# Claidex MCP

> Biomedical failure intelligence platform for terminated trials and translational analysis.

- name: com.claidex/failure-intelligence
- version: 1.0.0
- connection class: R1 (autonomous)
- trust: 88/100
- quality: 83/100 (good)
- owner: not claimed
- descriptor: https://api.protogrid.dev/v1/servers/com.claidex%2Ffailure-intelligence
- tools: https://api.protogrid.dev/v1/servers/com.claidex%2Ffailure-intelligence/tools

**An agent can connect on its own if it already holds `FAILURE_INTELLIGENCE_TOKEN`.** Remote endpoint behind a static API key or header. The registry never sees the value; the agent fills the placeholder.

## Connection (mcpServers)

```json
{
  "mcpServers": {
    "failure-intelligence": {
      "type": "http",
      "url": "https://app.claidex.com/api/mcp",
      "headers": {
        "Authorization": "Bearer ${FAILURE_INTELLIGENCE_TOKEN}"
      }
    }
  }
}
```

Placeholders to fill: `${FAILURE_INTELLIGENCE_TOKEN}`.

## Trust

- hygiene: 100
- liveness: 97
- freshness: 65
- provenance: 85
- drivers: +repository +dns-namespace +website +reachable +uptime-94% ~updated-138d-ago
- Derived from observable signals (official registry feed and our own credential-free probes); no code audit performed.

## Quality 83/100 (good)

### protocol: 75 (weight 25)

- warn `protocol.modern`: newest supported version is 2025-11-25; 2026-07-28 not supported, older versions are deprecated until 2027-07-28
- n/a `protocol.stateless`: only applies to 2026-07-28 servers
- pass `protocol.transport`: streamable HTTP
- n/a `protocol.list_ttl`: only applies to 2026-07-28 servers

### authorization: n/a (weight 15)

- n/a `auth.prm`, `auth.as_metadata`, `auth.cimd`: no remote uses OAuth
- n/a `auth.secret_in_url`: no templated URL

### tool hygiene: 71 (weight 30)

- pass `tools.descriptions`: every tool has a description
- pass `tools.description_length`: descriptions are concise
- pass `tools.schemas`: every tool has an object input schema
- fail `tools.annotations`: no tool declares readOnlyHint or destructiveHint, so clients cannot tell safe calls from risky ones
- fail `tools.directory_hints`: no tool declares all four of readOnlyHint, destructiveHint, idempotentHint and openWorldHint; missing: claidex_tool_catalog (readOnlyHint, destructiveHint, idempotentHint, openWorldHint); get_claim_content (readOnlyHint, destructiveHint, idempotentHint, openWorldHint); query_opentargets (readOnlyHint, destructiveHint, idempotentHint, openWorldHint); …
- pass `tools.token_cost`: about 3,448 tokens to load every tool
- pass `tools.api_dump`: tools are not a one-to-one API dump

### stability: 100 (weight 15)

- pass `stability.changes`: no tool changes in 30 days
- pass `stability.rug_pull`: no tool changed its meaning under the same name

### dependencies: 100 (weight 15)

- pass `deps.known_vulns`: no known advisory in 1 resolved packages
- n/a `deps.mcp_sdk_version`: the official MCP SDK is not in the dependency graph
- pass `deps.resolvable`: @claidex-mcp/claidex-mcp@1.0.0 resolved: 1 packages

- tools: 24, about 3,448 tokens to load them all
- tool set hash: 5f8e9ca780ca08bf2b0be5cd50f39df2
- badge: [![protogrid quality](https://protogrid.dev/badge/com.claidex/failure-intelligence.svg)](https://protogrid.dev/servers/com.claidex/failure-intelligence)
- Checks run on what our credential-free, read-only probes observe; tools are never called and no code audit is performed.

### Tool changes

_No tool definition changes recorded._

## Dependencies

- npm @claidex-mcp/claidex-mcp@1.0.0: resolved, 0 dependencies

Dependency graphs from deps.dev; advisories from OSV.dev, including the GitHub Advisory Database and the PyPI Advisory Database; all CC BY 4.0.

## Remotes

- https://app.claidex.com/api/mcp (streamable-http, auth api_key ${FAILURE_INTELLIGENCE_TOKEN}, reachable true, uptime30d 0.9354839)

## Packages

- npm @claidex-mcp/claidex-mcp@1.0.0 secrets: CLAIDEX_MCP_API_KEY

## Tools (24)

- `claidex_capabilities`: Return the Claidex MCP feature map, configured storage/model providers, safety controls, resources, prompts, and tool counts.
- `claidex_claim_risk_matrix`: Search claims and summarize MRS bands, trial phases, failure archetypes, and high-risk programs for rapid diligence.
- `claidex_health_snapshot`: Return Sentinel metrics, coverage, graph counts, recent automation runs, MRS bands, and preprint-watch summaries.
- `claidex_research_prompt`: Compose a rigorous, reusable investigation prompt that tells an MCP client which Claidex tools and resources to use.
- `claidex_tool_catalog`: Return the complete MCP tool catalog, optionally including full input schemas and filtering native versus agent-backed tools.
- `consult_specialist_model`: Ask a specialist Gateway model for code, database/tool-calling, statistics, literature, preprint, or mechanistic synthesis support. Use for hard subproblems, second opinions, code generation/review, or complex synthesis.
- `fetch`: Fetch a specific result returned by search. This compatibility tool supports OpenAI and ChatGPT remote MCP retrieval flows.
- `fetch_research_url`: Fetch a public HTTPS research URL, JSON API response, package metadata endpoint, documentation page, or dataset preview. Blocks private/internal hosts and truncates large responses.
- `get_claim_content`: Retrieve the complete text content of a specific Claidex Claim by its slug. Use this when you need to read the full post-mortem analysis, including hypothesis, failure mechanism, and prevention analysis.
- `query_chembl`: Look up a drug or compound in ChEMBL. Returns mechanism of action, primary target, ChEMBL ID, max development phase, molecular type, and synonyms.
- `query_clinicaltrials`: Search ClinicalTrials.gov for clinical trials. Can search by drug name, condition, target, or NCT ID. Returns trial status, phase, sponsor, primary endpoints, and why_stopped if terminated.
- `query_failure_graph`: Query the Claidex failure graph for a specific gene target. Returns the Mechanism Risk Score (MRS), failure counts by phase and archetype, and all related claim slugs.
- `query_openfda`: Query the FDA FAERS database for adverse event signals for a drug. Returns top adverse event terms, serious case count, and death count.
- `query_opentargets`: Query Open Targets for target-disease association evidence. Returns genetic evidence score, clinical evidence, known drugs, tractability, and safety liabilities for a gene-disease pair.
- `query_package_registry`: Look up package metadata from npm or PyPI before recommending code, analysis packages, API clients, or dataset tooling.
- `rank_documents_by_embedding`: Embed a query and candidate documents, then rank documents by cosine similarity. Use for semantic matching, retrieval checks, clustering triage, and lightweight RAG over user-provided passages.
- `rerank_documents`: Rerank candidate documents/passages against a query using a dedicated reranking model. Use after retrieval/search when exact relevance ordering matters.
- `run_computation`: Evaluate deterministic mathematical expressions with optional variables. Use for algebra, matrices, vectors, transformations, descriptive numerical checks, and reproducible calculations. Does not execute arbitrary JavaScript or install packages.
- `run_statistical_analysis`: Run a statistical analysis computation. Supports: Wilson confidence intervals, binomial proportions, phase transition success rates, power calculations, Bayesian posterior estimates, descriptive statistics, and two-proportion comparisons. Returns computed values, interpretation, and LaTeX formula.
- `search`: Search Claidex failure claims and preprint flags. This compatibility tool returns citation-ready results for OpenAI and ChatGPT remote MCP flows.
- `search_claims`: Search the Claidex failure database for post-mortems matching a drug name, gene target, disease, failure archetype, or sponsor. Returns matching claims with title, slug, drug, target, disease, phase, failure archetype, Open Targets score, and MRS score.
- `search_preprint_flags`: Search the Claidex Preprint Watch database for bioRxiv preprints flagged as contradicting the clinical failure record. Search by target gene, disease, or preprint title.
- `search_pubmed`: Search PubMed for biomedical literature. Returns title, authors, journal, year, DOI, abstract, and PMID for each result.
- `web_search`: Search the web for recent news, investor commentary, analyst notes, press releases, and conference coverage about drugs, clinical trials, or biomedical mechanisms.