The five letter RNA alphabet of A,C,G,U and the unknown character N. More...
#include <seqan3/alphabet/nucleotide/rna5.hpp>
Public Member Functions | |
Constructors, destructor and assignment | |
constexpr | rna5 () noexcept=default |
Defaulted. | |
constexpr | rna5 (rna5 const &) noexcept=default |
Defaulted. | |
constexpr | rna5 (rna5 &&) noexcept=default |
Defaulted. | |
constexpr rna5 & | operator= (rna5 const &) noexcept=default |
Defaulted. | |
constexpr rna5 & | operator= (rna5 &&) noexcept=default |
Defaulted. | |
~rna5 () noexcept=default | |
Defaulted. | |
constexpr | rna5 (dna5 const &r) noexcept |
Allow implicit construction from dna/rna of the same size. | |
Public Member Functions inherited from seqan3::nucleotide_base< rna5, 5 > | |
constexpr rna5 | complement () const noexcept |
Return the complement of the letter. More... | |
constexpr | nucleotide_base (other_nucl_type const &other) noexcept |
Allow explicit construction from any other nucleotide type and convert via the character representation. | |
Public Member Functions inherited from seqan3::alphabet_base< derived_type, size, char_t > | |
constexpr | alphabet_base () noexcept=default |
Defaulted. | |
constexpr | alphabet_base (alphabet_base const &) noexcept=default |
Defaulted. | |
constexpr | alphabet_base (alphabet_base &&) noexcept=default |
Defaulted. | |
constexpr alphabet_base & | operator= (alphabet_base const &) noexcept=default |
Defaulted. | |
constexpr alphabet_base & | operator= (alphabet_base &&) noexcept=default |
Defaulted. | |
~alphabet_base () noexcept=default | |
Defaulted. | |
constexpr char_type | to_char () const noexcept |
Return the letter as a character of char_type. More... | |
constexpr rank_type | to_rank () const noexcept |
Return the letter's numeric value (rank in the alphabet). More... | |
constexpr derived_type & | assign_char (char_type const c) noexcept |
Assign from a character, implicitly converts invalid characters. More... | |
constexpr derived_type & | assign_rank (rank_type const c) noexcept |
Assign from a numeric value. More... | |
Private Types | |
using | base_t = nucleotide_base< rna5, 5 > |
The base class. | |
Private Attributes | |
friend | base_t |
Befriend nucleotide_base. | |
Static Private Attributes | |
static constexpr std::array< rank_type, 256 > | char_to_rank = dna5::char_to_rank |
Char to value conversion table. More... | |
static const std::array< rna5, alphabet_size > | complement_table |
The complement table. More... | |
static constexpr char_type | rank_to_char [alphabet_size] |
Value to char conversion table. More... | |
Related Functions | |
(Note that these are not member functions.) | |
using | rna5_vector = std::vector< rna5 > |
Alias for an std::vector of seqan3::rna5. | |
Literals | |
constexpr rna5 | operator""_rna5 (char const c) noexcept |
The seqan3::rna5 char literal. More... | |
rna5_vector | operator""_rna5 (char const *s, std::size_t n) |
The seqan3::rna5 string literal. More... | |
Related Functions inherited from semialphabet | |
template<cereal_output_archive archive_t, semialphabet alphabet_t> | |
alphabet_rank_t< alphabet_t > | save_minimal (archive_t const &, alphabet_t const &l) |
Save an alphabet letter to stream. More... | |
Additional Inherited Members | |
Static Public Member Functions inherited from seqan3::nucleotide_base< rna5, 5 > | |
static constexpr bool | char_is_valid (char_type const c) noexcept |
Validate whether a character value has a one-to-one mapping to an alphabet value. More... | |
Static Public Attributes inherited from seqan3::alphabet_base< derived_type, size, char_t > | |
static constexpr detail::min_viable_uint_t< size > | alphabet_size = size |
The size of the alphabet, i.e. the number of different values it can take. More... | |
Protected Types inherited from seqan3::alphabet_base< derived_type, size, char_t > | |
using | char_type = std::conditional_t< std::same_as< char_t, void >, char, char_t > |
The char representation; conditional needed to make semi alphabet definitions legal. More... | |
using | rank_type = detail::min_viable_uint_t< size - 1 > |
The type of the alphabet when represented as a number (e.g. via to_rank()). More... | |
The five letter RNA alphabet of A,C,G,U and the unknown character N.
This alphabet has the same internal representation as seqan3::dna5, the only difference is that it prints 'U' on character conversion instead of 'T'. You can assign between values of seqan3::dna5 and seqan3::rna5.
Like most alphabets, this alphabet cannot be initialised directly from its character representation. Instead initialise/assign from the character literal or use the function seqan3::rna5::assign_char().
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related |
The seqan3::rna5 string literal.
You can use this string literal to easily assign to rna5_vector:
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related |
The seqan3::rna5 char literal.
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staticconstexprprivate |
Char to value conversion table.
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staticconstexprprivate |
The complement table.
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staticconstexprprivate |
Value to char conversion table.