Struct Alignment

pub struct Alignment<'a> { /* private fields */ }

An aligned read in a pileup.

Implementations

impl<'a> Alignment<'a>

pub fn new(inner: &'a bam_pileup1_t) -> Self

pub fn qpos(&self) -> Option<usize>

Position within the read. None if either is_del or is_refskip.

pub fn indel(&self) -> Indel

Insertion, deletion (with length) if indel starts at next base or None otherwise.

pub fn is_del(&self) -> bool

Whether there is a deletion in the alignment at this position.

pub fn is_head(&self) -> bool

Whether the alignment starts at this position.

pub fn is_tail(&self) -> bool

Whether the alignment ends at this position.

pub fn is_refskip(&self) -> bool

Whether this position is marked as refskip in the CIGAR string.

pub fn record(&self) -> Record

The corresponding record.

Trait Implementations

impl<'a> Debug for Alignment<'a>

fn fmt(&self, f: &mut Formatter<'_>) -> Result

Formats the value using the given formatter.