seqan3::sequence_file_input_default_traits_aa Struct Reference

A traits type that specifies input as amino acids. More...

#include <seqan3/io/sequence_file/input.hpp>

Inheritance diagram for seqan3::sequence_file_input_default_traits_aa:

Public Types
Member types
Definitions to satisfy seqan3::sequence_file_input_traits.
using	sequence_alphabet = aa27
	The sequence alphabet is seqan3::aa27.
using	sequence_legal_alphabet = aa27
	The legal sequence alphabet for parsing is seqan3::aa27.
Public Types inherited from seqan3::sequence_file_input_default_traits_dna
using	sequence_alphabet = dna5
	The sequence alphabet is seqan3::dna5.
using	sequence_legal_alphabet = dna15
	The legal sequence alphabet for parsing is seqan3::dna15.
template<typename _sequence_alphabet>
using	sequence_container = std::vector<_sequence_alphabet>
	The type of a DNA sequence is std::vector.
using	id_alphabet = char
	The alphabet for an identifier string is char.
template<typename _id_alphabet>
using	id_container = std::basic_string<_id_alphabet>
	The string type for an identifier is std::basic_string.
using	quality_alphabet = phred42
	The alphabet for a quality annotation is seqan3::phred42.
template<typename _quality_alphabet>
using	quality_container = std::vector<_quality_alphabet>
	The string type for a quality annotation is std::vector.

Additional Inherited Members
Related Symbols inherited from sequence_file_input_traits
using	sequence_alphabet
	Alphabet of the characters for the seqan3::field::seq; must satisfy seqan3::alphabet.
using	sequence_legal_alphabet
	Intermediate alphabet for seqan3::field::seq; must satisfy seqan3::alphabet and be either convertible to sequence_alphabet or a character type.
using	sequence_container
	Type template of the seqan3::field::seq, a container template over sequence_alphabet; must satisfy seqan3::sequence_container.
using	id_alphabet
	Alphabet of the characters for the seqan3::field::id; must satisfy seqan3::alphabet.
using	id_container
	Type template of the seqan3::field::id, a container template over id_alphabet; must satisfy seqan3::sequence_container.
using	quality_alphabet
	Alphabet of the characters for the seqan3::field::qual; must satisfy seqan3::writable_quality_alphabet.
using	quality_container
	Type template of the seqan3::field::qual, a container template over quality_alphabet; must satisfy seqan3::sequence_container.

Detailed Description

A traits type that specifies input as amino acids.

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The documentation for this struct was generated from the following file:

• sequence_file/input.hpp