27template <
typename field_types,
typename field_
ids>
40 using base_t::get_impl;
59 decltype(
auto)
id() &&
64 decltype(
auto)
id()
const &&
74 decltype(
auto)
id()
const &
430template <
typename field_types,
typename field_
ids>
431struct tuple_size<
seqan3::sam_record<field_types, field_ids>>
432 : tuple_size<typename seqan3::sam_record<field_types, field_ids>::base_type>
440template <
size_t elem_no,
typename field_types,
typename field_
ids>
441struct tuple_element<elem_no,
seqan3::sam_record<field_types, field_ids>>
442 : tuple_element<elem_no, typename seqan3::sam_record<field_types, field_ids>::base_type>
The record type of seqan3::sam_file_input.
Definition: record.hpp:29
decltype(auto) reference_position() const &
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:225
decltype(auto) header_ptr() const &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:240
decltype(auto) flag() const &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:273
decltype(auto) cigar_sequence() &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:387
decltype(auto) mate_reference_id() &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:285
decltype(auto) sequence_position() const &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:149
decltype(auto) cigar_sequence() &&
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:377
decltype(auto) reference_id() const &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:186
decltype(auto) sequence_position() &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:134
decltype(auto) base_qualities() const &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:120
decltype(auto) header_ptr() &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:235
decltype(auto) base_qualities() const &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:110
decltype(auto) template_length() const &
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:346
decltype(auto) mate_reference_id() const &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:290
decltype(auto) sequence() &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:92
decltype(auto) mapping_quality() &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:354
decltype(auto) reference_id() &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:191
decltype(auto) sequence() const &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:87
decltype(auto) reference_position() &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:210
sam_record & operator=(sam_record &&)=default
Defaulted.
decltype(auto) template_length() const &&
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:336
decltype(auto) mate_position() &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:318
sam_record(sam_record const &)=default
Defaulted.
decltype(auto) tags() const &
The optional tags in the SAM format.
Definition: record.hpp:415
decltype(auto) reference_id() &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:181
decltype(auto) flag() &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:258
decltype(auto) tags() &
The optional tags in the SAM format.
Definition: record.hpp:410
decltype(auto) flag() const &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:263
decltype(auto) header_ptr() const &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:250
decltype(auto) base_qualities() &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:105
decltype(auto) mapping_quality() &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:364
decltype(auto) template_length() &
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:341
decltype(auto) tags() const &&
The optional tags in the SAM format.
Definition: record.hpp:405
decltype(auto) tags() &&
The optional tags in the SAM format.
Definition: record.hpp:400
decltype(auto) flag() &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:268
decltype(auto) sequence_position() const &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:139
sam_record()=default
Defaulted.
sam_record(sam_record &&)=default
Defaulted.
decltype(auto) reference_position() &
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:220
decltype(auto) cigar_sequence() const &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:392
decltype(auto) reference_id() const &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:196
decltype(auto) alignment() const &&
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:162
decltype(auto) mate_position() &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:308
decltype(auto) reference_sequence()=delete
The (reference) "sequence" information, usually a range of nucleotides or amino acids....
decltype(auto) alignment() &
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:167
sam_record & operator=(sam_record const &)=default
Defaulted.
decltype(auto) cigar_sequence() const &&
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:382
decltype(auto) sequence() const &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:97
decltype(auto) mate_position() const &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:323
~sam_record()=default
Defaulted.
decltype(auto) header_ptr() &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:245
decltype(auto) mate_position() const &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:313
decltype(auto) mapping_quality() const &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:369
decltype(auto) alignment() const &
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:172
decltype(auto) mate_reference_id() &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:295
decltype(auto) alignment() &&
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:157
decltype(auto) mapping_quality() const &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:359
decltype(auto) sequence() &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:82
decltype(auto) sequence_position() &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:144
decltype(auto) reference_position() const &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:215
decltype(auto) base_qualities() &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:115
decltype(auto) template_length() &&
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:331
decltype(auto) mate_reference_id() const &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:300
The main SeqAn3 namespace.
Definition: cigar_operation_table.hpp:2
SeqAn specific customisations in the standard namespace.
Provides the seqan3::record template and the seqan3::field enum.
The class template that file records are based on; behaves like a std::tuple.
Definition: record.hpp:191
detail::transfer_template_args_onto_t< field_types, std::tuple > base_type
A specialisation of std::tuple.
Definition: record.hpp:215