{
  "name": "OligoVigil",
  "version": "20260604_core_validation_v45",
  "description": "Natural-language and agent-ready entrypoints for oligonucleotide safety evidence lookup, Safety Dossier generation, evidence graph retrieval, and benchmark reuse.",
  "base_url": "https://oligovigil.pages.dev",
  "default_query_examples": [
    "Show GalNAc liver toxicity Grade A/B evidence with PubMed sources",
    "Find siRNA seed off-target evidence",
    "Show ASO hepatotoxicity Grade A records",
    "Which renal safety records are curator verified?",
    "Generate a Safety Dossier for a GalNAc PCSK9 siRNA with hepatic endpoint focus",
    "Show the evidence graph for seed-mediated off-target evidence",
    "Return PROV JSON for this safety dossier"
  ],
  "tools": [
    {
      "name": "generate_safety_dossier",
      "method": "GET",
      "path": "/api/safety_dossier",
      "description": "Generate a source-grounded dossier from sequence/HELM, target, modification, delivery, endpoint, species, and cell/tissue input."
    },
    {
      "name": "get_evidence_graph",
      "method": "GET",
      "path": "/api/evidence_graph",
      "description": "Return nodes and edges connecting design context, safety concerns, verified release records, sources, and candidate gaps."
    },
    {
      "name": "ask_verified_evidence",
      "method": "GET",
      "path": "/api/ask",
      "description": "Read-only natural-language query over verified release evidence."
    },
    {
      "name": "download_release",
      "method": "GET",
      "path": "/api/download/evidence_release.csv",
      "description": "Download citable verified release evidence."
    }
  ],
  "guardrails": [
    "Do not claim de novo safety prediction.",
    "Cite only curator-verified release evidence rows (737 human curator-verified rows; join via the release_audit_v SQL view, not the raw curation_audit table).",
    "Disclose that curation was AI-assisted: a primary human curator adjudicated v2 LLM proposals over source passages (re-curated from 2003 v1 machine candidates); inter-curator Cohen kappa is claimed from a blinded second curator (HY) on a 100-row mixed inter-rater sample (KAPPA-2): κ_binary = 0.42 (drop-abstain, n=92) / 0.34 (collapse-abstain, n=100), raw agreement 66% (66/100); A10 third-adjudicator pass in progress.",
    "Treat candidate rows as curation leads, not verified evidence; machine-only rows are labelled machine_precurated_v1.",
    "Do not redistribute raw third-party article text."
  ],
  "machine_interfaces": {
    "openapi": "https://oligovigil.pages.dev/api/openapi.json",
    "mcp": "https://oligovigil.pages.dev/mcp.json",
    "agent_manifest": "https://oligovigil.pages.dev/agent.json",
    "llms_txt": "https://oligovigil.pages.dev/llms.txt",
    "bioschemas": "https://oligovigil.pages.dev/bioschemas.json"
  }
}