Claidex MCP

com.claidexPublished by claidex.comOfficial publisherv1.0.0Updated Oct 26, 2026

Biomedical failure intelligence platform for terminated trials and translational analysis.

VerifiedStreamable HTTPWeb executableWeb Search & ScrapingKnowledge & MemoryData & Analytics

Overview

AI-generated overview

Biomedical failure-intelligence server that lets an assistant search drug trial post-mortems, risk scores and public biomedical databases.

What you can do
  • Search and read Claidex failure claims, preprint flags and full post-mortem analyses
  • Query the failure graph for a gene target's Mechanism Risk Score, failure counts and related claims
  • Look up drugs, trials and targets in ChEMBL, ClinicalTrials.gov, FDA FAERS, Open Targets and PubMed
  • Search the web for news and analyst commentary, and fetch public research URLs or package metadata
  • Run deterministic math and statistical analyses, and rank or rerank documents by embedding similarity
  • Consult a specialist model for code, statistics, literature or mechanistic synthesis, and inspect capabilities and tool catalogs
When to use it
Useful for translational research, drug diligence and portfolio triage where you need to know why programs failed, how risky a target is, or what trials and adverse-event signals exist. Also handy as a general research helper for literature, statistics and document ranking.
Requirements
A Claidex API key supplied as the CLAIDEX_MCP_API_KEY environment variable or as an Authorization bearer header. Runs either as a remote endpoint or as a local npm package over stdio; the endpoint URL can be set with CLAIDEX_MCP_URL. Network access is needed for the external database and web lookups.
Before you install
The API key is a live secret and must be kept out of logs and shared configs. Queries about drugs, targets and trials are sent to Claidex and to third-party sources such as PubMed, ClinicalTrials.gov, ChEMBL, Open Targets and the open web. The fetch tool retrieves external URLs, and the specialist-model tool may consume paid model capacity.

Installation

In SourceWeft

  1. Open Claidex MCP in the dashboard and add it to a workspace.
  2. Connect Authorization token credentials. They are stored privately and never shown on public pages.
  3. Enable the server for the chats that should use its tools.

Web executable via Streamable HTTP. Remote servers run from the web runtime once configured in a workspace.

Use with an agent

Paste this prompt into Claude Code, Codex, Cursor or another agent — or into SourceWeft chat. The agent reads this server's install guide, shows you its publisher, endpoint and sign-in, and adds it to your client once you agree. Keys never go into a command.

Read https://sourceweft.com/mcp/com.claidex%2Ffailure-intelligence/install.md and connect the MCP server it describes to my client. Before changing any config, show me its publisher, endpoint and sign-in method and wait for my OK. Never put an API key in a command or in a file I would commit; ask me where it should come from.

Read the install guide the agent follows

Other MCP clients

Add this to your client's mcpServers config.

{
  "mcpServers": {
    "claidex": {
      "type": "http",
      "url": "https://app.claidex.com/api/mcp",
      "headers": {
        "Authorization": "Bearer <YOUR_TOKEN>"
      }
    }
  }
}

README

This repository has no README.

Tools

24

claidex_capabilities

Claidex MCP Capabilities

Return the Claidex MCP feature map, configured storage/model providers, safety controls, resources, prompts, and tool counts.

Takes no parameters.

claidex_claim_risk_matrix

Claidex Claim Risk Matrix

Search claims and summarize MRS bands, trial phases, failure archetypes, and high-risk programs for rapid diligence.

Parameterslimitrequiredqueryrequired

claidex_health_snapshot

Claidex Health Snapshot

Return Sentinel metrics, coverage, graph counts, recent automation runs, MRS bands, and preprint-watch summaries.

Takes no parameters.

claidex_research_prompt

Claidex Research Prompt

Compose a rigorous, reusable investigation prompt that tells an MCP client which Claidex tools and resources to use.

Parametersdiseaseobjectiverequiredtarget_generisk_tolerancerequired

claidex_tool_catalog

Claidex Tool Catalog

Return the complete MCP tool catalog, optionally including full input schemas and filtering native versus agent-backed tools.

Parameterssourcerequiredinclude_schemasrequired

consult_specialist_model

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.

Parameterspromptrequiredcontexttask_typerequired

fetch

Fetch Claidex Result

Fetch a specific result returned by search. This compatibility tool supports OpenAI and ChatGPT remote MCP retrieval flows.

Parametersidrequired

fetch_research_url

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.

Parametersurlrequiredmax_charsrequired

get_claim_content

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.

Parametersslugrequired

query_chembl

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.

Parametersdrug_namerequired

query_clinicaltrials

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.

Parametersphaserequiredqueryrequiredstatusrequiredmax_resultsrequired

query_failure_graph

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.

Parameterstarget_generequired

query_openfda

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.

Parametersdrug_namerequiredmax_resultsrequired

query_opentargets

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.

Parameterstarget_generequireddisease_termrequired

query_package_registry

Query Package Registry

Look up package metadata from npm or PyPI before recommending code, analysis packages, API clients, or dataset tooling.

Parametersecosystemrequiredpackage_namerequired

rank_documents_by_embedding

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.

Parametersqueryrequiredtop_krequireddocumentsrequired

rerank_documents

Rerank Documents

Rerank candidate documents/passages against a query using a dedicated reranking model. Use after retrieval/search when exact relevance ordering matters.

Parametersqueryrequiredtop_nrequireddocumentsrequired

run_computation

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.

Parametersvariablesrequiredexpressionrequired

run_statistical_analysis

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.

Parametersinputsrequiredcontextanalysis_typerequired

search_claims

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.

Parameterslimitrequiredqueryrequiredcategoryrequiredfailure_archetyperequired

search_preprint_flags

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.

Parametersqueryrequiredseverityrequired

search_pubmed

Search Pubmed

Search PubMed for biomedical literature. Returns title, authors, journal, year, DOI, abstract, and PMID for each result.

Parametersqueryrequiredmax_resultsrequired

Version history

1
  1. v1.0.0LatestSep 16, 2026

Score

75% of the applicable checks met

How complete this listing is, computed from the registry entry, the endpoint and public sources. Not a rating of the server and not a statement that it is safe or working today: reachability is a dated check, and no installs or reviews go into the score.

  • Reached in the last 30 daysRequired25 pts
  • Auth declaredRequired10 pts
  • Tools listedRequired15 pts
  • DescriptionRequired15 pts
  • Logo10 pts
  • Documentation15 pts

    Declare a GitHub repository with a README, or serve resource_documentation in the OAuth protected-resource metadata.

  • License10 pts

    Declare a license in the repository or the registry entry.