_res : basic::options::OptionKeys::docking , docking
• bb_move : basic::options::OptionKeys::relax , relax
• bb_moves : basic::options::OptionKeys::jumps , jumps
• bb_stats : basic::options::OptionKeys::orbitals , orbitals
• bb_stdev : basic::options::OptionKeys::recces::thermal_sampling , recces::thermal_sampling
• bbdep_bond_devs : basic::options::OptionKeys::corrections::score , corrections::score
• bbdep_bond_params : basic::options::OptionKeys::corrections::score , corrections::score
• bbdep_omega : basic::options::OptionKeys::corrections::score , corrections::score
• bbg : basic::options::OptionKeys::bbg , bbg
• bbnbrs : basic::options::OptionKeys::ddg , ddg
• begin() : ObjexxFCL
• begins_with() : binder
• benchmark : basic::options::OptionKeys::hotspot , basic::options::OptionKeys::mp::benchmark , basic::options::OptionKeys::run , hotspot , mp::benchmark , run
• beta : basic::options::OptionKeys::corrections , corrections
• beta_cart : basic::options::OptionKeys::corrections , corrections
• beta_cdr1_template_id : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_cdr1_template_pdb : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_cdr2_template_id : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_cdr2_template_pdb : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_cdr3_template_id : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_cdr3_template_pdb : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_framework_template_id : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_framework_template_pdb : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_germline_template_id : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_germline_template_pdb : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_july15 : basic::options::OptionKeys::corrections , corrections
• beta_july15_cart : basic::options::OptionKeys::corrections , corrections
• beta_nov16 : basic::options::OptionKeys::corrections , corrections
• beta_nov16_cart : basic::options::OptionKeys::corrections , corrections
• beta_orientation_template_id : basic::options::OptionKeys::tcrmodel , tcrmodel
• beta_orientation_template_pdb : basic::options::OptionKeys::tcrmodel , tcrmodel
• bgBlack : utility::CSI
• bgBlue : utility::CSI
• bgCyan : utility::CSI
• bgDefault : utility::CSI
• bGDT() : abinitio , basic::options::OptionKeys::abinitio
• bgGreen : utility::CSI
• bgMagenta : utility::CSI
• bgRed : utility::CSI
• bgWhite : utility::CSI
• bgYellow : utility::CSI
• bias_design_search_to_native : basic::options::OptionKeys::hydrate , hydrate
• bias_sampling : basic::options::OptionKeys::coupled_moves , coupled_moves
• biased_dist_all_gen : basic::options::OptionKeys::mean_field , mean_field
• BicubicSplineCOP : numeric::interpolation::spline
• BicubicSplineOP : numeric::interpolation::spline
• big_frag_insertion_weight : basic::options::OptionKeys::cm::hybridize , cm::hybridize
• bilinearly_interpolated() : numeric::interpolation , numeric::interpolation::periodic_range::full , numeric::interpolation::periodic_range::half
• bin : basic::options::OptionKeys::lh::fragpdb , fmt , lh::fragpdb , numeric::interpolation::periodic_range::full , numeric::interpolation::periodic_range::half
• Bin3D : numeric::geometry::hashing
• Bin6D : numeric::geometry::hashing
• binary_chk : basic::options::OptionKeys::in::file , in::file
• binary_output : basic::options::OptionKeys::rna::denovo::out , rna::denovo::out
• binary_search_cdf() : numeric::random
• binary_search_ranges() : utility
• BinaryExpressionCOP : numeric::expression_parser
• BinaryExpressionOP : numeric::expression_parser
• bind_classmethod() : pyrosetta::bindings::utility
• bind_constructor() : binder
• bind_copy_constructor() : binder
• bind_data_member() : binder
• bind_default_constructor() : binder
• bind_enum() : binder
• bind_forward_declaration() : binder
• bind_function() : binder
• bind_member_functions_for_call_back() : binder
• bind_method() : pyrosetta::bindings::utility
• bind_property() : pyrosetta::bindings::utility
• bind_rmsd_calc() : numeric::alignment
• binder_executable : make_bindings_via_cmake
• binder_source : make_bindings_via_cmake
• BinderOP : binder
• Binders : binder
• binding : basic::options::OptionKeys::dna::design , dna::design
• binding_public_data_members() : binder
• binding_public_member_functions() : binder
• binding_score : basic::options::OptionKeys::pepspec , pepspec
• binding_template_bases() : binder
• bindings_dir : make_bindings_via_cmake
• biounit : basic::options::OptionKeys::mh::path , mh::path
• biounit_ideal : basic::options::OptionKeys::mh::path , mh::path
• bit_and() : ObjexxFCL::bit
• bit_clr() : ObjexxFCL::bit
• bit_not() : ObjexxFCL::bit
• bit_or() : ObjexxFCL::bit
• bit_set() : ObjexxFCL::bit
• bit_test() : ObjexxFCL::bit
• bit_xor() : ObjexxFCL::bit
• bite() : ObjexxFCL::format
• BLACK : fmt
• Black : utility::CSI
• blank() : ObjexxFCL
• BlankMatrixMult() : numeric::model_quality
• blastp() : antibody , basic::options::OptionKeys::antibody
• blastp_identity_cutoff : basic::options::OptionKeys::tcrmodel , tcrmodel
• blivens : basic::options::OptionKeys::blivens , blivens
• block : basic::options::OptionKeys::cloud , cloud
• block_allocation_error_message() : utility::graph
• block_stack : basic::options::OptionKeys::recces::base_pair , recces::base_pair
• block_stack_above_res : basic::options::OptionKeys::full_model::rna , full_model::rna
• block_stack_below_res : basic::options::OptionKeys::full_model::rna , full_model::rna
• blosc : pyrosetta::distributed::utility::pickle
• BLUE : fmt
• Blue : utility::CSI
• blueprint : basic::options::OptionKeys::flxbb , basic::options::OptionKeys::remodel , flxbb , remodel
• BodyPosition_double : numeric
• BodyPosition_float : numeric
• BodyPosition_longdouble : numeric
• boinc : basic::options::OptionKeys::boinc , boinc
• boinc_wu_zip : basic::options::OptionKeys::in::file , in::file
• Bold : utility::CSI
• Boltz_temp : basic::options::OptionKeys::dna::design , basic::options::OptionKeys::ms , dna::design , ms
• boltzmann_accept_probability() : numeric
• boltzmann_choice_post_enumerated_minimize : basic::options::OptionKeys::stepwise , stepwise
• boltzmann_kt : basic::options::OptionKeys::coupled_moves , basic::options::OptionKeys::nmr::spinlabel , coupled_moves , nmr::spinlabel
• bond1 : erraser_analysis
• bond2 : erraser_analysis
• bond_angle_sd_polar_hydrogen : basic::options::OptionKeys::stepwise::polar_hydrogens , stepwise::polar_hydrogens
• bond_torsion_sd_polar_hydrogen : basic::options::OptionKeys::stepwise::polar_hydrogens , stepwise::polar_hydrogens
• bondangle() : numeric::kinematic_closure , numeric::kinematic_closure::radians
• bonded_params : basic::options::OptionKeys::score , score
• bonded_params_dir : basic::options::OptionKeys::score , score
• bool_type : utility::json_spirit
• BOOLEAN_OPTION : utility::options
• BOOLEAN_VECTOR_OPTION : utility::options
• BooleanOption : basic::options
• BooleanOptionKey : basic::options
• BooleanVectorOption : basic::options
• BooleanVectorOptionKey : basic::options
• boost_closure_cycles : basic::options::OptionKeys::remodel::RemodelLoopMover , remodel::RemodelLoopMover
• boost_fa_atr : basic::options::OptionKeys::flexPepDocking , flexPepDocking
• BorderFlag : numeric::interpolation::spline
• bot : basic::options::OptionKeys::loodo , loodo
• boundary_cutoff : basic::options::OptionKeys::remodel , remodel
• boundaryAA : basic::options::OptionKeys::remodel , remodel
• bounded_protocol : basic::options::OptionKeys::frags , frags
• box_length : basic::options::OptionKeys::legacy_sewing , basic::options::OptionKeys::sewing , legacy_sewing , sewing
• BPData : basic::options::OptionKeys::motifs , motifs
• bps_database : basic::options::OptionKeys::rna::denovo::db , rna::denovo::db
• bps_moves : basic::options::OptionKeys::rna::denovo , rna::denovo
• breadth_first_search_prune() : utility::graph
• breadth_first_visit_prune() : utility::graph
• bridge_objects() : numeric::kinematic_closure::radians
• bridge_res : basic::options::OptionKeys::stepwise::protein , stepwise::protein
• bridgeObjects() : numeric::kinematic_closure
• bridgeObjects_nonredundant() : numeric::kinematic_closure
• broker : basic::options::OptionKeys::broker , broker
• Bsol : basic::options::OptionKeys::patterson , patterson
• bss : basic::options::OptionKeys::lh , lh
• buffer_flush_frequency : basic::options::OptionKeys::jd2 , jd2
• buffer_silent_output : basic::options::OptionKeys::jd2 , jd2
• build_all_loops : basic::options::OptionKeys::loops , loops
• build_attempts : basic::options::OptionKeys::loops , loops
• build_disulf : basic::options::OptionKeys::remodel , remodel
• build_dixon_matrices() : numeric::kinematic_closure
• build_generated_bindings() : build
• build_initial : basic::options::OptionKeys::loops , loops
• build_residue_file : basic::options::OptionKeys::motifs , motifs
• build_round1_hits_twice : basic::options::OptionKeys::match , match
• build_sin_and_cos() : numeric::kinematic_closure
• build_specific_loops : basic::options::OptionKeys::loops , loops
• buildsturm() : numeric::kinematic_closure
• built_in_rdc : basic::options::OptionKeys::evaluation , evaluation
• bulge_res : basic::options::OptionKeys::full_model::rna , full_model::rna
• bump_check : basic::options::OptionKeys::coupled_moves , coupled_moves
• bump_tolerance : basic::options::OptionKeys::match , match
• bunsat_calc2 : basic::options::OptionKeys::bunsat_calc2 , bunsat_calc2
• burial : basic::options::OptionKeys::in::file , in::file
• buried_unsatisfied_penalty_burial_threshold : basic::options::OptionKeys::score , score
• buried_unsatisfied_penalty_cone_angle_exponent : basic::options::OptionKeys::score , score
• buried_unsatisfied_penalty_cone_angle_shift_factor : basic::options::OptionKeys::score , score
• buried_unsatisfied_penalty_cone_dist_exponent : basic::options::OptionKeys::score , score
• buried_unsatisfied_penalty_cone_dist_midpoint : basic::options::OptionKeys::score , score
• buried_unsatisfied_penalty_hbond_energy_threshold : basic::options::OptionKeys::score , score
• bypass_closure : basic::options::OptionKeys::remodel::RemodelLoopMover , remodel::RemodelLoopMover
• bypass_fragments : basic::options::OptionKeys::remodel , remodel