Module _protocols_stepwise_modeler_rna_
Classes
Combine_Tags_Info
Combine_Tags_InfoAP
Combine_Tags_InfoCAP
Filterer_Count
Filterer_CountAP
Filterer_CountCAP
InternalWorkingResidueParameter
InternalWorkingResidueParameterAP
InternalWorkingResidueParameterCAP
Jump_point
Jump_pointAP
Jump_pointCAP
Residue_info
Residue_infoAP
Residue_infoCAP
SingletonBase_T_core_chemical_ChemicalManager_T
SingletonBase_T_core_chemical_ChemicalManager_TAP
SingletonBase_T_core_chemical_ChemicalManager_TCAP
StepWiseRNA_CombineLongLoopFilterer
StepWiseRNA_CombineLongLoopFiltererAP
StepWiseRNA_CombineLongLoopFiltererCAP
StepWiseRNA_CountStruct
StepWiseRNA_CountStructAP
StepWiseRNA_CountStructCAP
Torsion_Info
Torsion_InfoAP
Torsion_InfoCAP
output_data_struct
output_data_structAP
output_data_structCAP
Functions
Convert_rebuild_residue_string_to_list
add_fade_chain_break_constraint_across_gap
add_harmonic_chain_break_constraint
add_virtual_O2Prime_hydrogen
align_poses
apply_full_to_sub_mapping
apply_protonated_H1_adenosine_variant_type
apply_sub_to_full_mapping
atom_square_deviation
base_atoms_square_deviation
check_for_messed_up_structure
check_instantiated_O2Prime_hydrogen
check_is_working_res
check_validity_and_get_working_res
choose_random_if_unspecified_nucleotide
contain_residue_at_seq_num
copy_all_o2prime_torsions
copy_dofs_sort_criterion
create_full_to_input_res_map
create_rotamer_string
create_standard_o2prime_pack_task
create_strand_list
create_tag
create_torsion_value_string
ensure_valid_full_seq_num
figure_out_moving_rna_chain_breaks
file_exists
freeze_sugar_torsions
get_anchor_res
get_binary_rna_silent_struct_safe
get_binary_rna_silent_struct_safe_wrapper
get_copy_dofs_from_fasta
get_max_seq_num_from_res_map
get_modeler_scorefxn
get_one_letter_name
get_partition_definition_floating_base
get_possible_O3prime_C5prime_distance_range
get_residue_from_seq_num
get_surrounding_O2prime_hydrogen
get_three_letter_name
is_residues_in_contact
is_virtual_base
just_modeling_RNA
just_rna
minimize_with_constraints
mutate_res_if_allowed
o2prime_trials
output_copy_dofs
output_data
output_res_map
output_residue_struct
output_seq_num_list
output_title_text
phosphate_base_phosphate_rmsd
phosphate_base_phosphate_square_deviation
phosphate_square_deviation
print_base_state
print_sugar_pucker_state
print_torsion_info
remove_all_variant_types
remove_all_virtual_phosphates
remove_chain_break_variants
remove_file
remove_virtual_O2Prime_hydrogen
rescale_scorefxn
rmsd_over_residue_list
set_CCD_torsions_to_zero
set_difference
set_union
setup_chain_break_variants
setup_suite_atom_id_map
show_scorefxn_weight_lines
sort_copy_dofs
sort_seq_num_list
string_to_int
string_to_real
suite_rmsd
suite_square_deviation
tokenize
virtualize_free_rna_moieties
Variables
__package__
[
hide private
]