misc.hpp File Reference

Provides helper data structures for the seqan3::alignment_file_output. More...

#include <seqan3/core/add_enum_bitwise_operators.hpp>
#include <seqan3/core/detail/debug_stream_type.hpp>

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Classes
struct	seqan3::ref_info_not_given
	Type tag which indicates that no reference information has been passed to the alignment file on construction. More...

Namespaces
	seqan3
	The main SeqAn3 namespace.

Enumerations
enum	seqan3::sam_flag : uint16_t {   seqan3::sam_flag::none = 0, seqan3::sam_flag::paired = 0x1, seqan3::sam_flag::proper_pair = 0x2, seqan3::sam_flag::unmapped = 0x4,   seqan3::sam_flag::mate_unmapped = 0x8, seqan3::sam_flag::on_reverse_strand = 0x10, seqan3::sam_flag::mate_on_reverse_strand = 0x20, seqan3::sam_flag::first_in_pair = 0x40,   seqan3::sam_flag::second_in_pair = 0x80, seqan3::sam_flag::secondary_alignment = 0x100, seqan3::sam_flag::failed_filter = 0x200, seqan3::sam_flag::duplicate = 0x400,   seqan3::sam_flag::supplementary_alignment = 0x800 }
	An enum flag that describes the properties of an aligned read (given as a SAM record). More...

Variables
template<>
constexpr bool	seqan3::add_enum_bitwise_operators< sam_flag > = true
	Enables bitwise operations for seqan3::sam_flags.

Detailed Description

Provides helper data structures for the seqan3::alignment_file_output.

Author

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