`mod depth`¶

module depth¶

depth command: compute retained read statistics per individual.

Two modes:

Default: exact median via in-memory accumulation
Streaming (–streaming): exact median via external sort of (individual, depth) pairs. O(buffer_size) memory.

Functions

fn run(params: &DepthParams) -> Result<(), Box<dyn std::error::Error>>¶

fn run_with_source<S: MarkerStream>(source: &S, popmap: &Popmap, params: &DepthParams) -> Result<(), Box<dyn std::error::Error>>¶

Structs and Unions

struct DepthParams¶

markers_table_path: String¶

popmap_file_path: String¶

output_file_path: String¶

min_frequency: f32¶

streaming: bool¶