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

- a -

• aa10li() : seqan3::aa10li
• aa10li_vector : seqan3::aa10li
• aa10murphy() : seqan3::aa10murphy
• aa10murphy_vector : seqan3::aa10murphy
• aa20() : seqan3::aa20
• aa20_vector : seqan3::aa20
• aa27() : seqan3::aa27
• aa27_vector : seqan3::aa27
• acquire_matrices() : seqan3::detail::policy_alignment_matrix< traits_t, alignment_matrix_t >
• adaptor_base() : seqan3::detail::adaptor_base< derived_type, stored_args_ts >
• adaptor_for_view_without_args() : seqan3::detail::adaptor_for_view_without_args< view_type >
• adaptor_from_functor() : seqan3::detail::adaptor_from_functor< functor_type, stored_args_ts >
• add_carriage_return : seqan3::sam_file_output_options, seqan3::sequence_file_output_options, seqan3::structure_file_output_options
• add_column() : seqan3::detail::edit_distance_score_matrix_full< word_t, score_t, is_semi_global, use_max_errors >, seqan3::detail::edit_distance_trace_matrix_full< word_t, is_semi_global, use_max_errors >
• add_default_hit_configuration() : seqan3::detail::search_configurator
• add_default_output_configuration() : seqan3::detail::search_configurator
• add_defaults() : seqan3::detail::search_configurator
• add_flag() : seqan3::argument_parser, seqan3::detail::format_help_base< derived_type >, seqan3::detail::format_parse
• add_line() : seqan3::argument_parser, seqan3::detail::format_help_base< derived_type >
• add_list_item() : seqan3::argument_parser, seqan3::detail::format_help_base< derived_type >
• add_option() : seqan3::argument_parser, seqan3::detail::format_help_base< derived_type >, seqan3::detail::format_parse
• add_positional_option() : seqan3::argument_parser, seqan3::detail::format_help_base< derived_type >, seqan3::detail::format_parse
• add_section() : seqan3::argument_parser, seqan3::detail::format_help_base< derived_type >
• add_state() : seqan3::detail::edit_distance_unbanded< database_t, query_t, align_config_t, edit_traits >
• add_subsection() : seqan3::argument_parser, seqan3::detail::format_help_base< derived_type >
• advance_score() : seqan3::detail::edit_distance_unbanded< database_t, query_t, align_config_t, edit_traits >
• advance_window() : seqan3::detail::minimiser_view< urng1_t, urng2_t >::basic_iterator< const_range >
• advanceable_alignment_coordinate() : seqan3::detail::advanceable_alignment_coordinate< state >
• affine_cell_proxy() : seqan3::detail::affine_cell_proxy< tuple_t >
• affine_cell_type : seqan3::detail::policy_affine_gap_recursion< alignment_configuration_t >, seqan3::detail::policy_affine_gap_recursion_banded< alignment_configuration_t >, seqan3::detail::policy_affine_gap_with_trace_recursion< alignment_configuration_t >, seqan3::detail::policy_affine_gap_with_trace_recursion_banded< alignment_configuration_t >
• affine_gap_init_policy() : seqan3::detail::affine_gap_init_policy< alignment_algorithm_t >, seqan3::detail::find_optimum_policy< alignment_algorithm_t >, seqan3::detail::simd_find_optimum_policy< alignment_algorithm_t, simd_t >
• affine_gap_policy() : seqan3::detail::affine_gap_policy< alignment_algorithm_t, score_t, align_local_t >, seqan3::detail::find_optimum_policy< alignment_algorithm_t >
• affine_score_tuple_t : seqan3::detail::policy_affine_gap_recursion< alignment_configuration_t >, seqan3::detail::policy_affine_gap_with_trace_recursion< alignment_configuration_t >
• affine_trace_tuple_t : seqan3::detail::policy_affine_gap_with_trace_recursion< alignment_configuration_t >
• after_column_iterator_increment() : seqan3::detail::alignment_matrix_column_major_range_base< derived_t >, seqan3::detail::alignment_score_matrix_one_column< score_t >, seqan3::detail::alignment_score_matrix_one_column_banded< score_t >
• algorithm : seqan3::detail::algorithm_executor_blocking< resource_t, algorithm_t, algorithm_result_t, execution_handler_t >
• algorithm_executor_blocking() : seqan3::detail::algorithm_executor_blocking< resource_t, algorithm_t, algorithm_result_t, execution_handler_t >
• algorithm_executor_ptr : seqan3::algorithm_result_generator_range< algorithm_executor_type >
• algorithm_range_iterator : seqan3::algorithm_result_generator_range< algorithm_executor_type >, seqan3::algorithm_result_generator_range< algorithm_executor_type >::algorithm_range_iterator
• algorithm_result_generator_range() : seqan3::algorithm_result_generator_range< algorithm_executor_type >
• algorithm_result_type : seqan3::algorithm_result_generator_range< algorithm_executor_type >
• align_config_type : seqan3::detail::default_edit_distance_trait_type< database_t, query_t, align_config_t, is_semi_global_t, word_t >
• aligned_allocator() : seqan3::aligned_allocator< value_t, alignment_v >
• aligned_sequence_builder() : seqan3::detail::aligned_sequence_builder< fst_sequence_t, sec_sequence_t >
• alignment : seqan3::aligned_allocator< value_t, alignment_v >, seqan3::alignment_result< alignment_result_value_t >, seqan3::detail::aligned_sequence_builder< fst_sequence_t, sec_sequence_t >::result_type, seqan3::detail::alignment_result_value_type< sequence1_id_t, sequence2_id_t, score_t, end_positions_t, begin_positions_t, alignment_t, score_debug_matrix_t, trace_debug_matrix_t >, seqan3::detail::edit_distance_unbanded_trace_matrix_policy< derived_t, edit_traits >, seqan3::sam_record< field_types, field_ids >
• alignment_algorithm() : seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t >
• alignment_algorithm_state() : seqan3::detail::alignment_algorithm_state< score_type >
• alignment_algorithm_t : seqan3::detail::affine_gap_init_policy< alignment_algorithm_t >, seqan3::detail::affine_gap_policy< alignment_algorithm_t, score_t, align_local_t >, seqan3::detail::alignment_matrix_policy< alignment_algorithm_t, score_matrix_t, trace_matrix_t >, seqan3::detail::find_optimum_policy< alignment_algorithm_t >, seqan3::detail::scoring_scheme_policy< alignment_algorithm_t, scoring_scheme_t >, seqan3::detail::simd_affine_gap_policy< alignment_algorithm_t, score_t, align_local_t >, seqan3::detail::simd_find_optimum_policy< alignment_algorithm_t, simd_t >
• alignment_column : seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t >
• alignment_column_it : seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t >
• alignment_column_iterator_t : seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t >
• alignment_column_t : seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t >
• alignment_column_type() : seqan3::detail::alignment_matrix_column_major_range_base< derived_t >::alignment_column_type
• alignment_matrix_column_major_range_base() : seqan3::detail::alignment_matrix_column_major_range_base< derived_t >
• alignment_matrix_policy() : seqan3::detail::alignment_matrix_policy< alignment_algorithm_t, score_matrix_t, trace_matrix_t >
• alignment_optimum() : seqan3::detail::alignment_optimum< score_t >
• alignment_result() : seqan3::alignment_result< alignment_result_value_t >
• alignment_result_t : seqan3::detail::alignment_algorithm< config_t, algorithm_policies_t >
• alignment_result_type : seqan3::detail::alignment_configuration_traits< configuration_t >, seqan3::detail::alignment_function_traits< function_t >, seqan3::detail::default_edit_distance_trait_type< database_t, query_t, align_config_t, is_semi_global_t, word_t >, seqan3::detail::edit_distance_algorithm< config_t, traits_t >, seqan3::detail::pairwise_alignment_algorithm< alignment_configuration_t, policies_t >
• alignment_score_matrix_one_column() : seqan3::detail::alignment_score_matrix_one_column< score_t >
• alignment_score_matrix_one_column_banded() : seqan3::detail::alignment_score_matrix_one_column_banded< score_t >
• alignment_state : seqan3::detail::affine_gap_policy< alignment_algorithm_t, score_t, align_local_t >, seqan3::detail::simd_affine_gap_policy< alignment_algorithm_t, score_t, align_local_t >
• alignment_state_t : seqan3::detail::affine_gap_policy< alignment_algorithm_t, score_t, align_local_t >, seqan3::detail::simd_affine_gap_policy< alignment_algorithm_t, score_t, align_local_t >
• alignment_t : seqan3::alignment_result< alignment_result_value_t >
• alignment_trace_matrix_full() : seqan3::detail::alignment_trace_matrix_full< trace_t, coordinate_only >
• alignment_trace_matrix_full_banded() : seqan3::detail::alignment_trace_matrix_full_banded< trace_t, coordinate_only >
• alignment_traits_type : seqan3::detail::default_edit_distance_trait_type< database_t, query_t, align_config_t, is_semi_global_t, word_t >
• alignment_type : seqan3::detail::aligned_sequence_builder< fst_sequence_t, sec_sequence_t >
• alignments_per_vector : seqan3::detail::alignment_configuration_traits< configuration_t >
• all() : seqan3::dynamic_bitset< bit_capacity >
• all_iterators_reached_sentinel() : seqan3::detail::view_to_simd< urng_t, simd_t >::iterator_type
• allocate() : seqan3::aligned_allocator< value_t, alignment_v >
• allocate_matrix() : seqan3::detail::alignment_matrix_policy< alignment_algorithm_t, score_matrix_t, trace_matrix_t >
• allocator_type : seqan3::detail::alignment_score_matrix_one_column_base< score_t >, seqan3::detail::alignment_trace_matrix_base< trace_t >
• alphabet_base() : seqan3::alphabet_base< derived_type, size, char_t >
• alphabet_or_type_identity : seqan3::detail::adl_only::alphabet_size_cpo< alphabet_t >, seqan3::detail::adl_only::char_is_valid_for_cpo< alphabet_t >, seqan3::detail::adl_only::enable_aminoacid_cpo< alphabet_t >, seqan3::detail::adl_only::max_pseudoknot_depth_cpo< alphabet_t >
• alphabet_proxy() : seqan3::alphabet_proxy< derived_type, alphabet_type >
• alphabet_ranks_type : seqan3::detail::simd_match_mismatch_scoring_scheme< simd_score_t, alphabet_t, alignment_t >
• alphabet_size : seqan3::alphabet_base< derived_type, size, char_t >, seqan3::alphabet_proxy< derived_type, alphabet_type >, seqan3::custom::alphabet< char_type >, seqan3::custom::alphabet< uint_type >, seqan3::detail::view_to_simd< urng_t, simd_t >, seqan3::wuss< SIZE >
• alphabet_t : seqan3::detail::kmer_hash_view< urng_t >::basic_iterator< const_range >
• alphabet_tuple_base() : seqan3::alphabet_tuple_base< derived_type, component_types >
• alphabet_type : seqan3::bi_fm_index< alphabet_t, text_layout_mode_, sdsl_index_type_ >, seqan3::fm_index< alphabet_t, text_layout_mode_, sdsl_index_type_ >, seqan3::hamming_scoring_scheme, seqan3::scoring_scheme_base< derived_t, alphabet_t, score_t >
• alphabet_variant() : seqan3::alphabet_variant< alternative_types >
• alternatives : seqan3::alphabet_variant< alternative_types >
• aminoacid_base() : seqan3::aminoacid_base< derived_type, size >
• aminoacid_scoring_scheme() : seqan3::aminoacid_scoring_scheme< score_type >
• anchor_gap_t : seqan3::gap_decorator< inner_type >
• anchor_set_it : seqan3::gap_decorator< inner_type >::basic_iterator< bool >
• anchor_set_type : seqan3::gap_decorator< inner_type >
• anchors : seqan3::gap_decorator< inner_type >
• any() : seqan3::dynamic_bitset< bit_capacity >
• app_name : seqan3::argument_parser_meta_data
• app_name_regex : seqan3::argument_parser
• append() : seqan3::configuration< configs_t >
• argument_count : seqan3::function_traits< std::function< return_t(args_t...)> >
• argument_parser() : seqan3::argument_parser
• argument_parser_error() : seqan3::argument_parser_error
• argument_type_at : seqan3::function_traits< std::function< return_t(args_t...)> >
• arguments : seqan3::detail::adaptor_base< derived_type, stored_args_ts >
• argv : seqan3::detail::format_parse
• arithmetic_buffer : seqan3::detail::format_sam_base
• arithmetic_range_validator() : seqan3::arithmetic_range_validator< option_value_t >
• arrive() : seqan3::detail::latch
• arrive_and_wait() : seqan3::detail::latch
• as_array : seqan3::fields< fs >
• as_base() : seqan3::detail::affine_cell_proxy< tuple_t >, seqan3::detail::inherited_iterator_base< derived_t, base_t >, seqan3::record< field_types, field_ids >
• as_derived() : seqan3::detail::two_dimensional_matrix_iterator_base< derived_t, order >
• as_host_iter() : seqan3::detail::two_dimensional_matrix_iterator_base< derived_t, order >
• as_string() : seqan3::detail::debug_matrix< matrix_t, first_sequence_t, second_sequence_t >
• assign() : seqan3::bitpacked_sequence< alphabet_type >, seqan3::concatenated_sequences< underlying_container_type, data_delimiters_type >, seqan3::dynamic_bitset< bit_capacity >, seqan3::small_string< capacity_ >, seqan3::small_vector< value_type_, capacity_ >
• assign_char() : seqan3::alphabet_base< derived_type, size, char_t >, seqan3::alphabet_proxy< derived_type, alphabet_type >, seqan3::masked< sequence_alphabet_t >, seqan3::qualified< sequence_alphabet_t, quality_alphabet_t >, seqan3::structured_aa< sequence_alphabet_t, structure_alphabet_t >, seqan3::structured_rna< sequence_alphabet_t, structure_alphabet_t >
• assign_char_to() : seqan3::custom::alphabet< char_type >, seqan3::custom::alphabet< uint_type >
• assign_component_rank() : seqan3::alphabet_tuple_base< derived_type, component_types >
• assign_phred() : seqan3::alphabet_proxy< derived_type, alphabet_type >, seqan3::phred_base< derived_type, size >, seqan3::qualified< sequence_alphabet_t, quality_alphabet_t >
• assign_rank() : seqan3::alphabet_base< derived_type, size, char_t >, seqan3::alphabet_proxy< derived_type, alphabet_type >
• assign_rank_to() : seqan3::custom::alphabet< char_type >, seqan3::custom::alphabet< uint_type >
• assign_string() : seqan3::cigar
• assign_unaligned : seqan3::gap_decorator< inner_type >, writable_aligned_sequence
• async_input_buffer_view() : seqan3::detail::async_input_buffer_view< urng_t >
• at() : seqan3::bitpacked_sequence< alphabet_type >, seqan3::concatenated_sequences< underlying_container_type, data_delimiters_type >, seqan3::detail::debug_matrix< matrix_t, first_sequence_t, second_sequence_t >, seqan3::detail::edit_distance_score_matrix_full< word_t, score_t, is_semi_global, use_max_errors >, seqan3::detail::edit_distance_trace_matrix_full< word_t, is_semi_global, use_max_errors >, seqan3::detail::matrix< matrix_t >, seqan3::detail::two_dimensional_matrix< value_t, allocator_t, order >, seqan3::dynamic_bitset< bit_capacity >, seqan3::gap_decorator< inner_type >, seqan3::small_vector< value_type_, capacity_ >
• at_end : seqan3::algorithm_result_generator_range< algorithm_executor_type >::algorithm_range_iterator, seqan3::detail::async_input_buffer_view< urng_t >::iterator, seqan3::detail::view_to_simd< urng_t, simd_t >::iterator_type, seqan3::sam_file_input< traits_type_, selected_field_ids_, valid_formats_ >, seqan3::sequence_file_input< traits_type_, selected_field_ids_, valid_formats_ >, seqan3::structure_file_input< traits_type_, selected_field_ids_, valid_formats_ >
• at_end_gracefully : seqan3::detail::view_take_until< urng_t, fun_t, or_throw, and_consume >::basic_consume_iterator< const_range >
• author : seqan3::argument_parser_meta_data
• auto_column_width() : seqan3::detail::debug_matrix< matrix_t, first_sequence_t, second_sequence_t >