SeqAn3
The Modern C++ library for Sequence Analysis in Bioinformatics.
Class Index
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  a  
Constructible (std)   Integral (std)   RandomAccessIterator (std)   StructureFileInputFormat (seqan3)   
constructible_from (seqan3::detail)   invalid_alignment_configuration (seqan3)   RandomAccessRange (std::ranges)   StructureFileOutputFormat (seqan3)   
aa20 (seqan3)   container_concept (seqan3)   invalid_char_assignment (seqan3)   Range (std::ranges)   substitution (seqan3::search_cfg)   
aa27 (seqan3)   ContiguousRange (std::ranges)   Invocable (std)   Readable (std)   Swappable (std)   
affine_gap_banded_init_policy (seqan3::detail)   ConvertibleTo (std)   is_aminoacid (seqan3)   aligned_allocator::rebind (seqan3)   SwappableWith (std)   
affine_gap_banded_policy (seqan3::detail)   ConvertibleToByMember (seqan3::detail)   is_aminoacid< aa20 > (seqan3)   record (seqan3)   
  t  
affine_gap_init_policy (seqan3::detail)   Copyable (std)   is_aminoacid< aa27 > (seqan3)   recursive_cartesian_components (seqan3::detail)   
affine_gap_policy (seqan3::detail)   CopyConstructible (std)   is_basic_string (seqan3::detail)   recursive_cartesian_components< t > (seqan3::detail)   take_fn (seqan3::detail)   
align_result (seqan3)   
  d  
is_basic_string< std::basic_string< value_t, traits_t, allocator_t > > (seqan3::detail)   reference (seqan3)   take_line_fn (seqan3::detail)   
align_result_selector (seqan3::detail)   is_builtin_simd (seqan3::detail)   reference< it_t > (seqan3)   take_until_fn (seqan3::detail)   
align_result_value_type (seqan3::detail)   view_translate_single::data_members_t (seqan3::detail)   is_char_adaptation (seqan3::detail)   reference< rng_t > (seqan3)   to_chars_result (std)   
aligned_allocator (seqan3)   view_translate::data_members_t (seqan3::detail)   is_char_adaptation< type_in_list > (seqan3::detail)   bitcompressed_vector::reference_proxy_type (seqan3)   too_few_arguments (seqan3)   
aligned_ends (seqan3::align_cfg)   debug_stream_type (seqan3)   is_char_type (seqan3::detail)   regex_validator< std::string > (seqan3)   too_many_arguments (seqan3)   
aligned_sequence_concept (seqan3)   deep (seqan3::view)   is_configuration_valid (seqan3::detail)   regex_validator< std::vector< std::string > > (seqan3)   total (seqan3::search_cfg)   
alignment_algorithm (seqan3::detail)   default_affine_init_traits (seqan3::detail)   is_in_alphabet_type (seqan3::detail)   Regular (std)   transfer_template_args_onto< source_template< source_arg_types... >, target_template > (seqan3::detail)   
alignment_configurator (seqan3::detail)   default_edit_distance_trait_type (seqan3::detail)   is_in_interval_type (seqan3::detail)   RegularInvocable (std)   transfer_template_vargs_onto< source_template< source_varg_types... >, target_template > (seqan3::detail)   
alignment_contract (seqan3::detail)   default_find_optimum_trait (seqan3::detail)   is_same_configuration_f (seqan3::detail)   Relation (std)   translation_table (seqan3::detail)   
alignment_coordinate (seqan3::detail)   default_validator (seqan3::detail)   is_type_specialisation_of (seqan3::detail)   required_option_missing (seqan3)   translation_table< dna15, seqan3::genetic_code::CANONICAL, void_type > (seqan3::detail)   
alignment_executor_two_way (seqan3::detail)   DefaultConstructible (std)   is_type_specialisation_of< source_t, target_template > (seqan3::detail)   reservable_container_concept (seqan3)   trim_fn (seqan3::detail)   
alignment_file_format_sam (seqan3)   deferred_crtp_base (seqan3::detail)   is_uint_adaptation (seqan3::detail)   result (seqan3::align_cfg)   Trivial (seqan3)   
alignment_file_header (seqan3)   trim_fn::delegate (seqan3::detail)   is_uint_adaptation< type_in_list > (seqan3::detail)   rna15 (seqan3)   TriviallyCopyable (seqan3)   
alignment_file_in_options (seqan3)   deletion (seqan3::search_cfg)   is_value_specialisation_of< source_t, target_template > (seqan3::detail)   rna4 (seqan3)   TriviallyDestructible (seqan3)   
alignment_file_output (seqan3)   DerivedFrom (std)   IStream (seqan3)   rna5 (seqan3)   tuple_element< elem_no, seqan3::record< field_types, field_ids > > (std)   
alignment_file_output_options (seqan3)   Destructible (std)   Iterator (std)   RnaStructureAlphabet (seqan3)   tuple_element< elem_no, seqan3::sequence_file_input< traits_type, selected_field_ids, valid_formats, stream_char_t > > (std)   
alignment_matrix_format (seqan3::detail)   difference_type (seqan3)   view_take::iterator_type (seqan3::detail)   row_wise_matrix (seqan3::detail)   tuple_element< elem_no, seqan3::structure_file_in< traits_type, selected_field_ids, valid_formats, stream_char_t > > (std)   
alignment_matrix_formatter (seqan3::detail)   difference_type< it_t > (seqan3)   view_take_line::iterator_type (seqan3::detail)   rvalue_reference (seqan3)   tuple_element< i, tuple_t > (std)   
alignment_range (seqan3)   difference_type< rng_t > (seqan3)   view_take_until::iterator_type (seqan3::detail)   rvalue_reference< it_t > (seqan3)   tuple_element< pos, seqan3::configuration< configs_t... > > (std)   
alignment_score_matrix (seqan3::detail)   dna15 (seqan3)   alignment_range::iterator_type (seqan3)   rvalue_reference< rng_t > (seqan3)   tuple_get_concept (seqan3::detail)   
alignment_score_matrix< std::vector< score_t > > (seqan3::detail)   dna4 (seqan3)   
  k  
  s  
tuple_like_concept (seqan3)   
alignment_trace_matrix (seqan3::detail)   dna5 (seqan3)   tuple_size< seqan3::configuration< configs_t... > > (std)   
alignment_trace_matrix< database_type, query_type, align_config_type, alignment_score_matrix< score_matrix_params_t... > > (seqan3::detail)   dot_bracket3 (seqan3)   kmer_hash_fn (seqan3::detail)   sam_tag_dictionary (seqan3)   tuple_size< seqan3::record< field_types, field_ids > > (std)   
alignment_trace_matrix< std::vector< trace_directions > > (seqan3::detail)   dssp9 (seqan3)   
  l  
sam_tag_type (seqan3)   tuple_size< seqan3::sequence_file_input< traits_type, selected_field_ids, valid_formats, stream_char_t > > (std)   
AlignmentFileOutputFormat (seqan3)   
  e  
Same (std)   tuple_size< seqan3::structure_file_in< traits_type, selected_field_ids, valid_formats, stream_char_t > > (std)   
Alphabet (seqan3)   lower_bound (seqan3)   scoring (seqan3::align_cfg)   tuple_size< tuple_t > (std)   
alphabet_base (seqan3)   edit_distance_wrapper (seqan3::detail)   
  m  
scoring_scheme_base (seqan3)   tuple_size_concept (seqan3::detail)   
alphabet_base< derived_type, 1ul, char_t > (seqan3)   end_gaps (seqan3::align_cfg)   scoring_scheme_concept (seqan3)   tuple_type_list (seqan3::detail)   
alphabet_proxy (seqan3)   EqualityComparable (std)   mask (seqan3)   SdslIndex (seqan3::detail)   type_conversion_failed (seqan3)   
alphabet_size (seqan3)   EqualityComparableWith (std)   masked (seqan3)   search (seqan3::detail)   type_identity (std)   
alphabet_size< alphabet_type & > (seqan3)   execution_handler_sequential (seqan3::detail)   match_score (seqan3)   search_dyn (seqan3::detail)   type_in_pack (seqan3::detail)   
alphabet_size< alphabet_type && > (seqan3)   ExplicitlyConvertibleTo (seqan3)   matrix_concept (seqan3::detail)   search_mode_all (seqan3::detail)   
  u  
alphabet_size< alphabet_type_with_members > (seqan3)   
  f  
max_error (seqan3::search_cfg)   search_mode_all_best (seqan3::detail)   
alphabet_size< char_type > (seqan3)   max_error (seqan3::align_cfg)   search_mode_best (seqan3::detail)   uint_adaptation_concept (seqan3)   
alphabet_size< uint_type > (seqan3)   fields (seqan3)   max_error_rate (seqan3::search_cfg)   search_output_index_cursor (seqan3::detail)   unbanded_dp_matrix_policy (seqan3::detail)   
aminoacid_base (seqan3)   file_existance_validator (seqan3)   max_pseudoknot_depth (seqan3)   search_output_text_position (seqan3::detail)   underlying_char (seqan3)   
aminoacid_scoring_scheme (seqan3)   file_ext_validator (seqan3)   max_pseudoknot_depth< alphabet_type_with_pseudoknot_attribute > (seqan3)   search_param (seqan3::detail)   underlying_char< alphabet_type & > (seqan3)   
AminoacidAlphabet (seqan3)   file_open_error (seqan3)   max_pseudoknot_depth< structure_type >   second_seq_leading (seqan3::align_cfg)   underlying_char< alphabet_type && > (seqan3)   
argument_parser (seqan3)   find_optimum_policy (seqan3::detail)   mismatch_score (seqan3)   second_seq_trailing (seqan3::align_cfg)   underlying_char< alphabet_type_with_members > (seqan3)   
argument_parser_meta_data (seqan3)   first_seq_leading (seqan3::align_cfg)   mode (seqan3::search_cfg)   alignment_configurator::select_gap_init_policy (seqan3::detail)   underlying_char< char_type > (seqan3)   
Arithmetic (seqan3)   first_seq_trailing (seqan3::align_cfg)   mode (seqan3::align_cfg)   alignment_configurator::select_gap_policy (seqan3::detail)   underlying_char< uint_type > (seqan3)   
arithmetic_range_validator< option_value_type > (seqan3)   FloatingPoint (seqan3)   models_strict_totally_ordered (seqan3::detail)   alignment_configurator::select_matrix_policy (seqan3::detail)   underlying_phred (seqan3)   
Assignable (std)   fm_index (seqan3)   Movable (std)   select_types_with_ids (seqan3::detail)   underlying_phred< alphabet_with_member_type > (seqan3)   
assignable_from (seqan3::detail)   fm_index_cursor (seqan3)   MoveConstructible (std)   Semialphabet (seqan3)   underlying_rank (seqan3)   
pipable_adaptor_base::auxiliary_functor_t (seqan3::detail)   fm_index_cursor_node (seqan3::detail)   
  n  
Semiregular (std)   underlying_rank< alphabet_type_with_members > (seqan3)   
  b  
fm_index_default_traits (seqan3)   Sentinel (std)   underlying_rank< char_type > (seqan3)   
FmIndex (seqan3)   nucleotide_base (seqan3)   seq_end_gap_base (seqan3::align_cfg)   underlying_rank< semi_alphabet_type & > (seqan3)   
band (seqan3::align_cfg)   FmIndexCursor (seqan3)   nucleotide_scoring_scheme (seqan3)   sequence_container_concept (seqan3)   underlying_rank< semi_alphabet_type && > (seqan3)   
banded_score_dp_matrix_policy (seqan3::detail)   FmIndexTraits (seqan3)   NucleotideAlphabet (seqan3)   sequence_container_concept_modified_by_const_iterator (seqan3::detail)   underlying_rank< uint_type > (seqan3)   
bi_fm_index (seqan3)   format_base (seqan3::detail)   
  o  
sequence_file_format_fasta (seqan3)   unexpected_end_of_input (seqan3)   
bi_fm_index_cursor (seqan3)   format_error (seqan3)   sequence_file_format_fastq (seqan3)   unhandled_extension_error (seqan3)   
bi_fm_index_default_traits (seqan3)   format_help (seqan3::detail)   option_declared_multiple_times (seqan3)   sequence_file_input (seqan3)   union_composition (seqan3)   
BidirectionalIterator (std)   format_html (seqan3::detail)   OStream (seqan3)   sequence_file_input_default_traits_aa (seqan3)   unknown_option (seqan3)   
BidirectionalRange (std::ranges)   format_man (seqan3::detail)   out_file_iterator (seqan3::detail)   sequence_file_input_default_traits_dna (seqan3)   UnsignedIntegral (std)   
BiFmIndex (seqan3)   format_parse (seqan3::detail)   output (seqan3::search_cfg)   sequence_file_input_options (seqan3)   upper_bound (seqan3)   
BiFmIndexCursor (seqan3)   format_short_help (seqan3::detail)   OutputIterator (std)   sequence_file_output (seqan3)   
  v  
BiFmIndexTraits (seqan3)   format_version (seqan3::detail)   OutputRange (std::ranges)   sequence_file_output_options (seqan3)   
bitcompressed_vector (seqan3)   ForwardIterator (std)   overflow_error_on_conversion (seqan3)   SequenceFileInputFormat (seqan3)   validation_failed (seqan3)   
Boolean (std)   ForwardRange (std::ranges)   
  p  
SequenceFileInputTraits (seqan3)   validator_chain_adaptor (seqan3::detail)   
builtin_simd (seqan3::detail)   from_chars_result (std)   SequenceFileOutputFormat (seqan3)   validator_concept (seqan3)   
builtin_simd< scalar_t, length > (seqan3::detail)   
  g  
pairwise_alignment_edit_distance_unbanded (seqan3::detail)   SignedIntegral (std)   value_list_validator (seqan3)   
builtin_simd_traits_helper (seqan3::detail)   parse_asserter (seqan3)   simd_concept (seqan3::simd)   value_list_validator< option_value_type > (seqan3)   
builtin_simd_traits_helper< builtin_simd_t > (seqan3::detail)   gap (seqan3::align_cfg)   parse_condition_base (seqan3::detail)   simd_traits (seqan3::simd)   value_type (seqan3)   
  c  
gap (seqan3)   parse_condition_combiner (seqan3::detail)   simd_traits< builtin_simd_t > (seqan3::simd)   value_type< it_t > (seqan3)   
gap_decorator_anchor_set (seqan3)   parse_condition_negator (seqan3::detail)   simd_type (seqan3::simd)   value_type< rng_t > (seqan3)   
cartesian_components (seqan3::detail)   gap_decorator_anchor_set::gap_decorator_anchor_set_iterator (seqan3)   parse_error (seqan3)   single_pass_input_iterator (seqan3::detail)   View (std::ranges)   
cartesian_components< t > (seqan3::detail)   gap_erase_failure (seqan3)   ParseCondition (seqan3::detail)   single_pass_input_iterator< single_pass_input_view< view_type > > (seqan3::detail)   view_base (seqan3::detail)   
cartesian_composition (seqan3)   gap_open_score (seqan3)   parser_design_error (seqan3)   single_pass_input_view (seqan3::detail)   view_persist (seqan3::detail)   
cartesian_composition_concept (seqan3::detail)   gap_scheme (seqan3)   parser_interruption (seqan3)   size_type (seqan3)   single_pass_input_view::view_state (seqan3::detail)   
cereal_text_archive_concept (seqan3)   gap_scheme_concept (seqan3)   parser_invalid_argument (seqan3)   size_type< it_t > (seqan3)   view_take (seqan3::detail)   
CerealArchive (seqan3)   gap_score (seqan3)   persist_fn (seqan3::detail)   size_type< rng_t > (seqan3)   view_take_line (seqan3::detail)   
CerealInputArchive (seqan3)   generic_pipable_view_adaptor (seqan3::detail)   phred42 (seqan3)   SizedRange (std::ranges)   view_take_until (seqan3::detail)   
Cerealisable (seqan3)   get_display_name (seqan3::detail)   phred63 (seqan3)   SizedSentinel (std)   view_translate (seqan3::detail)   
CerealOutputArchive (seqan3)   get_display_name_size (seqan3::detail)   phred68legacy (seqan3)   StandardLayout (seqan3)   view_translate_single (seqan3::detail)   
char_adaptation_concept (seqan3)   global_alignment_type (seqan3::detail)   pipable_adaptor_base (seqan3::detail)   pairwise_alignment_edit_distance_unbanded::state_type (seqan3::detail)   ViewableRange (std::ranges)   
char_concept (seqan3)   
  h  
pipeable_config_element (seqan3)   static_band (seqan3)   
  w  
Common (std)   plain_byte_alphabet (sdsl)   strata (seqan3::search_cfg)   
CommonRange (std::ranges)   hash< alphabet_t > (std)   pod_tuple (seqan3)   Stream (seqan3)   weakly_equality_comparable_with (seqan3::detail)   
CommonReference (std)   hash< urng_t > (std)   pod_tuple< type0 > (seqan3)   StrictTotallyOrdered (std)   weakly_ordered_with (seqan3::detail)   
compatible_concept (seqan3)   
  i  
pod_tuple< type0, types... > (seqan3)   StrictTotallyOrderedWith (std)   WeaklyAssignable (seqan3)   
cartesian_composition::component_proxy (seqan3)   Predicate (std)   StrictWeakOrder (std)   WeaklyEqualityComparableByMembersWith (seqan3::detail)   
concatenated_sequences (seqan3)   ignore_output_iterator (seqan3::detail)   alignment_file_header::program_info_t (seqan3)   strong_type (seqan3::detail)   WeaklyEqualityComparableWith (std::detail)   
ConfigElement (seqan3::detail)   implicitly_convertible_from (seqan3::detail)   
  q  
structure_file_format_vienna (seqan3)   WeaklyIncrementable (std)   
configuration (seqan3)   ImplicitlyConvertibleTo (seqan3)   structure_file_in (seqan3)   WeaklyOrderedByMembersWith (seqan3::detail)   
format_help::console_layout_struct (seqan3::detail)   in_file_iterator (seqan3::detail)   qualified (seqan3)   structure_file_input_default_traits_aa (seqan3)   WeaklyOrderedWith (seqan3)   
const_iterable_concept (seqan3)   Incrementable (std)   quality_base (seqan3)   structure_file_input_default_traits_rna (seqan3)   with_begin_position_type (seqan3::detail)   
const_reference (seqan3)   incrementable_traits (std)   QualityAlphabet (seqan3)   structure_file_input_options (seqan3)   with_end_position_type (seqan3::detail)   
const_reference< rng_t > (seqan3)   inherited_iterator_base (seqan3::detail)   
  r  
structure_file_input_traits_concept (seqan3)   with_score_type (seqan3::detail)   
constexpr_pseudo_bitset (seqan3::detail)   innermost_value_type (seqan3)   structure_file_out (seqan3)   with_trace_type (seqan3::detail)   
constexpr_string (seqan3)   InputIterator (std)   random_access_container_concept (seqan3)   structure_file_output_options (seqan3)   Writable (std)   
ConstexprAlphabet (seqan3::detail)   InputRange (std::ranges)   random_access_iterator (seqan3::detail)   structured_aa (seqan3)   wuss (seqan3)   
ConstexprSemialphabet (seqan3::detail)   insertion (seqan3::search_cfg)   random_access_iterator_base (seqan3::detail)   structured_rna (seqan3)   
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