draw_graph

Visualize single-cell RNA sequencing data using force-directed graph drawing. Customize layouts (fa, fr, kk), define node positions, and ensure reproducibility for clear, interpretable representations.

Instructions

Force-directed graph drawing for visualization

Input Schema

Name	Required	Description	Default
`init_pos`	No	Initial position for nodes ('paga'/True, False, or .obsm key)
`key_added_ext`	No	Suffix for storing results in .obsm
`layout`	No	Graph layout algorithm ('fa', 'fr', 'kk', etc.)	fa
`n_jobs`	No	Number of jobs for parallel computation
`neighbors_key`	No	Key for neighbors settings in .uns
`obsp`	No	Key for adjacency matrix in .obsp
`random_state`	No	Random seed for reproducibility
`root`	No	Root node for tree layouts

Input Schema (JSON Schema)

{
  "description": "Input schema for the force-directed graph drawing tool.",
  "properties": {
    "init_pos": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "boolean"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Initial position for nodes ('paga'/True, False, or .obsm key)",
      "title": "Init Pos"
    },
    "key_added_ext": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Suffix for storing results in .obsm",
      "title": "Key Added Ext"
    },
    "layout": {
      "default": "fa",
      "description": "Graph layout algorithm ('fa', 'fr', 'kk', etc.)",
      "title": "Layout",
      "type": "string"
    },
    "n_jobs": {
      "anyOf": [
        {
          "exclusiveMinimum": 0,
          "type": "integer"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Number of jobs for parallel computation",
      "title": "N Jobs"
    },
    "neighbors_key": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Key for neighbors settings in .uns",
      "title": "Neighbors Key"
    },
    "obsp": {
      "anyOf": [
        {
          "type": "string"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Key for adjacency matrix in .obsp",
      "title": "Obsp"
    },
    "random_state": {
      "default": 0,
      "description": "Random seed for reproducibility",
      "title": "Random State",
      "type": "integer"
    },
    "root": {
      "anyOf": [
        {
          "minimum": 0,
          "type": "integer"
        },
        {
          "type": "null"
        }
      ],
      "default": null,
      "description": "Root node for tree layouts",
      "title": "Root"
    }
  },
  "title": "DrawGraphModel",
  "type": "object"
}

SCMCP

draw_graph

Instructions

Input Schema

Input Schema (JSON Schema)

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MCP directory API