alignment_from_cigar.hpp File Reference

Provides the function seqan3::alignment_from_cigar. More...

#include <vector>
#include <seqan3/alignment/aligned_sequence/aligned_sequence_concept.hpp>
#include <seqan3/alignment/decorator/gap_decorator.hpp>
#include <seqan3/alphabet/cigar/cigar.hpp>
#include <seqan3/io/sam_file/detail/cigar.hpp>
#include <seqan3/utility/views/slice.hpp>

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Namespaces
namespace	seqan3
	The main SeqAn3 namespace.

Functions
template<typename reference_type, typename sequence_type>
auto	seqan3::alignment_from_cigar (std::string const &cigar_string, reference_type const &reference, uint32_t const zero_based_reference_start_position, sequence_type const &query)
template<typename reference_type, typename sequence_type>
auto	seqan3::alignment_from_cigar (std::vector< cigar > const &cigar_vector, reference_type const &reference, uint32_t const zero_based_reference_start_position, sequence_type const &query)
	Construct an alignment from a CIGAR string and the corresponding sequences.

Detailed Description

Provides the function seqan3::alignment_from_cigar.

Author

Svenja Mehringer <svenja.mehringer AT fu-berlin.de>