Chat Spatial MCP Server

Schema-enforced spatial transcriptomics analysis with 20 tools and 66 methods via MCP. It runs locally over stdio via the published package.

People who work with bioinformatics, cell communication and deconvolution and want it reachable from Claude, Cursor, VS Code, or another MCP client. The project is written in Python.

VERIFIED ACTIVE

LAST COMMIT 2026-08-15 · ★ 44 · #31 OF 106 MAINTAINED AI & ML · VERIFIED 2026-09-18

MIT · Python servers · how we verify → /methodology

01 · Install Chat Spatial

before you install - you'll need

The README does not document required environment variables for a basic install.

Claude Code

claude mcp add cafferychen777-chatspatial -- uvx chatspatial

Claude Desktop / Cursor / VS Code - add to config

{
  "mcpServers": {
    "cafferychen777-chatspatial": {
      "command": "uvx",
      "args": [
        "chatspatial"
      ]
    }
  }
}

Same JSON for Cursor. For VS Code, rename the top-level key from `mcpServers` to `servers`.

Using another client? Same JSON, different key

Claude Desktop · mcpServers

Cursor · mcpServers

VS Code · servers

Windsurf · mcpServers

Zed · context_servers

Cline · mcpServers

Roo Code · mcpServers

Continue · mcpServers

LibreChat · mcpServers

Gemini CLI · mcpServers

Codex CLI · mcp_servers

Full setup guides: every client.

02 · Evidence

Security posture

What to check before giving this server access to your agent - from the registry, GitHub, and our own probes. We don't score safety; we show what's verifiable.

runs as local process (stdio) - runs on your machine with your user's permissions

license MIT - declared in the repository

pypi package chatspatial - check the name against the project README before installing (PyPI has no namespace ownership)

registry namespace io.github.cafferychen777 is GitHub-verified and matches the repo owner

03 · What Chat Spatial can do

Prose above is summarized from the project's README and registry record - no invented capabilities.

Latest releases

v1.5.3 · 2026-08-15

v1.5.2 · 2026-08-14

v1.5.1 · 2026-08-14

04 · Who maintains Chat Spatial

ChatSpatial is maintained by cafferychen777. It's the only MCP server we track from this author; the repo dates to May 2025.

05 · Facts

repository: github.com/cafferychen777/chatspatial
website: https://docs.cafferyang.com/
category: AI & ML - ranked #31 of 106 actively-maintained AI & ML servers as of 2026-09-18.
release cadence: 10+ releases in the last 90 days (latest 2026-08-15)
registry: io.github.cafferychen777/chatspatial (active, first published 2026-01-06 · 20 versions)
packages: pypi:chatspatial

06 · Chat Spatial FAQ

What is Chat Spatial?

Schema-enforced spatial transcriptomics analysis with 20 tools and 66 methods via MCP. It runs locally over stdio via the published package.

Is Chat Spatial still maintained?

Yes - as of 2026-09-18, its last commit was 2026-08-15 and it shipped 10+ releases in the last 90 days. We re-verify nightly.

How do I install Chat Spatial?

Run `uvx chatspatial`. The README does not document required environment variables for a basic install. You can also paste the ready-made client config above.

Does Chat Spatial run locally?

Yes - it's a stdio server: it runs on your machine (via uvx) with your user's permissions. Your data stays local unless the server itself calls external APIs.

07 · Alternatives to Chat Spatial

Alternatives to Chat Spatial

Maintained AI & ML servers if Chat Spatial isn't the fit.

Pairs well with

Servers that cover what Chat Spatial doesn't - only shown when the pairing reason fits the companion.

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