cBioPortal MCP Server

MIT License

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get_clinical_data

Retrieve clinical data for specific or all patient attributes in a study using pagination. Supports sorting, filtering, and customizable results via study ID on the cBioPortal MCP Server.

Instructions

Get clinical data for patients in a study with pagination support. Can fetch specific attributes or all.

Input Schema

Name	Required	Default
`attribute_ids`	No
`direction`	No	ASC
`limit`	No
`page_number`	No
`page_size`	No
`sort_by`	No
`study_id`	Yes

Input Schema (JSON Schema)

{
  "additionalProperties": false,
  "properties": {
    "attribute_ids": {
      "anyOf": [
        {
          "items": {
            "type": "string"
          },
          "type": "array"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "title": "Attribute Ids"
    },
    "direction": {
      "default": "ASC",
      "title": "Direction",
      "type": "string"
    },
    "limit": {
      "anyOf": [
        {
          "type": "integer"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "title": "Limit"
    },
    "page_number": {
      "default": 0,
      "title": "Page Number",
      "type": "integer"
    },
    "page_size": {
      "default": 50,
      "title": "Page Size",
      "type": "integer"
    },
    "sort_by": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "title": "Sort By"
    },
    "study_id": {
      "title": "Study Id",
      "type": "string"
    }
  },
  "required": [
    "study_id"
  ],
  "type": "object"
}

Install Server

HTTP connection URL

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