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Hand <casey@caseyjhand.com> (https://caseyjhand.com)","license":"Apache-2.0","homepage":"https://github.com/cyanheads/clinicaltrialsgov-mcp-server#readme","keywords":["mcp","mcp-server","model-context-protocol","ai-agent","typescript","clinical-trials","clinicaltrials.gov","patient-matching","eligibility-criteria","trial-finder","research-tools","bioinformatics","health-tech","bun","stdio","streamable-http"],"repository":{"url":"git+https://github.com/cyanheads/clinicaltrialsgov-mcp-server.git","type":"git"},"description":"Search ClinicalTrials.gov trials, retrieve study details and results, and match patients to eligible trials via MCP. STDIO or Streamable HTTP.","maintainers":[{"name":"cyanheads","email":"casey@caseyjhand.com"}],"readme":"<div align=\"center\">\n  <h1>clinicaltrialsgov-mcp-server</h1>\n  <p><b>Search ClinicalTrials.gov trials, retrieve study details and results, and match patients to eligible trials via MCP. STDIO or Streamable HTTP.</b>\n  <div>7 Tools • 1 Resource • 1 Prompt</div>\n  </p>\n</div>\n\n<div align=\"center\">\n\n[![Version](https://img.shields.io/badge/Version-2.9.11-blue.svg?style=flat-square)](./CHANGELOG.md) [![License](https://img.shields.io/badge/License-Apache%202.0-orange.svg?style=flat-square)](./LICENSE) [![Docker](https://img.shields.io/badge/Docker-ghcr.io-2496ED?style=flat-square&logo=docker&logoColor=white)](https://github.com/users/cyanheads/packages/container/package/clinicaltrialsgov-mcp-server) [![MCP SDK](https://img.shields.io/badge/MCP%20SDK-^2.2.0-green.svg?style=flat-square)](https://modelcontextprotocol.io/) [![npm](https://img.shields.io/npm/v/clinicaltrialsgov-mcp-server?style=flat-square&logo=npm&logoColor=white)](https://www.npmjs.com/package/clinicaltrialsgov-mcp-server) [![TypeScript](https://img.shields.io/badge/TypeScript-^7.0.2-3178C6.svg?style=flat-square)](https://www.typescriptlang.org/) [![Bun](https://img.shields.io/badge/Bun-v1.4.2-blueviolet.svg?style=flat-square)](https://bun.sh/)\n\n</div>\n\n<div align=\"center\">\n\n[![Install in Claude Desktop](https://img.shields.io/badge/Install_in-Claude_Desktop-D97757?style=for-the-badge&logo=anthropic&logoColor=white)](https://github.com/cyanheads/clinicaltrialsgov-mcp-server/releases/latest/download/clinicaltrialsgov-mcp-server.mcpb) [![Install in Cursor](https://cursor.com/deeplink/mcp-install-dark.svg)](https://cursor.com/en/install-mcp?name=clinicaltrialsgov-mcp-server&config=eyJjb21tYW5kIjoibnB4IiwiYXJncyI6WyIteSIsImNsaW5pY2FsdHJpYWxzZ292LW1jcC1zZXJ2ZXIiXX0=) [![Install in VS Code](https://img.shields.io/badge/VS_Code-Install_Server-0098FF?style=for-the-badge&logo=visualstudiocode&logoColor=white)](https://vscode.dev/redirect?url=vscode:mcp/install?%7B%22name%22%3A%22clinicaltrialsgov-mcp-server%22%2C%22command%22%3A%22npx%22%2C%22args%22%3A%5B%22-y%22%2C%22clinicaltrialsgov-mcp-server%22%5D%7D)\n\n[![Framework](https://img.shields.io/badge/Built%20on-@cyanheads/mcp--ts--core-67E8F9?style=flat-square)](https://www.npmjs.com/package/@cyanheads/mcp-ts-core)\n\n</div>\n\n<div align=\"center\">\n\n**Public Hosted Server:** [https://clinicaltrials.caseyjhand.com/mcp](https://clinicaltrials.caseyjhand.com/mcp)\n\n</div>\n\n---\n\n## Overview\n\nClinical trial data from the [ClinicalTrials.gov REST API v2](https://clinicaltrials.gov/data-api/api) — the US National Library of Medicine's registry of 600K+ clinical trial studies. Search trials, fetch full study records and posted results, discover field names and valid values, and match patient demographics to eligible recruiting trials. Public, read-only, no authentication required. Runs as a stdio process, a local Streamable HTTP server, or the public hosted endpoint above.\n\n### Tools\n\n| Tool | Description |\n|:---|:---|\n| `clinicaltrials_search_studies` | Search studies with full-text and field-specific queries, status/phase/geographic filters, pagination, sorting, and field selection |\n| `clinicaltrials_get_study_record` | Fetch a single study by NCT ID — full protocol record with optional location/outcome/reference caps |\n| `clinicaltrials_get_study_count` | Fast total study count for a query, without fetching data |\n| `clinicaltrials_get_field_values` | Discover valid values for API fields, with per-value study counts |\n| `clinicaltrials_get_field_definitions` | Resolve valid field names — keyword search, path drill-down, or top-level overview |\n| `clinicaltrials_get_study_results` | Fetch posted results — outcomes, adverse events, participant flow, baseline — for completed studies |\n| `clinicaltrials_find_eligible` | Match patient demographics and conditions to eligible recruiting trials |\n\n### Resources\n\n| Resource | Description |\n|:---|:---|\n| `clinicaltrials://{nctId}` | Fetch a single clinical study by NCT ID as JSON, with capped lists and results replaced by counts |\n\n### Prompts\n\n| Prompt | Description |\n|:---|:---|\n| `analyze_trial_landscape` | Guides a data-driven clinical trial landscape analysis using the count and search tools |\n\n## Capability reference\n\n### `clinicaltrials_search_studies` <sub>tool</sub>\n\n- Free-text `query` plus field-specific `conditionQuery` / `interventionQuery` / `locationQuery` / `sponsorQuery` / `titleQuery` / `outcomeQuery`, `statusFilter` / `phaseFilter` enums, `advancedFilter` (`AREA[FieldName]value` / `RANGE[min, max]`), and `geoFilter` (`distance(lat,lon,radius)` with a `mi`/`km` suffix); `pageSize` 1–200 (default 10), `pageToken` cursor, `sort` on up to 2 fields\n- Returns a compact per-study index by default (`nctId`, `briefTitle`, `overallStatus`, `phases`, `enrollmentCount`, `hasResults`, …); `fields` (PascalCase leaves) selects a full-fidelity projection — full records run ~70KB\n- Typed errors: `blank_value`, `ids_not_found`, `field_invalid`, `enum_invalid`, `query_parse_error`, `geo_invalid`, `sort_invalid`, `rate_limited`\n\n---\n\n### `clinicaltrials_get_study_record` <sub>tool</sub>\n\n- Full protocol record by `nctId`, with optional `locationLimit` (≤500), `outcomeLimit` / `referenceLimit` (≤100), and `nearLocation` (`lat`, `lon`, `radiusMi`) to bound and sort locations\n- `filtersApplied` reports upstream totals when a cap trims a list; `resultsSection` is replaced by `resultsSummary` counts. Typed errors: `study_not_found`, `rate_limited`\n\n---\n\n### `clinicaltrials_get_study_count` <sub>tool</sub>\n\n- Same query and filter surface as `clinicaltrials_search_studies`, returning only `totalCount` — no study data fetched\n- Typed errors: `blank_value`, `field_invalid`, `enum_invalid`, `query_parse_error`, `rate_limited`\n\n---\n\n### `clinicaltrials_get_field_values` <sub>tool</sub>\n\n- One or more PascalCase `fields` (e.g. `OverallStatus`, `Phase`) — returns each field's type and top values with study counts (capped at 250 by the API), or `min` / `max` / `avg` for numeric and date fields and `trueCount` / `falseCount` for booleans\n- `multiValued` flags fields whose per-value counts can sum above the study total. Typed errors: `blank_value`, `field_invalid`, `rate_limited`\n\n---\n\n### `clinicaltrials_get_field_definitions` <sub>tool</sub>\n\n- `mode`: `search` (keyword `query`, `limit` ≤100, default 20), `drill` (dot-notation `path`), or `overview` — resolves the PascalCase names accepted by `fields`, `advancedFilter`, `sort`, and `clinicaltrials_get_field_values`\n- Typed errors: `blank_value`, `mode_mismatch`, `mode_requires`, `path_not_found`, `rate_limited`\n\n---\n\n### `clinicaltrials_get_study_results` <sub>tool</sub>\n\n- Up to 20 `nctIds` per call; `sections` (`outcomes`, `adverseEvents`, `participantFlow`, `baseline`, `moreInfo`), `summary` to condense a result set that can exceed 500KB per study, and `outcomeLimit` (≤100) / `adverseEventLimit` (≤500) with resumable `outcomeOffset` / `seriousEventOffset` / `otherEventOffset`\n- Per-study `fetchErrors` / `studiesWithoutResults` instead of a whole-batch failure, and `canonicalNctId` when an alias ID resolves to another study. Typed errors: `blank_value`, `offset_not_applicable`, `rate_limited`\n\n---\n\n### `clinicaltrials_find_eligible` <sub>tool</sub>\n\n- `age`, `sex` (`FEMALE` / `MALE` / `ALL`), `conditions[]`, `location` (`country` required, `state` / `city` optional), `healthyVolunteer`, `recruitingOnly` (default true), `maxResults` (≤50), `locationLimit` (≤500)\n- Each candidate's locations are bounded to the sites matching the requested location, plus one recruiting site when none of those is open; `funnel` reports match counts per filter stage (condition → +location → +demographics)\n- Typed errors: `blank_value`, `rate_limited`\n\n---\n\n### `clinicaltrials://{nctId}` <sub>resource</sub>\n\n- Full protocol record as `application/json`, with locations, secondary/other outcomes, and references each capped at 50 — fixed server-side, no arguments\n- Results data is replaced by `resultsSummary` counts; `truncated` and `filtersApplied` disclose what was capped, with `retrieval` naming the tools that fetch the full data\n- Typed errors: `study_not_found`, `rate_limited`\n\n---\n\n### `analyze_trial_landscape` <sub>prompt</sub>\n\n- Arguments: `topic` required; `focusAreas` (comma-separated) optional\n- Returns one user message pointing the agent at the count, search, field-discovery, and results tools for a data-driven landscape analysis\n\n## Features\n\nBuilt on [`@cyanheads/mcp-ts-core`](https://github.com/cyanheads/mcp-ts-core): stdio and Streamable HTTP transports, pluggable auth (`none` / `jwt` / `oauth`), swappable storage (`in-memory`, `filesystem`, `Supabase`, `Cloudflare KV/R2/D1`), structured logging with optional OpenTelemetry tracing.\n\nClinicalTrials.gov-specific:\n\n- Type-safe client for the [ClinicalTrials.gov REST API v2](https://clinicaltrials.gov/data-api/api) — public, no authentication or API keys required\n- Serialized request queue enforcing ClinicalTrials.gov's ~1 req/sec rate limit, with retry and exponential backoff on 429/5xx responses\n- Auto-corrects field names passed to `fields`/`sort` — case/whitespace fixes and known legacy aliases (e.g. `RecruitmentStatus` → `OverallStatus`) — before validating, logging every correction\n- Detects upstream HTML error pages returned with a JSON content-type and retries rather than parsing them as data\n- Geographic proximity search and nearest-site re-ranking, with no geocoding dependency\n- Excludes ClinicalTrials.gov's \"unknown\" enrollment sentinel (`99999999`) from searches and counts by default — `includeUnknownEnrollment` brings it back, and an `nctIds` lookup never filters it\n\nAgent-friendly output:\n\n- Provenance — `clinicaltrials_search_studies` / `clinicaltrials_get_study_count` / `clinicaltrials_find_eligible` echo `searchCriteria` on every call, including `sentinelFilterActive` when the default unknown-enrollment exclusion applies, and `clinicaltrials_get_study_results` names `canonicalNctId` when a previous (alias) ID resolves to a different study\n- Graceful partial failure — `clinicaltrials_get_study_results` returns per-study `fetchErrors` / `studiesWithoutResults` rows instead of failing the whole batch when one ID is malformed or lacks results\n- Discriminated output — typed error `reason` codes per tool (`study_not_found`, `blank_value`, `offset_not_applicable`, …), and bounded lists (`filtersApplied`, `locationSummary`) carry a `next*Offset` only when more remains, so callers branch on presence instead of parsing text\n- Response shaping — `clinicaltrials_search_studies` and `clinicaltrials_find_eligible` return a compact per-study index or location-bounded set by default instead of the ~70KB full record, escalating to full fidelity only via `fields` or `clinicaltrials_get_study_record`\n\n## Getting started\n\n### Public Hosted Instance\n\nA public instance is available at `https://clinicaltrials.caseyjhand.com/mcp` — no installation required. Point any MCP client at it via Streamable HTTP:\n\n```json\n{\n  \"mcpServers\": {\n    \"clinicaltrialsgov-mcp-server\": {\n      \"type\": \"streamable-http\",\n      \"url\": \"https://clinicaltrials.caseyjhand.com/mcp\"\n    }\n  }\n}\n```\n\n### Self-Hosted / Local\n\nAdd the following to your MCP client configuration file.\n\n```json\n{\n  \"mcpServers\": {\n    \"clinicaltrialsgov-mcp-server\": {\n      \"type\": \"stdio\",\n      \"command\": \"bunx\",\n      \"args\": [\"clinicaltrialsgov-mcp-server@latest\"],\n      \"env\": {\n        \"MCP_TRANSPORT_TYPE\": \"stdio\",\n        \"MCP_LOG_LEVEL\": \"info\"\n      }\n    }\n  }\n}\n```\n\nOr with npx (no Bun required):\n\n```json\n{\n  \"mcpServers\": {\n    \"clinicaltrialsgov-mcp-server\": {\n      \"type\": \"stdio\",\n      \"command\": \"npx\",\n      \"args\": [\"-y\", \"clinicaltrialsgov-mcp-server@latest\"],\n      \"env\": {\n        \"MCP_TRANSPORT_TYPE\": \"stdio\",\n        \"MCP_LOG_LEVEL\": \"info\"\n      }\n    }\n  }\n}\n```\n\nOr with Docker:\n\n```json\n{\n  \"mcpServers\": {\n    \"clinicaltrialsgov-mcp-server\": {\n      \"type\": \"stdio\",\n      \"command\": \"docker\",\n      \"args\": [\"run\", \"-i\", \"--rm\", \"-e\", \"MCP_TRANSPORT_TYPE=stdio\", \"ghcr.io/cyanheads/clinicaltrialsgov-mcp-server:latest\"]\n    }\n  }\n}\n```\n\nFor Streamable HTTP, set the transport and start the server:\n\n```sh\nMCP_TRANSPORT_TYPE=http MCP_HTTP_PORT=3010 bun run start:http\n# Server listens at http://localhost:3010/mcp\n```\n\n### Prerequisites\n\n- [Bun v1.4.0](https://bun.sh/) or higher (or Node.js v24+).\n\n### Installation\n\n1. **Clone the repository:**\n\n```sh\ngit clone https://github.com/cyanheads/clinicaltrialsgov-mcp-server.git\n```\n\n2. **Navigate into the directory:**\n\n```sh\ncd clinicaltrialsgov-mcp-server\n```\n\n3. **Install dependencies:**\n\n```sh\nbun install\n```\n\n## Configuration\n\nAll configuration is optional — the server works with defaults and no API keys.\n\n| Variable | Description | Default |\n|:---|:---|:---|\n| `CT_API_BASE_URL` | ClinicalTrials.gov API base URL. | `https://clinicaltrials.gov/api/v2` |\n| `CT_REQUEST_TIMEOUT_MS` | Per-request timeout in milliseconds. | `30000` |\n| `CT_MAX_PAGE_SIZE` | Maximum page size cap. | `200` |\n| `MCP_TRANSPORT_TYPE` | Transport: `stdio` or `http`. | `stdio` |\n| `MCP_HTTP_PORT` | Port for HTTP server. | `3010` |\n| `MCP_SESSION_MODE` | HTTP session mode: `stateless`, `stateful`, or `auto`. | `stateless` |\n| `MCP_AUTH_MODE` | Auth mode: `none`, `jwt`, or `oauth`. | `none` |\n| `MCP_LOG_LEVEL` | Log level (RFC 5424). | `info` |\n| `LOGS_DIR` | Directory for log files (Node.js only). | `<project-root>/logs` |\n| `OTEL_ENABLED` | Enable OpenTelemetry tracing. | `false` |\n| `OTEL_EXPORTER_OTLP_ENDPOINT` | OTLP base URL; traces export to `/v1/traces`, metrics to `/v1/metrics`. Unset exports nothing. | — |\n| `OTEL_EXPORTER_OTLP_LOGS_ENDPOINT` | Opt-in OTLP log export; the base endpoint never enables it. | — |\n| `LOG_TOOL_FAILURE_PAYLOADS` | Log each failed tool call's arguments and result, redacted by key name and capped at `LOG_TOOL_FAILURE_PAYLOAD_MAX_BYTES` (default `16384`). A secret inside a free-form value is not redacted. | `false` |\n\nSee [`.env.example`](./.env.example) for the full list of optional overrides.\n\n## Running the server\n\n### Local development\n\n- **Build and run:**\n\n  ```sh\n  # One-time build\n  bun run rebuild\n\n  # Run the built server\n  bun run start:http\n  # or\n  bun run start:stdio\n  ```\n\n- **Run checks and tests:**\n\n  ```sh\n  bun run devcheck   # Lint, format, typecheck, and security audit\n  bun run test       # Vitest test suite\n  bun run lint:mcp   # Validate MCP definitions against spec\n  ```\n\n### Docker\n\n```sh\ndocker build -t clinicaltrialsgov-mcp-server .\ndocker run --rm -p 3010:3010 clinicaltrialsgov-mcp-server\n```\n\nThe Dockerfile defaults to HTTP transport, stateless session mode, and logs to `/var/log/clinicaltrialsgov-mcp-server`. OpenTelemetry peer dependencies are installed by default — build with `--build-arg OTEL_ENABLED=false` to omit them.\n\n## Project structure\n\n| Directory | Purpose |\n|:---|:---|\n| `src/index.ts` | `createApp()` entry point — registers tools/resources/prompts and inits the ClinicalTrials.gov service. |\n| `src/config` | Server-specific environment variable parsing and validation with Zod. |\n| `src/mcp-server/tools` | Tool definitions (`*.tool.ts`). |\n| `src/mcp-server/resources` | Resource definitions (`*.resource.ts`). |\n| `src/mcp-server/prompts` | Prompt definitions (`*.prompt.ts`). |\n| `src/services/clinical-trials` | ClinicalTrials.gov REST API v2 client — retry, rate limiting, field search, types. |\n| `tests/` | Unit and integration tests. |\n\n## Development guide\n\nSee [`CLAUDE.md`](./CLAUDE.md) for development guidelines and architectural rules. The short version:\n\n- Handlers throw, framework catches — no `try/catch` in tool logic\n- Use `ctx.log` for request-scoped logging, no `console` calls\n- Register new tools and resources via the barrels in `src/mcp-server/*/definitions/index.ts`\n- Validate raw API responses, normalize to domain types, and never fabricate missing fields\n\n## Contributing\n\nIssues are welcome. Run checks and tests before submitting:\n\n```sh\nbun run devcheck\nbun run test\n```\n\n## License\n\nApache-2.0 — see [LICENSE](LICENSE) for details.\n","readmeFilename":"README.md"}