Neo4j GDS Agent

Name: Neo4j GDS Agent
Author: neo4j-contrib

by neo4j-contribversion 1.1.0i★ –iRuns on your computer

Registry nameio.github.neo4j-contrib/gds-agent

Install

Overview

Description from the maker (original English)

Neo4j Graph Data Science MCP server

PopNx MCP’s three pillars

These three are never merged into one score: opinions, measurements and popularity are different things.

User voiceiNo reviews yetReviews open together with accounts in a later step
Our basic checksi1 of 1 passedChecked from public information; code not scanned yet
UsageiVery new↓ 35/wk · ★ –

What you can do with it

We have not written a plain-language summary for this one yet. Below are the facts we read from the registry.

Connection: Runs on your computer
Transport: stdio
Category: Other
You need to fill in: NEO4J_URI, NEO4J_USERNAME, NEO4J_PASSWORD, AURA_API_CLIENT_SECRET

Install

Pick the AI app you use, then copy the settings.

Before you install

Basic checks: 1 of 1 passed
Runs on your computer with your user’s permissions (files, network, apps).
You fill in yourself: NEO4J_URI, NEO4J_USERNAME, NEO4J_PASSWORD, NEO4J_DATABASE, AURA_API_CLIENT_ID, AURA_API_CLIENT_SECRET, AURA_API_PROJECT_ID

Values marked secret are keys to your account. Never share them or paste them into a chat.

You need

PyPIPython’s uv installed (for the uvx command)

Which app do you use?

ClaudeClaude CodeCursorVS CodeChatGPT

Pick your app above. We remember it, so next time the button says “Install in …”.

Open Claude Desktop → Settings → Developer → Edit Config, and paste this into claude_desktop_config.json

{
  "mcpServers": {
    "gds-agent": {
      "command": "uvx",
      "args": [
        "gds-agent"
      ],
      "env": {
        "NEO4J_URI": "your-value",
        "NEO4J_USERNAME": "your-value",
        "NEO4J_PASSWORD": "your-value",
        "NEO4J_DATABASE": "your-value",
        "AURA_API_CLIENT_ID": "your-value",
        "AURA_API_CLIENT_SECRET": "your-value",
        "AURA_API_PROJECT_ID": "your-value"
      }
    }
  }
}

Run this in your terminal

claude mcp add gds-agent --env NEO4J_URI=your-value --env NEO4J_USERNAME=your-value --env NEO4J_PASSWORD=your-value --env NEO4J_DATABASE=your-value --env AURA_API_CLIENT_ID=your-value --env AURA_API_CLIENT_SECRET=your-value --env AURA_API_PROJECT_ID=your-value -- uvx gds-agent

Fill in the empty values before running it.

Open in Cursor

Or copy the settings yourself

Paste into .cursor/mcp.json in your project, or ~/.cursor/mcp.json

{
  "mcpServers": {
    "gds-agent": {
      "command": "uvx",
      "args": [
        "gds-agent"
      ],
      "env": {
        "NEO4J_URI": "your-value",
        "NEO4J_USERNAME": "your-value",
        "NEO4J_PASSWORD": "your-value",
        "NEO4J_DATABASE": "your-value",
        "AURA_API_CLIENT_ID": "your-value",
        "AURA_API_CLIENT_SECRET": "your-value",
        "AURA_API_PROJECT_ID": "your-value"
      }
    }
  }
}

Your browser asks to open the app, then the app shows the settings and asks you to confirm. Key values are left empty for you to fill in.

Open in VS Code

Or copy the settings yourself

Paste into .vscode/mcp.json in your project

{
  "servers": {
    "gds-agent": {
      "type": "stdio",
      "command": "uvx",
      "args": [
        "gds-agent"
      ],
      "env": {
        "NEO4J_URI": "your-value",
        "NEO4J_USERNAME": "your-value",
        "NEO4J_PASSWORD": "your-value",
        "NEO4J_DATABASE": "your-value",
        "AURA_API_CLIENT_ID": "your-value",
        "AURA_API_CLIENT_SECRET": "your-value",
        "AURA_API_PROJECT_ID": "your-value"
      }
    }
  }
}

Your browser asks to open the app, then the app shows the settings and asks you to confirm. Key values are left empty for you to fill in.

This one runs on your computer, and ChatGPT can only connect to servers on the internet. Pick another app.

Your choice stays on this device in a cookie; no account needed.

Values you fill in

NEO4J_URI required env
Neo4j connection URI (neo4j:// or neo4j+s://)
NEO4J_USERNAME required env
Neo4j username
NEO4J_PASSWORD secret required env
Neo4j password
NEO4J_DATABASE env
Neo4j database name
AURA_API_CLIENT_ID env
Aura API client ID (enables Aura Graph Analytics session mode)
AURA_API_CLIENT_SECRET secret env
Aura API client secret
AURA_API_PROJECT_ID env
Aura project ID (only if the API client can access multiple projects)

These settings are generated from the maker’s registry entry. If the README says otherwise, follow the README.

What it can do

Runs on your computer; the tool list appears in your AI app after you install it.

Basic checksi

We check information anyone can see; we have not read the code. Checks that do not apply are left out of the count. · Checked Nov 8, 2026

✓ Pass
Maker matches the repo
The registry name was verified with the GitHub account neo4j-contrib, which owns the repo
… Not checked yet
Still maintained
We have not read this repo from GitHub yet
… Not checked yet
Has a licence
We have not read this repo from GitHub yet
– Not applicable
Endpoint responds
This one runs on your computer; there is no internet endpoint
– Not applicable
Sign-in with OAuth
Runs on your computer and uses local settings instead
… Not checked yet
No hidden instructions in tool descriptions
Runs on your computer; we can only read tool lists from internet endpoints

Compared with others in Otheri

More stars than 0% of the other 18584 servers in this category
Published to the registry more recently than 62% of the other 18584 servers in this category
Basic checks equal to or better than 100% of the other 18584 servers in this category

Compared with every active server in this category in the registry. Stars count only when the publisher owns the repo.

Common questions

Is Neo4j GDS Agent safe?

It passed 1 of 1 applicable basic checks. We have not read the code. Before adding a key or token, see what access the server asks for and use a key with only the permissions you need.

What keys or codes does it need?

You need to fill in: NEO4J_URI, NEO4J_USERNAME, NEO4J_PASSWORD, AURA_API_CLIENT_SECRET

Does it run on my computer or in the cloud?

It runs on your computer. Your AI app starts it when needed, and data does not pass through the maker’s servers (unless it calls an online service itself).

Is it still maintained?

The GitHub repo last changed –, and the latest version (1.1.0) reached the registry 27 days ago.

Which apps can use it?

Apps that support MCP, such as Claude Desktop, Claude Code, Cursor and VS Code. You also need Python (uv) on your computer.

What can I use instead?

In the same category: Spec Driven Development, Remote Desktop Commander, aamio rendezvous

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README from the maker

Open the README

Copied from the maker’s repo as written. PopNx MCP has not reviewed or endorsed it. HTML, images and scripts are removed. Links lead off this site.

GDS Agent

The GDS Agent let LLMs reason and do data science work on your graph data in Neo4j, by using two artifacts:

Tools — an MCP server exposing Neo4j Graph Data Science (GDS) algorithms: centrality, community detection, path finding, similarity, node embeddings, and ML pipelines.
Skills — an agent skill (neo4j-graph-data-scientist) teaching the agent how and when to use those tools and best practices for doing data science on graphs.

It works with any MCP-capable harness — Claude Code, Claude Desktop, claude.ai, OpenAI Codex, Cursor, VS Code/Copilot, Gemini CLI — and programmatically from agent frameworks. It uses the GDS plugin on self-managed Neo4j and GDS Aura Graph Analytics sessions on AuraDB, over STDIO or HTTP transport.

Once set up, you can ask any graph question about your Neo4j graph and get answers. You can collaborate with the agent as a graph data scientist to solve complex tasks.

Install

Harness	Tools (MCP)	Skill	Guide
Claude Code	`/plugin marketplace add neo4j-contrib/gds-agent` → `/plugin install gds-agent@neo4j-gds`	bundled with the plugin	setup
Claude Desktop	download the `.mcpb` from releases, double-click	upload the skill zip in Settings → Skills	setup
OpenAI Codex	`codex mcp add neo4j-gds -- uvx gds-agent`	`npx skills add neo4j-contrib/gds-agent -a codex`	setup
Cursor	one-click badge	`npx skills add neo4j-contrib/gds-agent -a cursor`	setup
VS Code / Copilot	one-click badge or `.vscode/mcp.json`	`npx skills add neo4j-contrib/gds-agent -a copilot`	setup
Gemini CLI	`gemini extensions install https://github.com/neo4j-contrib/gds-agent`	bundled with the extension	setup
Your own agent	any MCP client (stdio/HTTP)	inject SKILL.md as instructions	setup

Most local setups need uv installed (the server runs via uvx gds-agent from PyPI). Generic MCP clients run uvx gds-agent over stdio with the environment variables below.

Configuration reference

Set as environment variables (or the credential form of your harness's installer):

Variable	Required	Purpose
`NEO4J_URI`	yes	`neo4j://` or `neo4j+s://` connection URI
`NEO4J_USERNAME` / `NEO4J_PASSWORD`	yes	database credentials
`NEO4J_DATABASE`	no	database name (defaults to `neo4j`)
`AURA_API_CLIENT_ID` / `AURA_API_CLIENT_SECRET`	session mode	Aura API credentials for Aura Graph Analytics
`AURA_API_PROJECT_ID`	no	only if the API client can access multiple projects
`SESSION_MEMORY_GB` / `SESSION_TTL_HOURS`	no	session defaults (8 GB / 12 h)
`SESSION_TIMEOUT_SECONDS`	no	seconds to wait for a session to become Ready
`GDS_AGENT_MAX_RESULT_ROWS` / `_CHARS` / `_CELL_CHARS`	no	tool output limits (500 / 100000 / 200)
`NEO4J_READ_ONLY`	no	`write_neo4j_cypher` stays hidden unless this is `false`

By default the server uses STDIO transport for local MCP clients. For HTTP-native clients, run the server with streamable HTTP:

gds-agent --transport http --host 127.0.0.1 --port 8000 --path /mcp

The equivalent environment variables are GDS_AGENT_TRANSPORT, GDS_AGENT_HOST, GDS_AGENT_PORT, and GDS_AGENT_PATH. The Neo4j MCP-style NEO4J_TRANSPORT and NEO4J_MCP_SERVER_* names are also supported.

GDS Aura Graph Analytics (sessions)

The server detects whether the connected Neo4j has the GDS plugin installed or whether to use a GDS Aura Graph Analytics session. Detection runs gds.session.list() on startup; if it succeeds, session mode is used and graph projections fall back to gds.graph.project.remote.

Session mode requires Aura API credentials (see the configuration reference above) in the same .env file or env block as the database credentials. Sessions are managed explicitly by the agent: three extra tools become available in session mode (list_sessions, create_session, and delete_session). A session must first be created with create_session, project_graph_cypher then projects each graph into the session named by its required sessionName parameter, and algorithm calls are routed to the right session automatically by graphName. Most workflows need a single session holding all graphs; multiple sessions allow running analyses in parallel. To resize a session (e.g. after an OOM), delete it and create it again with a larger memoryGB. All sessions created by the server are named with an mcp_ prefix. Aura sessions are charged separate to the DB.

The skill

[skills/neo4j-graph-data-scientist](skills/neo4j-graph-data-scientist/SKILL.md) is consumed from this one location by the Claude Code plugin, the Gemini extension, npx skills, and the release skill zip. It covers GDS-specific workflow best practices with a troubleshooting reference guide, as well as general data science best practices.

Cypher tools

read_neo4j_cypher, write_neo4j_cypher, and get_neo4j_schema are tools on this server. get_neo4j_schema calls APOC (apoc.meta.schema). write_neo4j_cypher is left off the tool list unless NEO4J_READ_ONLY=false.

Example dataset

To load a London underground example dataset:

Fork and clone the repository
Install the Neo4j database with GDS plugin: Download the Neo4j Desktop from Neo4j Download Center Install the GDS plugin from the Neo4j Desktop Create a new database and start it
Populate .env file with necessary credentials:

   NEO4J_URI=bolt://localhost:7687  # or your database URI

NEO4J_USERNAME=neo4j # or your db username NEO4J_PASSWORD=your_password

4. Load the London Underground dataset with the following command ([uv](https://docs.astral.sh/uv/getting-started/installation/) resolves the script's dependencies automatically):

   uv run import_data.py --undirected

Connect to your DB and querying the graph from Neo4j workspace, you should see: London Underground Graph

Start the server for dev

When inside the /mcp_server directory, run uv sync --dev and run uv run gds-agent to start the MCP server standalone, or run claude to start claude-cli with the agent.
To try the plugin (MCP server + skill) from your working tree: claude --plugin-dir . from the repository root.

Releases

Version numbers are kept in lockstep across pyproject.toml and all distribution manifests by scripts/bump_version.py. Pushing a v* tag triggers the release workflow.

How to contribute

Open a pull request from a branch of your forked repository into the main branch of this repo, for example mygithubid:add-new-algo -> neo4j-contrib:main.

The CI build in github action requires all codestyle checks and tests to pass.

To run and fix codestyle checks locally, in the /mcp_server directory, run:

uv sync --dev

to setup the python environment. And then,

uv run pytest tests -v -s

uv run ruff check uv run ruff format

for all tests and codestyle fixes.

Feature request and bug reports

To report a bug or a new feature request, raise an issue. If it is a bug, include the full stacktrace and errors. When available, attach relevant logs in mcp_server_neo4j_gds.log. This file is located inside the /mcp_server/src_mcp_server_neo4j_gds directory if the gds agent is running from source, or inside the logging path for Claude (e.g /Library/Logs/Claude for Claude Desktop on Mac). Include relevant minimal dataset that can be used to reproduce the issue if possible.

Additional resources

The GDS agent can be used with other MCP servers, such as those that provide additional Neo4j toolings: https://github.com/neo4j-contrib/mcp-neo4j Arxiv paper including details about the architecture and benchmark results: https://arxiv.org/abs/2508.20637.

Neo4j GDS Agent

Overview

PopNx MCP’s three pillars

What you can do with it

Install

Before you install

Values you fill in

What it can do

Basic checksi

Maker matches the repo

Still maintained

Has a licence

Endpoint responds

Sign-in with OAuth

No hidden instructions in tool descriptions

Compared with others in Otheri

Common questions

Alternatives

Spec Driven Development

Remote Desktop Commander

aamio rendezvous

README from the maker

GDS Agent

Install

Configuration reference

GDS Aura Graph Analytics (sessions)

The skill

Cypher tools

Example dataset

Start the server for dev

Releases

How to contribute

Feature request and bug reports

Additional resources