27template <
typename field_types,
typename field_
ids>
40 using base_t::get_impl;
60 decltype(
auto)
id() &&
65 decltype(
auto)
id()
const &&
75 decltype(
auto)
id()
const &
424template <
typename field_types,
typename field_
ids>
425struct tuple_size<
seqan3::sam_record<field_types, field_ids>> :
426 tuple_size<typename seqan3::sam_record<field_types, field_ids>::base_type>
434template <
size_t elem_no,
typename field_types,
typename field_
ids>
435struct tuple_element<elem_no,
seqan3::sam_record<field_types, field_ids>> :
436 tuple_element<elem_no, typename seqan3::sam_record<field_types, field_ids>::base_type>
The record type of seqan3::sam_file_input.
Definition: sam_file/record.hpp:29
decltype(auto) reference_position() const &
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: sam_file/record.hpp:219
decltype(auto) header_ptr() const &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: sam_file/record.hpp:234
decltype(auto) flag() const &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: sam_file/record.hpp:267
SEQAN3_DEPRECATED_340 decltype(auto) alignment() &
[DEPRECATED] The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignm...
Definition: sam_file/record.hpp:165
decltype(auto) cigar_sequence() &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: sam_file/record.hpp:381
decltype(auto) mate_reference_id() &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: sam_file/record.hpp:279
decltype(auto) sequence_position() const &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: sam_file/record.hpp:150
decltype(auto) cigar_sequence() &&
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: sam_file/record.hpp:371
decltype(auto) reference_id() const &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: sam_file/record.hpp:180
decltype(auto) sequence_position() &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: sam_file/record.hpp:135
decltype(auto) base_qualities() const &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: sam_file/record.hpp:121
decltype(auto) header_ptr() &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: sam_file/record.hpp:229
decltype(auto) base_qualities() const &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: sam_file/record.hpp:111
decltype(auto) template_length() const &
The observed template length. (SAM Column ID: TLEN)
Definition: sam_file/record.hpp:340
decltype(auto) mate_reference_id() const &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: sam_file/record.hpp:284
decltype(auto) sequence() &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: sam_file/record.hpp:93
decltype(auto) mapping_quality() &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: sam_file/record.hpp:348
decltype(auto) reference_id() &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: sam_file/record.hpp:185
decltype(auto) sequence() const &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: sam_file/record.hpp:88
decltype(auto) reference_position() &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: sam_file/record.hpp:204
sam_record & operator=(sam_record &&)=default
Defaulted.
decltype(auto) template_length() const &&
The observed template length. (SAM Column ID: TLEN)
Definition: sam_file/record.hpp:330
decltype(auto) mate_position() &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: sam_file/record.hpp:312
sam_record(sam_record const &)=default
Defaulted.
decltype(auto) tags() const &
The optional tags in the SAM format.
Definition: sam_file/record.hpp:409
decltype(auto) reference_id() &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: sam_file/record.hpp:175
decltype(auto) flag() &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: sam_file/record.hpp:252
decltype(auto) tags() &
The optional tags in the SAM format.
Definition: sam_file/record.hpp:404
decltype(auto) flag() const &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: sam_file/record.hpp:257
decltype(auto) header_ptr() const &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: sam_file/record.hpp:244
decltype(auto) base_qualities() &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: sam_file/record.hpp:106
decltype(auto) mapping_quality() &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: sam_file/record.hpp:358
SEQAN3_DEPRECATED_340 decltype(auto) alignment() &&
[DEPRECATED] The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignm...
Definition: sam_file/record.hpp:159
decltype(auto) template_length() &
The observed template length. (SAM Column ID: TLEN)
Definition: sam_file/record.hpp:335
decltype(auto) tags() const &&
The optional tags in the SAM format.
Definition: sam_file/record.hpp:399
decltype(auto) tags() &&
The optional tags in the SAM format.
Definition: sam_file/record.hpp:394
decltype(auto) flag() &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: sam_file/record.hpp:262
decltype(auto) sequence_position() const &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: sam_file/record.hpp:140
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: sam_file/record.hpp:214
decltype(auto) cigar_sequence() const &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: sam_file/record.hpp:386
decltype(auto) reference_id() const &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: sam_file/record.hpp:190
decltype(auto) mate_position() &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: sam_file/record.hpp:302
decltype(auto) reference_sequence()=delete
The (reference) "sequence" information, usually a range of nucleotides or amino acids....
sam_record & operator=(sam_record const &)=default
Defaulted.
decltype(auto) cigar_sequence() const &&
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: sam_file/record.hpp:376
decltype(auto) sequence() const &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: sam_file/record.hpp:98
SEQAN3_DEPRECATED_340 decltype(auto) alignment() const &
[DEPRECATED] The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignm...
Definition: sam_file/record.hpp:168
SEQAN3_DEPRECATED_340 decltype(auto) alignment() const &&
[DEPRECATED] The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignm...
Definition: sam_file/record.hpp:162
decltype(auto) mate_position() const &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: sam_file/record.hpp:317
~sam_record()=default
Defaulted.
decltype(auto) header_ptr() &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: sam_file/record.hpp:239
decltype(auto) mate_position() const &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: sam_file/record.hpp:307
decltype(auto) mapping_quality() const &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: sam_file/record.hpp:363
decltype(auto) mate_reference_id() &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: sam_file/record.hpp:289
decltype(auto) mapping_quality() const &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: sam_file/record.hpp:353
decltype(auto) sequence() &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: sam_file/record.hpp:83
decltype(auto) sequence_position() &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: sam_file/record.hpp:145
decltype(auto) reference_position() const &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: sam_file/record.hpp:209
decltype(auto) base_qualities() &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: sam_file/record.hpp:116
decltype(auto) template_length() &&
The observed template length. (SAM Column ID: TLEN)
Definition: sam_file/record.hpp:325
decltype(auto) mate_reference_id() const &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: sam_file/record.hpp:294
The main SeqAn3 namespace.
Definition: aligned_sequence_concept.hpp:29
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:192
detail::transfer_template_args_onto_t< field_types, std::tuple > base_type
A specialisation of std::tuple.
Definition: record.hpp:217