Struct Aligner

pub struct Aligner<A: Algorithm> { /* private fields */ }

An alignment executor.

Implementations

impl<A: Algorithm> Aligner<A>

pub fn get_mismatch_penalty(&self) -> u32

Get mismatch penalty

pub fn get_gap_open_penalty(&self) -> u32

Get gap-open penalty

pub fn get_gap_extend_penalty(&self) -> u32

Get gap-extend penalty

pub fn get_minimum_length(&self) -> u32

Get minimum length

pub fn get_maximum_penalty_per_length(&self) -> f32

Get maximum penalty per length

pub fn get_pattern_size(&self) -> u32

Get size of pattern

impl<A: Algorithm> Aligner<A>

pub fn new(algorithm: A) -> Self

Create a new aligner.

pub fn align(&mut self, query: &[u8], reference: &Reference) -> QueryAlignment

Align a query to a reference.

Trait Implementations

impl<A: Clone + Algorithm> Clone for Aligner<A>

fn clone(&self) -> Aligner<A>

Returns a duplicate of the value.

fn clone_from(&mut self, source: &Self)

Performs copy-assignment from source.

impl<A: Algorithm> Debug for Aligner<A>

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

Formats the value using the given formatter.

impl<A: Algorithm> From<A> for Aligner<A>

fn from(algorithm: A) -> Self

Converts to this type from the input type.