Molds
Abstract action templates — a typed reference manifest plus a procedural skeleton — cast into self-contained skills. Grouped by family: A does the analysis, B referees it. The gate forbids a Family-A protocol from self-certifying.
11 molds · 11/11 with an eval plan
Family A · Analyze (1)
Family B · Referee (10)
- audit-ancestral-reconstruction-validityJudges whether an ancestral sequence or character-state reconstruction has earned its reliability claims, emitting a per-axis pass/flag/fail verdict.critique 8 refs eval ✓ scenarios ✓
- audit-batch-design-validityReferees a batch-aware analysis for validity, returning sourced per-axis verdicts and empirical calibration requirements.critique 14 refs eval ✓ scenarios ✓
- audit-gene-family-birth-deathAudits a gene-family birth-death analysis for method validity: assumptions met, the named method real and appropriate, the error rate actually controlled.critique 8 refs eval ✓ scenarios ✓
- audit-gene-loss-callDecides whether a gene-loss call is an established loss or a technical artifact, working ordered gates in which silence is never taken as evidence.critique 6 refs eval ✓ scenarios ✓
- audit-method-validityReasons about an analysis's method validity from its method + data-handling trace, emitting a verdict that gates certification — never CERTIFY on its own.critique 4 refs eval ✓ scenarios ✓
- audit-pangenome-claimCatches pangenome claims that are silently wrong — artifact-inflated, mis-partitioned, over-claimed, or reference-free in name only — gate by gate.critique 9 refs eval ✓ scenarios ✓
- audit-positive-selection-claimAudits a dN/dS positive-selection claim at the layer beneath the p-value, then passes it, flags it with a remedy, or rejects it as invalid as stated.critique 14 refs eval ✓ scenarios ✓
- audit-synteny-claimScreens a synteny or rearrangement conclusion for the cardinal sin of an artifact read as biology, flagging anything that flips with tool stringency.critique 10 refs eval ✓ scenarios ✓
- audit-wgd-inferenceReferees a whole-genome-duplication inference against the known artifact axes; a claim that cannot clear an axis is flagged, never silently passed.critique 10 refs eval ✓ scenarios ✓
- audit-whole-genome-alignmentReferees a whole-genome alignment and the biology drawn from it, flagging rather than passing any claim it cannot clear from the evidence supplied.critique 7 refs eval ✓ scenarios ✓