generated: '2026-07-18'
method: derived
status: candidate
source: openapi/biodock-public-api-openapi.yml
note: No official hosted/remote MCP server was found for Biodock. This is a candidate tool list derived
  one-to-one from the documented public REST API operations, to seed a future MCP server. Auth is a single
  X-API-KEY header.
server:
  name: biodock
  transport: http
  auth:
    type: apiKey
    header: X-API-KEY
tools:
- name: check_api_key
  description: Verify that the API key is valid and return the associated user.
  source_operation: openapi/biodock-public-api-openapi.yml#checkApiKey
- name: upload_file
  description: Upload a file to the Biodock Filesystem (up to 2 GB).
  source_operation: openapi/biodock-public-api-openapi.yml#uploadFile
- name: list_filesystem_items
  description: List files and folders in the Biodock Filesystem.
  source_operation: openapi/biodock-public-api-openapi.yml#listFilesystemItems
- name: submit_analysis_job
  description: Submit an analysis job against a published pipeline over uploaded files.
  source_operation: openapi/biodock-public-api-openapi.yml#submitAnalysisJob
- name: fetch_analysis_job
  description: Fetch the progress and results of a specific analysis job.
  source_operation: openapi/biodock-public-api-openapi.yml#fetchAnalysisJob
- name: list_analysis_jobs
  description: List the progress of all analysis jobs.
  source_operation: openapi/biodock-public-api-openapi.yml#listAnalysisJobs
- name: submit_download_masks_job
  description: Generate the downloadable segmentation masks for an analysis job.
  source_operation: openapi/biodock-public-api-openapi.yml#submitDownloadMasksJob
- name: fetch_download_masks_job
  description: Fetch mask-generation progress and the masks download link.
  source_operation: openapi/biodock-public-api-openapi.yml#fetchDownloadMasksJob
- name: list_pipelines
  description: List active, published analysis pipelines.
  source_operation: openapi/biodock-public-api-openapi.yml#listPipelines
deployment:
  mode: none
  verified: derived
  tools: 9
  checked: '2026-08-12'
  source: catalog MCP census