- f -

• FA_STANDARD() : core::chemical
• FA_STANDARD_DEFAULT() : core::scoring
• FA_STANDARD_SOFT() : core::scoring
• facet_containing_position() : protocols::forge::methods
• factorsLTE19() : core::scoring::electron_density
• factorsLTE5() : core::scoring::electron_density
• fake_hit() : protocols::match
• fall_back() : protocols::noesy_assign
• fast2DRotAlignPose() : protocols::electron_density
• fast_ccd_close_loops() : protocols::loops::loop_mover::perturb
• fast_ccd_loop_closure() : protocols::loops::loop_closure::ccd
• fast_clash_check() : protocols::forge::remodel , protocols::toolbox::pose_metric_calculators
• fast_full_atom_VDW_repulsion_screen() : protocols::swa::rna
• fastTransAlignPose() : protocols::electron_density
• favor_nonnative_residue_tracer() : protocols::protein_interface_design::movers
• figure_out_base_pair_orientation() : protocols::rna
• Figure_out_moving_residues() : protocols::swa
• figure_out_number_base_contacts() : protocols::rna
• figure_out_reasonable_rna_fold_tree() : protocols::rna
• figure_out_repackable_residues() : core::pack
• figure_out_secstruct() : protocols::rna
• file_exists() : protocols::swa::rna
• file_full_path() : protocols::toolbox
• file_is_atom_tree_diff() : core::import_pose::atom_tree_diffs
• filename() : protocols::abinitio
• filenames_from_list_file() : core::import_pose::pose_stream
• fill_A_line() : protocols::scoring::methods::pcs
• fill_A_line_fast() : protocols::scoring::methods::pcs2
• fill_A_line_slow() : protocols::scoring::methods::pcs2
• fill_bb_pos() : core::scoring
• fill_CA_coords() : protocols::toolbox
• fill_chi_rotamers_with_center_and_stddev() : core::pack::rotamer_set
• fill_grid_with_backbone_heavyatom_spheres() : protocols::match
• fill_grid_with_residue_heavyatom_spheres() : protocols::match
• fill_grid_with_residue_spheres() : protocols::match
• fill_hbond_bb_pair_score_dssp() : core::scoring::dssp
• fill_hbond_set() : core::scoring::hbonds
• fill_hbond_set_by_AHdist_threshold() : core::scoring::hbonds
• fill_in_chain_terminii() : core::pack::task::operation::util
• fill_intra_res_hbond_set() : core::scoring::hbonds
• fill_non_loop_cst_set() : protocols::forge::methods
• fill_plane_hash() : protocols::sic_dock
• fill_rmsd_coordinates() : core::scoring
• fill_score_range() : core::scoring
• fill_tags_() : protocols::jumping
• fill_template_frames_from_pdb() : core::fragment
• filter_chem_shift_data_list() : core::scoring::rna::chemical_shift
• filter_loop_neighbors_by_distance() : protocols::loops
• filter_pareto_opt_poses() : protocols::design_opt
• FinalMinimizer_tracer() : protocols::ligand_docking
• find_attach_pt() : protocols::ligand_docking
• find_basepairs() : core::scoring::dna , protocols::dna
• Find_Closest_Intersect_SQ() : protocols::pockets
• find_connected_components() : core::graph
• find_connecting_jump() : protocols::forge::methods
• find_cutpoint() : protocols::forge::methods
• find_cutpoint_variants() : core::scoring::methods
• find_existing_residues() : protocols::evaluation
• find_filter_or_die() : protocols::moves
• find_interface_pointing_residues_from_neighbs() : core::pack::task::operation::util
• find_jump_partners_within_CB_cutoff() : core::pack::task::operation::util
• find_ligands() : protocols::flxbb
• find_lowest_constraint_energy_residue() : protocols::protein_interface_design
• find_mover_or_die() : protocols::moves
• find_nearest_res() : protocols::rosetta_scripts
• find_nearest_residue() : protocols::protein_interface_design , protocols::seeded_abinitio
• find_nearest_residue_to_coord() : protocols::protein_interface_design::movers
• find_neighbors() : core::conformation
• find_neighbors_3dgrid() : core::conformation
• find_neighbors_3dgrid_restricted() : core::conformation
• find_neighbors_naive() : core::conformation
• find_neighbors_naive_restricted() : core::conformation
• find_neighbors_naive_surface() : core::conformation
• find_neighbors_octree() : core::conformation
• find_neighbors_octree_restricted() : core::conformation
• find_neighbors_restricted() : core::conformation
• find_neighbors_stripe() : core::conformation
• find_neighbors_within_CB_cutoff() : core::pack::task::operation::util
• find_new_symmetric_jump_residues() : core::pose::symmetry
• find_non_protein_chunks() : protocols::loops
• find_peptide_attach_pt() : protocols::ligand_docking
• find_regions_with_minimum_size() : protocols::nonlocal
• find_res_unsat_polars() : protocols::toolbox::pose_metric_calculators
• find_residue_max_radii() : core::pack
• find_residues_on_chain1_outside_interface() : protocols::protein_interface_design::movers
• find_sampling_cuts() : protocols::abinitio
• find_stub_transform() : core::kinematics
• find_symmetric_basejump_anchor() : core::pose::symmetry
• find_unconnected_residues() : protocols::ligand_docking
• find_uncovered_residues() : protocols::hybridization
• find_weights_file() : core::scoring
• FindBoundaries() : core::fragment
• findLoopFromDensity() : protocols::electron_density
• findLoopFromPatterson() : protocols::electron_density
• findSampling() : core::scoring::electron_density
• findSampling5() : core::scoring::electron_density
• first_base_atom() : core::scoring::rna
• first_base_atom_index() : core::scoring::rna
• fit_centered_coords() : protocols::toolbox
• fix_chainbreak_patch() : protocols::abinitio
• fix_end_phi_psi() : protocols::swa::protein
• fix_internal_coords_of_siblings() : protocols::topology_broker
• fix_mainchain_connect() : protocols::topology_broker
• fix_sugar_coords() : core::scoring::rna
• fix_sugar_coords_WORKS_BUT_SLOW() : core::scoring::rna
• fix_tag_suffix() : protocols::toolbox
• fix_with_coord_cst() : protocols::loops
• fix_worst_bad_ramas() : protocols::relax
• FIXED_DOMAIN() : protocols::toolbox
• fixH() : protocols::forge::methods
• flatten_list() : core::fragment
• floating_base_chain_break_screening() : protocols::swa::rna
• floating_base_chain_closure_post_process() : protocols::swa::rna
• floating_base_chain_closure_sampling() : protocols::swa::rna
• floating_base_chain_closure_setup() : protocols::swa::rna
• floating_base_full_atom_van_der_Waals_screening() : protocols::swa::rna
• flood_fill3D() : protocols::sic_dock
• FlxbbDesign_main() : protocols::flxbb
• fold_tree_entry_point() : core::conformation::symmetry
• fold_tree_from_loops() : protocols::loops , protocols::forge::methods
• fold_tree_from_pose() : protocols::forge::methods
• foreach_movemap_tag() : protocols::rosetta_scripts
• form_disulfide() : core::conformation
• frac_atoms_within() : protocols::ligand_docking
• fragment_set_slice() : protocols::swa::protein , core::fragment
• frdc() : core::scoring
• frdcDa() : core::scoring
• frdcDaR() : core::scoring
• frdcR() : core::scoring
• Freeze_sugar_torsions() : protocols::swa::rna
• ftoa() : protocols::sparta
• full_hit() : protocols::match
• full_length_rmsd_over_residue_list() : protocols::swa::rna