Ensembl MCP Server

MIT License

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get_gene_tree

Generate a phylogenetic tree for a gene family using an Ensembl gene ID, with options for species, tree format, and clusterset ID. Accessible via the Ensembl MCP Server.

Instructions

Get phylogenetic tree for gene family

Input Schema

Name	Required	Description
`clusterset_id`	No	Specific clusterset ID (optional)
`format`	No	Tree format (default: json)
`gene_id`	Yes	Ensembl gene ID
`species`	No	Species name (default: homo_sapiens)

Input Schema (JSON Schema)

{
  "properties": {
    "clusterset_id": {
      "description": "Specific clusterset ID (optional)",
      "type": "string"
    },
    "format": {
      "description": "Tree format (default: json)",
      "enum": [
        "json",
        "newick",
        "phyloxml"
      ],
      "type": "string"
    },
    "gene_id": {
      "description": "Ensembl gene ID",
      "type": "string"
    },
    "species": {
      "description": "Species name (default: homo_sapiens)",
      "type": "string"
    }
  },
  "required": [
    "gene_id"
  ],
  "type": "object"
}

Install Server

HTTP connection URL

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