76 constexpr dna3bs() noexcept = default;
105 ret[rank_to_char_table[rnk]] = rnk;
106 ret[
to_lower(rank_to_char_table[rnk])] = rnk;
110 ret[
'C'] = ret[
'T']; ret[
'c'] = ret[
't'];
111 ret[
'U'] = ret[
'T']; ret[
'u'] = ret[
't'];
114 ret[
'R'] = ret[
'A']; ret[
'r'] = ret[
'A'];
115 ret[
'Y'] = ret[
'T']; ret[
'y'] = ret[
'T'];
116 ret[
'S'] = ret[
'T']; ret[
's'] = ret[
'T'];
117 ret[
'W'] = ret[
'A']; ret[
'w'] = ret[
'A'];
118 ret[
'K'] = ret[
'G']; ret[
'k'] = ret[
'G'];
119 ret[
'M'] = ret[
'A']; ret[
'm'] = ret[
'A'];
120 ret[
'B'] = ret[
'T']; ret[
'b'] = ret[
'T'];
121 ret[
'D'] = ret[
'A']; ret[
'd'] = ret[
'A'];
122 ret[
'H'] = ret[
'A']; ret[
'h'] = ret[
'A'];
123 ret[
'V'] = ret[
'A']; ret[
'v'] = ret[
'A'];
140 return rank_complement_table[rank];
146 return rank_to_char_table[rank];
153 return char_to_rank_table[
static_cast<index_t
>(chr)];
171inline namespace literals
188constexpr dna3bs operator""_dna3bs(
char const c)
noexcept
207 for (
size_t i = 0; i < n; ++i)
208 r[i].assign_char(s[i]);
A CRTP-base that makes defining a custom alphabet easier.
Definition: alphabet_base.hpp:57
constexpr derived_type & assign_char(char_type const chr) noexcept
Assign from a character, implicitly converts invalid characters.
Definition: alphabet_base.hpp:165
detail::min_viable_uint_t< size - 1 > rank_type
The type of the alphabet when represented as a number (e.g. via to_rank()).
Definition: alphabet_base.hpp:80
static constexpr detail::min_viable_uint_t< size > alphabet_size
The size of the alphabet, i.e. the number of different values it can take.
Definition: alphabet_base.hpp:203
std::conditional_t< std::same_as< char_t, void >, char, char_t > char_type
The char representation; conditional needed to make semi alphabet definitions legal.
Definition: alphabet_base.hpp:72
The three letter reduced DNA alphabet for bisulfite sequencing mode (A,G,T(=C))..
Definition: dna3bs.hpp:61
constexpr dna3bs() noexcept=default
Defaulted.
A CRTP-base that refines seqan3::alphabet_base and is used by the nucleotides.
Definition: nucleotide_base.hpp:43
The main SeqAn3 namespace.
Definition: cigar_operation_table.hpp:2
constexpr char_type to_lower(char_type const c) noexcept
Converts 'A'-'Z' to 'a'-'z' respectively; other characters are returned as is.
Definition: transform.hpp:81
Provides seqan3::nucleotide_base.