Enum BamFlagsShortcuts to the bitmask flags for BAM/SAM files.
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.
|