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seqan3::format_sam Member List

This is the complete list of members for seqan3::format_sam, including all inherited members.

file_extensions | seqan3::format_sam | inline static
format_sam()=default | seqan3::format_sam |
format_sam(format_sam const &)=delete | seqan3::format_sam |
format_sam(format_sam &&)=default | seqan3::format_sam |
operator=(format_sam const &)=delete | seqan3::format_sam |
operator=(format_sam &&)=default | seqan3::format_sam |

read_alignment_record(stream_type &stream, sam_file_input_options< seq_legal_alph_type > const &options, ref_seqs_type &ref_seqs, sam_file_header< ref_ids_type > &header, stream_pos_type &position_buffer, seq_type &seq, qual_type &qual, id_type &id, ref_seq_type &ref_seq, ref_id_type &ref_id, ref_offset_type &ref_offset, cigar_type &cigar_vector, flag_type &flag, mapq_type &mapq, mate_type &mate, tag_dict_type &tag_dict, e_value_type &e_value, bit_score_type &bit_score)

seqan3::format_sam

inline protected

read_sequence_record(stream_type &stream, sequence_file_input_options< seq_legal_alph_type > const &options, stream_pos_type &position_buffer, seq_type &sequence, id_type &id, qual_type &qualities) | seqan3::format_sam | inline protected

write_alignment_record(stream_type &stream, sam_file_output_options const &options, header_type &&header, seq_type &&seq, qual_type &&qual, id_type &&id, ref_seq_type &&ref_seq, ref_id_type &&ref_id, std::optional< int32_t > ref_offset, std::vector< cigar > const &cigar_vector, sam_flag const flag, uint8_t const mapq, mate_type &&mate, tag_dict_type &&tag_dict, e_value_type &&e_value, bit_score_type &&bit_score)

seqan3::format_sam

inline protected

write_sequence_record(stream_type &stream, sequence_file_output_options const &options, seq_type &&sequence, id_type &&id, qual_type &&qualities) | seqan3::format_sam | inline protected
~format_sam()=default | seqan3::format_sam |

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