mod triage

module triage

triage command: marker-level biological candidate ranking.

The command keeps RADSex-style strict testing and Bayesian marker evidence in one bounded-memory pass over the marker table.

Every marker needs a p-value, a Bayes factor, and a posterior, so the device backend evaluates all three for the whole table before the writing pass. Counts cost eight bytes per marker; marker text is never retained.

Functions

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

fn run_to_arrow(params: &TriageParams) -> Result<Vec<RecordBatch>, Box<dyn std::error::Error>>

fn run_to_arrow_with_source<S: MarkerStream>(source: &S, popmap: &Popmap, params: &TriageParams) -> Result<Vec<RecordBatch>, Box<dyn std::error::Error>>

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

Structs and Unions

struct TriageParams

markers_table_path: String

popmap_file_path: String

output_file_path: String

min_depth: u16

signif_threshold: f32

posterior_threshold: f64

bayes_factor_threshold: f64

bayes_model: stats::DirectionalModel

group1: String

group2: String

backend: PValueBackend

Where the per-marker p-value and Bayesian evidence are evaluated.