- h -

• H : hist2d
• h1_template : basic::options::OptionKeys::antibody
• h2_template : basic::options::OptionKeys::antibody
• h3_filter : basic::options::OptionKeys::antibody
• h3_filter_tolerance : basic::options::OptionKeys::antibody
• h3_loop_csts_hr : basic::options::OptionKeys::antibody
• h3_loop_csts_lr : basic::options::OptionKeys::antibody
• h3_no_stem_graft : basic::options::OptionKeys::antibody
• h3_template : basic::options::OptionKeys::antibody
• h5py : pyrosetta.protocols.h5_importer
• h5py_is_present : pyrosetta.protocols.h5_importer
• h_mode : basic::options::OptionKeys::holes
• harm : vancomycin
• harmonic_ca_tether : basic::options::OptionKeys::ddg
• harmonic_Calphas : basic::options::OptionKeys::docking::ligand
• harmonic_torsions : basic::options::OptionKeys::docking::ligand
• Haro : basic::options::OptionKeys::orbitals
• harvest : basic::options::OptionKeys::mh::harvest
• harvest_motifs : basic::options::OptionKeys::mh
• harvest_motifs_min_hh_ends : basic::options::OptionKeys::mh
• harvest_scores : basic::options::OptionKeys::mh
• has_pore : basic::options::OptionKeys::mp::lipids
• hash_2D_vs_3D : basic::options::OptionKeys::sicdock
• hash_angle_resl : basic::options::OptionKeys::mh::harvest
• hash_cart_resl : basic::options::OptionKeys::mh::harvest
• hash_tag_only_terminal_Es : basic::options::OptionKeys::legacy_sewing
• hashfile : basic::options::OptionKeys::hotspot
• hb_acc_strength : basic::options::OptionKeys::score
• hb_bb : basic::options::OptionKeys::mh::filter
• hb_bb_sc : basic::options::OptionKeys::mh::filter
• hb_cen_soft : basic::options::OptionKeys::corrections::score
• hb_don_strength : basic::options::OptionKeys::score
• hb_exclude_ether_oxygens : basic::options::OptionKeys::corrections::score
• hb_fade_energy : basic::options::OptionKeys::corrections::score
• hb_filter : basic::options::OptionKeys::flexPepDocking
• hb_lrbb : basic::options::OptionKeys::remodel
• hb_max_energy : basic::options::OptionKeys::score
• hb_sc : basic::options::OptionKeys::mh::filter
• hb_score_cutoff : basic::options::OptionKeys::motifs
• hb_sp2_BAH180_rise : basic::options::OptionKeys::corrections::score
• hb_sp2_chipen : basic::options::OptionKeys::corrections::score
• hb_sp2_outer_width : basic::options::OptionKeys::corrections::score
• hb_srbb : basic::options::OptionKeys::remodel
• hb_type : plot_hb
• hbe_for_dH2O_aGEN_SP3SC_ssother : basic::options::OptionKeys::score
• hbnet_bonus_function_ramping : basic::options::OptionKeys::score
• hbnet_max_network_size : basic::options::OptionKeys::score
• hbond : basic::options::OptionKeys::mp::scoring
• hbond_acceptor_energy_cutoff : basic::options::OptionKeys::cyclic_peptide
• hbond_bb_per_residue_energy : basic::options::OptionKeys::score
• Hbond_depth_correction : basic::options::OptionKeys::mp
• hbond_disable_bbsc_exclusion_rule : basic::options::OptionKeys::score
• hbond_energy_cutoff : basic::options::OptionKeys::cyclic_peptide
• hbond_energy_shift : basic::options::OptionKeys::corrections::score
• hbond_entropy_threshold : basic::options::OptionKeys::hydrate
• hbond_fade : basic::options::OptionKeys::score
• hbond_max_threshold : basic::options::OptionKeys::motifs
• hbond_measure_sp3acc_BAH_from_hvy : basic::options::OptionKeys::corrections::score
• hbond_min_threshold : basic::options::OptionKeys::motifs
• hbond_new_sp3_acc : basic::options::OptionKeys::score
• hbond_params : basic::options::OptionKeys::score
• hbond_sc_cutoff : hbscan
• hbond_set : test.T200_Scoring , test.Workshop3test
• hbond_sp2_correction : basic::options::OptionKeys::corrections
• hbond_threshold : basic::options::OptionKeys::hydrate
• hbond_wtd_energy_cutoff : hbscan
• hbonded : benchmark_ns
• hbs_chain : a3b_hbs_creator
• hbs_design_first : a3b_hddm
• hbs_design_positions : hbs_design
• hbs_final_res : a3b_hbs_creator
• hbs_length : a3b_hbs_creator , create_a3b_hbs
• hbs_offset : a3b_hbs_creator
• hbs_position : create_a3b_hbs
• hbs_seq_position : create_a3b_hbs
• HCF : basic::options::OptionKeys::testing
• HDX : basic::options::OptionKeys::in::file
• header : dummy-distribution
• Header : make_templates
• heat : basic::options::OptionKeys::rna::denovo
• heat_convergence_check : basic::options::OptionKeys::mc
• helical_bundle_predict : basic::options::OptionKeys::helical_bundle_predict
• helical_movement_params : basic::options::OptionKeys::RBSegmentRelax
• helical_omega : basic::options::OptionKeys::remodel
• helical_radius : basic::options::OptionKeys::remodel
• helical_rise : basic::options::OptionKeys::remodel
• helical_substructs : basic::options::OptionKeys::rna::denovo
• helices_only : local
• helix_assignment_file : basic::options::OptionKeys::helical_bundle_predict
• helix_end : basic::options::OptionKeys::mp::benchmark::ideal_helix
• helix_length : local
• helix_pairings : basic::options::OptionKeys::templates
• helix_start : basic::options::OptionKeys::mp::benchmark::ideal_helix
• help : auto-DRRAFTER_setup , auto-DRRAFTER_setup_next_round , combine_pdbs , demo.D010_Pose_structure , demo.D020_Pose_scoring , demo.D030_Fold_tree , demo.D040_Movemap , demo.D050_Packer_task , demo.D060_Folding , demo.D070_Refinement , demo.D080_Loop_modeling , demo.D090_Ala_scan , demo.D100_Docking , demo.D110_DNA_interface , demo.D120_Ligand_interface , DRRAFTER , drrafter_rna , enumerate_junctions , find_lowest_scoring_relaxed_struct , general_RNP_setup_script , get_final_ddG_scores , get_lowest_scoring_relaxed_models , pyrosetta.tests.distributed.cluster.print_discovered_test_cases , pyrosetta.tests.distributed.test_dask , relax_starting_structure , setup_for_complex_scoring_general , utility::options::OptionKeys
• heme_conformation : local
• hetatm_list : clean_pdb_keep_ligand
• hetatm_map : DRRAFTER_util
• hh_map : basic::options::OptionKeys::cm
• hierarchical_pool : basic::options::OptionKeys::mc
• high_hbond_weight_multiplier : basic::options::OptionKeys::cyclic_peptide
• high_mem_mode : basic::options::OptionKeys::antibody::design
• high_min_patch : basic::options::OptionKeys::docking
• high_patch : basic::options::OptionKeys::docking
• high_res : basic::options::OptionKeys::carbohydrates::glycopeptide_docking
• high_res_outer_cycles : basic::options::OptionKeys::carbohydrates::glycopeptide_docking
• highres_conformer_filter_type : basic::options::OptionKeys::nmr::spinlabel
• highresdock_with_whole_score_fxn : basic::options::OptionKeys::motifs
• highresdocker_allow_minimization : basic::options::OptionKeys::motifs
• highresdocker_allow_repacking : basic::options::OptionKeys::motifs
• highresdocker_use_all_residues : basic::options::OptionKeys::motifs
• hist : 3d_histogram
• histamine : basic::options::OptionKeys::constel
• histogram_max : basic::options::OptionKeys::recces
• histogram_min : basic::options::OptionKeys::recces
• histogram_spacing : basic::options::OptionKeys::recces
• histograms : subloop_histogram
• HOH_amp_scaling : basic::options::OptionKeys::score::occ_sol_fitted
• holes : basic::options::OptionKeys::holes
• homo_file : basic::options::OptionKeys::lh
• homodimer : basic::options::OptionKeys::willmatch
• homol_csts : basic::options::OptionKeys::pepspec
• homooligomer_swap : basic::options::OptionKeys::cluster::energy_based_clustering
• hook : execute , run_backbone , run_sidechain
• host : basic::options::OptionKeys::cloud , basic::options::OptionKeys::inout::dbms
• HOSTNAME_in_jobname : basic::options::OptionKeys::jd2
• hotspot : basic::options::OptionKeys::hotspot
• hotspot_filter : basic::options::OptionKeys::flexPepDocking
• hotspot_hash : basic::options::OptionKeys::cluster
• HP : amino_acids
• hpcg : amino_acids
• Hpol : basic::options::OptionKeys::orbitals
• hrf_dynamics_input : basic::options::OptionKeys::score
• hrf_ms_labeling : basic::options::OptionKeys::in::file
• hs_repack_only : scaffold_matcher
• hsasa_residue_cutoff : local
• hset : test.Workshop3test
• hstarget : scaffold_matcher
• hterm2 : test.T250_Constraints
• html_context : conf
• html_sidebars : conf
• html_split_index : conf
• html_static_path : conf
• html_theme : conf
• html_theme_path : conf
• htmlhelp_basename : conf
• hxl_dist_cutoff : basic::options::OptionKeys::bunsat_calc2
• hybridize : basic::options::OptionKeys::cm::hybridize
• hydrate : basic::options::OptionKeys::hydrate , basic::options::OptionKeys::magnesium
• hydrate_all : basic::options::OptionKeys::hydrate
• hydrophobic_polar_pattern : basic::options::OptionKeys::DenovoProteinDesign
• hyfile : basic::options::OptionKeys::hydrate