Jev Onco Statistical Hierarchy (JOSH)

Jev Onco Statistical Hierarchy is a Rust workbench — Ratatui TUI and CLI, version 0.8.0 — for cancer-of-unknown-primary research. It loads molecular, expression and clinical evidence, asks the hosted model Jev for an origin distribution, then checks, gates, charts and exports the answer locally.

New prepares use molecular-origin-v6: one request containing a Choice for primary_site over 22 classes plus unresolved outcomes, two gated checks on evidence sufficiency and conflict, and five boundary Nouls. All share the evidence and cannot read each other's answers, and boundary answers are reported with the result.

The workbench checks the model, answer keys and probability mass, then applies local gates that can mark a result abstained or review_required using the leading score, its margin, sufficiency and conflict. Ranking, parent group, charts and Markdown export happen locally, and the parent class is a local taxonomy lookup.

Use ./scripts/start with Cargo, pinned Rust 1.98.1 and a C compiler available. Live calls need a TYPESAFE_API_KEY and accept declared synthetic data. Rate-limit and overload responses retry at most twice, and a saved run keeps the prompt it was prepared with.

josh molecular prepare prints the request without sending it, and josh reference compare and josh reference prepare stay offline. josh reference run sends one synthetic expression-similarity request, separate from the panel classifier. In the TUI, open a bundled sample and use Data → Run analysis.

Nothing in the README claims that. It presents a research workbench inspired by the OncoNPC study question, with local gates and review flags built around abstention and review_required outcomes. It contains no OncoNPC source, weights or data; OncoNPC's classifier is XGBoost and is not in this repository.

josh-explain computes Shapley values over a saved run by masking feature groups and asking the original three questions again. The other crates are josh-core for contracts, prompts, response checks and gates; josh-jev as the HTTPS client; josh-ingest for file and table import; josh-features for mapping and cohort stats; and josh-app for the CLI, TUI and loopback API.