Struct block_aligner::cigar::Cigar

pub struct Cigar { /* private fields */ }

A CIGAR string that holds a list of operations.

Implementations

impl Cigar

pub fn new(query_len: usize, reference_len: usize) -> Self

Create a new CIGAR string with certain maximum lengths for the aligned sequences.

pub fn len(&self) -> usize

Length of the CIGAR string, not including the first sentinel.

pub fn get(&self, i: usize) -> OpLen

Get a certain operation in the CIGAR string.

pub fn format(&self, q: &[u8], r: &[u8]) -> (String, String)

Generate two strings to visualize the edit operations.

pub fn to_vec(&self) -> Vec<OpLen>

Create a copy of the operations in the CIGAR string and ensure that the vector is provided in the correct order.

Sentinels are removed.

Trait Implementations

impl Display for Cigar

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

Print a CIGAR string in standard CIGAR format.