Enum BamFlags
Shortcuts to the bitmask flags for BAM/SAM files.

Defined in <seqan/bam_io.h>
Signature enum BamFlags;

Enum Values

BAM_FLAG_ALL_PROPER = 0x0002
All fragments in the template are properly mapped.
BAM_FLAG_DUPLICATE = 0x0400
PCR or optical duplicate.
BAM_FLAG_FIRST = 0x0040
This fragment is the first one in its template.
BAM_FLAG_LAST = 0x0080
This fragment is the last one in its template (second in case of paired sequencing).
BAM_FLAG_MULTIPLE = 0x0001
Template has multiple fragments in sequencing.
BAM_FLAG_NEXT_RC = 0x0020
Next fragment in template is reverse-complemented.
BAM_FLAG_NEXT_UNMAPPED = 0x0008
Next fragment in template is unmapped.
BAM_FLAG_QC_NO_PASS = 0x0200
Does not pass quality controls.
BAM_FLAG_RC = 0x0010
Fragment is reverse-complemented.
BAM_FLAG_SECONDARY = 0x0100
Secondary alignment.
BAM_FLAG_UNMAPPED = 0x0004
This fragment is unmapped.