25template <
typename field_types,
typename field_
ids>
57 decltype(
auto)
id() &&
62 decltype(
auto)
id()
const &&
72 decltype(
auto)
id()
const &
428template <
typename field_types,
typename field_
ids>
430 :
tuple_size<typename seqan3::sam_record<field_types, field_ids>::base_type>
438template <
size_t elem_no,
typename field_types,
typename field_
ids>
439struct tuple_element<elem_no,
seqan3::sam_record<field_types, field_ids>>
440 : tuple_element<elem_no, typename seqan3::sam_record<field_types, field_ids>::base_type>
The record type of seqan3::alignment_file_input.
Definition: record.hpp:27
decltype(auto) reference_position() const &
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:223
decltype(auto) header_ptr() const &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:238
decltype(auto) flag() const &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:271
decltype(auto) cigar_sequence() &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:385
decltype(auto) mate_reference_id() &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:283
decltype(auto) sequence_position() const &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:147
decltype(auto) cigar_sequence() &&
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:375
decltype(auto) reference_id() const &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:184
decltype(auto) sequence_position() &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:132
decltype(auto) base_qualities() const &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:118
decltype(auto) header_ptr() &&
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:233
decltype(auto) base_qualities() const &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:108
decltype(auto) template_length() const &
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:344
decltype(auto) mate_reference_id() const &&
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:288
decltype(auto) sequence() &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:90
decltype(auto) mapping_quality() &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:352
decltype(auto) reference_id() &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:189
decltype(auto) sequence() const &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:85
decltype(auto) reference_position() &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:208
sam_record & operator=(sam_record &&)=default
Defaulted.
decltype(auto) template_length() const &&
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:334
decltype(auto) mate_position() &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:316
sam_record(sam_record const &)=default
Defaulted.
decltype(auto) tags() const &
The optional tags in the SAM format.
Definition: record.hpp:413
decltype(auto) reference_id() &&
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:179
decltype(auto) flag() &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:256
decltype(auto) tags() &
The optional tags in the SAM format.
Definition: record.hpp:408
decltype(auto) flag() const &&
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:261
decltype(auto) header_ptr() const &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:248
decltype(auto) base_qualities() &&
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:103
typename base_t::base_type tuple_base_t
The underlying std::tuple class.
Definition: record.hpp:32
decltype(auto) mapping_quality() &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:362
decltype(auto) template_length() &
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:339
decltype(auto) tags() const &&
The optional tags in the SAM format.
Definition: record.hpp:403
decltype(auto) tags() &&
The optional tags in the SAM format.
Definition: record.hpp:398
decltype(auto) flag() &
The alignment flag (bit information), uint16_t value. (SAM Column ID: FLAG)
Definition: record.hpp:266
decltype(auto) sequence_position() const &&
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:137
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:218
decltype(auto) cigar_sequence() const &
The cigar vector representing the alignment. (SAM Column ID: CIGAR)
Definition: record.hpp:390
decltype(auto) reference_id() const &
The identifier of the (reference) sequence that seqan3::sam_record::sequence was aligned to....
Definition: record.hpp:194
decltype(auto) alignment() const &&
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:160
decltype(auto) mate_position() &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:306
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:165
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:380
decltype(auto) sequence() const &
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:95
decltype(auto) mate_position() const &
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:321
~sam_record()=default
Defaulted.
decltype(auto) header_ptr() &
A pointer to the seqan3::sam_file_header object storing header information.
Definition: record.hpp:243
decltype(auto) mate_position() const &&
(Reference) Sequence relative start position (0-based) of the mate. (SAM Column ID: PNEXT)
Definition: record.hpp:311
decltype(auto) mapping_quality() const &
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:367
decltype(auto) alignment() const &
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:170
decltype(auto) mate_reference_id() &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:293
decltype(auto) alignment() &&
The (pairwise) alignment stored in an object that models seqan3::detail::pairwise_alignment.
Definition: record.hpp:155
decltype(auto) mapping_quality() const &&
The mapping quality of the alignment, usually a Phred-scaled score. (SAM Column ID: MAPQ)
Definition: record.hpp:357
decltype(auto) sequence() &&
The "sequence", usually a range of nucleotides or amino acids. (SAM Column ID: SEQ)
Definition: record.hpp:80
decltype(auto) sequence_position() &
Sequence (seqan3::sam_record::sequence) relative start position (0-based), unsigned value....
Definition: record.hpp:142
decltype(auto) reference_position() const &&
(Reference) Sequence (seqan3::sam_record::reference_sequence) relative start position (0-based),...
Definition: record.hpp:213
decltype(auto) base_qualities() &
The qualities, usually in Phred score notation. (SAM Column ID: QUAL)
Definition: record.hpp:113
decltype(auto) template_length() &&
The observed template length. (SAM Column ID: TLEN)
Definition: record.hpp:329
decltype(auto) mate_reference_id() const &
The identifier of the (reference) sequence of the mate. (SAM Column ID: RNEXT)
Definition: record.hpp:298
Subconcept definition for seqan3::tuple_like to test for std::tuple_size-interface.
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 an std::tuple.
Definition: record.hpp:191
static decltype(auto) get_impl(field_constant< f >, tuple_t &&record_as_tuple)
This is basically the seqan3::get<f>(static_cast<tuple>(record)) implementation.
Definition: record.hpp:249
detail::transfer_template_args_onto_t< field_types, std::tuple > base_type
A specialisation of std::tuple.
Definition: record.hpp:215