Struct Sequence 

pub struct Sequence {
    pub id: String,
    pub sequence: Vec<u8>,
    pub quality: Vec<u8>,
    pub is_filtered: bool,
    pub colorspace: Option<Vec<u8>>,
}

A single sequence record with ID, bases, quality scores, and filter status.

Mirrors Sequence.Sequence in Java. The sequence field stores uppercase ASCII bases as bytes (matching Java’s toUpperCase() in the constructor). The quality field stores raw ASCII quality characters as bytes.

Fields

id: String

sequence: Vec<u8>

Uppercase ASCII nucleotide bases (A, C, G, T, N).

quality: Vec<u8>

Raw ASCII quality characters (not yet offset-adjusted).

is_filtered: bool

Whether this sequence was flagged as filtered (e.g. CASAVA filtered).

colorspace: Option<Vec<u8>>

Colorspace representation, if applicable (SOLiD data).

Implementations

impl Sequence

pub fn new(id: String, sequence: Vec<u8>, quality: Vec<u8>) -> Self

Create a new Sequence, converting the base sequence to uppercase.

The Java constructor calls sequence.toUpperCase() on the sequence string, so we replicate that here.

pub fn len(&self) -> usize

Length of the sequence in bases.

pub fn is_empty(&self) -> bool

Whether the sequence is empty.

pub fn heap_bytes(&self) -> usize

Roughly how much heap this record holds, for the analysis pipeline’s memory budgeting. The Sequence itself is not counted — only what it owns, which is everything that scales with read length.

Trait Implementations

impl Clone for Sequence

fn clone(&self) -> Self

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for Sequence

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

Formats the value using the given formatter.