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 &
431template <
typename field_types,
typename field_
ids>
432struct tuple_size<
seqan3::sam_record<field_types, field_ids>> :
433 tuple_size<typename seqan3::sam_record<field_types, field_ids>::base_type>
441template <
size_t elem_no,
typename field_types,
typename field_
ids>
442struct tuple_element<elem_no,
seqan3::sam_record<field_types, field_ids>> :
443 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:226
decltype(auto) header_ptr() const &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:241
decltype(auto) flag() const &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:274
decltype(auto) cigar_sequence() &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:388
decltype(auto) mate_reference_id() &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:286
decltype(auto) sequence_position() const &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:150
decltype(auto) cigar_sequence() &&
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:378
decltype(auto) reference_id() const &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:187
decltype(auto) sequence_position() &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:135
decltype(auto) base_qualities() const &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:121
decltype(auto) header_ptr() &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:236
decltype(auto) base_qualities() const &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:111
decltype(auto) template_length() const &
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:347
decltype(auto) mate_reference_id() const &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:291
decltype(auto) sequence() &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:93
decltype(auto) mapping_quality() &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:355
decltype(auto) reference_id() &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:192
decltype(auto) sequence() const &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:88
decltype(auto) reference_position() &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:211
sam_record & operator=(sam_record &&)=default
Defaulted.
decltype(auto) template_length() const &&
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:337
decltype(auto) mate_position() &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:319
sam_record(sam_record const &)=default
Defaulted.
decltype(auto) tags() const &
The optional tags in the SAM format.
Definition: record.hpp:416
decltype(auto) reference_id() &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:182
decltype(auto) flag() &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:259
decltype(auto) tags() &
The optional tags in the SAM format.
Definition: record.hpp:411
decltype(auto) flag() const &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:264
decltype(auto) header_ptr() const &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:251
decltype(auto) base_qualities() &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:106
decltype(auto) mapping_quality() &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:365
decltype(auto) template_length() &
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:342
decltype(auto) tags() const &&
The optional tags in the SAM format.
Definition: record.hpp:406
decltype(auto) tags() &&
The optional tags in the SAM format.
Definition: record.hpp:401
decltype(auto) flag() &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:269
decltype(auto) sequence_position() const &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: 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: record.hpp:221
decltype(auto) cigar_sequence() const &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:393
decltype(auto) reference_id() const &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:197
decltype(auto) alignment() const &&
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:163
decltype(auto) mate_position() &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:309
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:168
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:383
decltype(auto) sequence() const &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:98
decltype(auto) mate_position() const &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:324
~sam_record()=default
Defaulted.
decltype(auto) header_ptr() &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:246
decltype(auto) mate_position() const &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:314
decltype(auto) mapping_quality() const &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:370
decltype(auto) alignment() const &
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:173
decltype(auto) mate_reference_id() &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:296
decltype(auto) alignment() &&
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:158
decltype(auto) mapping_quality() const &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:360
decltype(auto) sequence() &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:83
decltype(auto) sequence_position() &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:145
decltype(auto) reference_position() const &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:216
decltype(auto) base_qualities() &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:116
decltype(auto) template_length() &&
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:332
decltype(auto) mate_reference_id() const &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:301
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