- b -

backbone_only1 : basic::options::OptionKeys::stepwise
backbone_only2 : basic::options::OptionKeys::stepwise
backrub : basic::options::OptionKeys::backrub , basic::options::OptionKeys::canonical_sampling::probabilities , basic::options::OptionKeys::remodel
backrub_peptide : basic::options::OptionKeys::flexPepDocking
backrub_trials : basic::options::OptionKeys::loops
bad_calls : basic
bad_nter : basic::options::OptionKeys::antibody
base_contacts_only : basic::options::OptionKeys::dna::design
basename : basic::options::OptionKeys::ProQ
batch_relax : basic::options::OptionKeys::batch_relax
batch_size : basic::options::OptionKeys::batch_relax
batches : basic::options::OptionKeys::run
bb_bump_cutoff : basic::options::OptionKeys::enzdes
bb_min : basic::options::OptionKeys::enzdes
bb_min_allowed_dev : basic::options::OptionKeys::enzdes
bb_min_res : basic::options::OptionKeys::docking
bb_move : basic::options::OptionKeys::relax
bb_moves : basic::options::OptionKeys::dna::design , basic::options::OptionKeys::jumps
bb_stats : basic::options::OptionKeys::orbitals
bbdep_bond_devs : basic::options::OptionKeys::corrections::score
bbdep_bond_params : basic::options::OptionKeys::corrections::score
bbdep_omega : basic::options::OptionKeys::corrections::score
bbg : basic::options::OptionKeys::bbg
begin : basic::options::OptionKeys , utility::options::OptionKeys
benchmark : basic::options::OptionKeys::hotspot , basic::options::OptionKeys::run
benchmark_basic_design : basic::options::OptionKeys::antibody::design
beta : basic::options::OptionKeys::corrections
bGDT : basic::options::OptionKeys::abinitio
big_frag_insertion_weight : basic::options::OptionKeys::cm::hybridize
bin : basic::options::OptionKeys::lh::fragpdb
binary_chk : basic::options::OptionKeys::in::file
binding : basic::options::OptionKeys::dna::design
binding_score : basic::options::OptionKeys::pepspec
blivens : basic::options::OptionKeys::blivens
blueprint : basic::options::OptionKeys::fldsgn , basic::options::OptionKeys::flxbb , basic::options::OptionKeys::loops::loop_closure , basic::options::OptionKeys::remodel
boinc : basic::options::OptionKeys::boinc
boinc_wu_zip : basic::options::OptionKeys::in::file
Boltz_temp : basic::options::OptionKeys::dna::design , basic::options::OptionKeys::ms
bonded_params : basic::options::OptionKeys::score
bonded_params_dir : basic::options::OptionKeys::score
boost_closure_cycles : basic::options::OptionKeys::remodel::RemodelLoopMover
boost_fa_atr : basic::options::OptionKeys::flexPepDocking
bound_delta : basic::options::OptionKeys::cm::sanitize
bound_sd : basic::options::OptionKeys::cm::sanitize
boundary_cutoff : basic::options::OptionKeys::remodel
bounded_protocol : basic::options::OptionKeys::frags
BPData : basic::options::OptionKeys::motifs
bps_database : basic::options::OptionKeys::rna
bridge_res : basic::options::OptionKeys::stepwise::protein
broker : basic::options::OptionKeys::broker
Bsol : basic::options::OptionKeys::patterson
bss : basic::options::OptionKeys::lh
buffer_flush_frequency : basic::options::OptionKeys::jd2
buffer_silent_output : basic::options::OptionKeys::jd2
build_all_loops : basic::options::OptionKeys::loops
build_attempts : basic::options::OptionKeys::loops
build_disulf : basic::options::OptionKeys::remodel
build_initial : basic::options::OptionKeys::loops
build_residue_file : basic::options::OptionKeys::motifs
build_round1_hits_twice : basic::options::OptionKeys::match
build_specific_loops : basic::options::OptionKeys::loops
builder : basic::options::OptionKeys::nonlocal
built_in_rdc : basic::options::OptionKeys::evaluation
bulge_res : basic::options::OptionKeys::stepwise::rna
bump_tolerance : basic::options::OptionKeys::match
bunsat_calc2 : basic::options::OptionKeys::bunsat_calc2
burial : basic::options::OptionKeys::flxbb::layer , basic::options::OptionKeys::in::file
bypass_closure : basic::options::OptionKeys::remodel::RemodelLoopMover
bypass_fragments : basic::options::OptionKeys::remodel