SeqAn3 3.1.0
The Modern C++ library for sequence analysis.
phred68solexa.hpp
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1// -----------------------------------------------------------------------------------------------------
2// Copyright (c) 2006-2021, Knut Reinert & Freie Universität Berlin
3// Copyright (c) 2016-2021, Knut Reinert & MPI für molekulare Genetik
4// This file may be used, modified and/or redistributed under the terms of the 3-clause BSD-License
5// shipped with this file and also available at: https://github.com/seqan/seqan3/blob/master/LICENSE.md
6// -----------------------------------------------------------------------------------------------------
7
13#pragma once
14
16
17namespace seqan3
18{
19
39class phred68solexa : public phred_base<phred68solexa, 68>
40{
41private:
44
46 friend base_t;
48 friend base_t::base_t;
50
51public:
55 constexpr phred68solexa() noexcept = default;
56 constexpr phred68solexa(phred68solexa const &) noexcept = default;
57 constexpr phred68solexa(phred68solexa &&) noexcept = default;
58 constexpr phred68solexa & operator=(phred68solexa const &) noexcept = default;
59 constexpr phred68solexa & operator=(phred68solexa &&) noexcept = default;
60 ~phred68solexa() noexcept = default;
61
62 // Inherit converting constructor
63 using base_t::base_t;
65
73 static constexpr phred_type offset_phred{-5};
74
79 static constexpr char_type offset_char{';'};
81};
82
83inline namespace literals
84{
85
99constexpr phred68solexa operator""_phred68solexa(char const c) noexcept
100{
101 return phred68solexa{}.assign_char(c);
102}
103
115inline std::vector<phred68solexa> operator""_phred68solexa(char const * s, std::size_t n)
116{
118 r.resize(n);
119
120 for (size_t i = 0; i < n; ++i)
121 r[i].assign_char(s[i]);
122
123 return r;
124}
126
127} // inline namespace literals
128
129} // namespace seqan3
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
Quality type for Solexa and deprecated Illumina formats..
Definition: phred68solexa.hpp:40
static constexpr phred_type offset_phred
The projection offset between Phred and rank score representation.
Definition: phred68solexa.hpp:73
static constexpr char_type offset_char
The projection offset between char and rank score representation.
Definition: phred68solexa.hpp:79
constexpr phred68solexa() noexcept=default
Defaulted.
A CRTP-base that refines seqan3::alphabet_base and is used by the quality alphabets.
Definition: phred_base.hpp:31
int8_t phred_type
The integer representation of the quality score.
Definition: phred_base.hpp:40
The main SeqAn3 namespace.
Definition: cigar_operation_table.hpp:2
Provides seqan3::phred42 quality scores.
T resize(T... args)