Module record 

SAM/BAM record, sequence, qualities and operations on them.

Re-exports

pub use cigar::Cigar;

pub use sequence::Sequence;

pub use sequence::Qualities;

Modules

cigar

Cigar and operations on it.

sequence

A wrappers around raw sequence and raw qualities.

tags

Record tags and operations on them.

Structs

AlignmentEntry

Contains single position in the alignment between the record and the reference.

EntriesIter

Iterator over alignment positions.

Flag

A wrapper around BAM/SAM flag.

Record

BAM Record.

Enums

EntriesError

An error that can arise from alignment_entries.

Constants

ALL_SEGMENTS_ALIGNED

= 0x2. Record and its mate mapped properly.

FIRST_IN_PAIR

= 0x40. Record is the first segment in a template.

LAST_IN_PAIR

= 0x80. Record is the last segment in a template.

MATE_REVERSE_STRAND

= 0x20. Record mate is on the reverse strand.

MATE_UNMAPPED

= 0x8. Record mate is unmapped.

PCR_OR_OPTICAL_DUPLICATE

= 0x400. Record is PCR or optical duplicate.

RECORD_FAILS_QC

= 0x200. Record fails platform/vendor quality checks.

RECORD_PAIRED

= 0x1. Record has a mate.

RECORD_REVERSE_STRAND

= 0x10. Record is on the reverse strand.

RECORD_UNMAPPED

= 0x4. Record is unmapped.

SECONDARY

= 0x100. Alignment is secondary (not primary).

SUPPLEMENTARY

= 0x800. Alignment is supplementary (chimeric/split).