Struct RleCoverage 

pub struct RleCoverage { /* private fields */ }

Run-length encoded coverage vector.

Stores coverage depth as a sequence of (depth, length) runs. This is memory-efficient for genome-wide coverage where long runs of identical depth are common (e.g., depth=0 in intergenic regions).

Implementations

impl RleCoverage

pub fn from_intervals(intervals: &[GenomicInterval], chrom_length: u64) -> Self

Build an RLE coverage vector from a set of intervals on a chromosome.

Each interval contributes +1 to all positions it covers. The resulting coverage vector spans [0, chrom_length).

pub fn from_depths(depths: &[u32]) -> Self

Build an RLE coverage vector from a dense depth array.

pub fn get(&self, position: u64) -> u32

Get the coverage depth at a specific position.

Returns 0 if the position is out of range.

pub fn mean_coverage(&self) -> f64

Mean coverage across all positions.

pub fn bases_above(&self, threshold: u32) -> u64

Number of bases with depth above a threshold.

pub fn to_vec(&self) -> Vec<u32>

Expand the RLE coverage to a dense vector.

pub fn len(&self) -> u64

Total length of the coverage vector.

pub fn is_empty(&self) -> bool

Whether the coverage vector is empty.

pub fn num_runs(&self) -> usize

Number of RLE runs.

Trait Implementations

impl Clone for RleCoverage

fn clone(&self) -> RleCoverage

Returns a duplicate of the value.

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

Performs copy-assignment from source.

impl Debug for RleCoverage

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

Formats the value using the given formatter.