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cafferychen777/ChatSpatial

MCP server for spatial transcriptomics analysis through natural language interfaces.

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Our verdict

Not reviewed yet

We have not reviewed cafferychen777/ChatSpatial yet

No one at Enterprise DNA has checked this listing against its sources. The description comes from public listings gathered automatically. Any fact below shows where it came from and when it was last checked.

How we review records

From the listing

About cafferychen777/ChatSpatial

ChatSpatial is an MCP server that enables spatial transcriptomics analysis through natural language queries. It translates user requests into computational workflows for processing spatial gene expression data.

Best for

Biologists and bioinformaticians who want to analyze spatial gene expression data via conversational interfaces.

Use cases

  • Query spatial gene expression patterns using natural language
  • Automate spatial transcriptomics data analysis pipelines
  • Integrate spatial biology analysis into AI agent workflows

Notes

39 stars on GitHub. Last updated 2026-05-25. Licensed MIT.

Pros

  • Lowers the barrier to spatial transcriptomics analysis for non-programmers
  • Leverages the MCP protocol for integration with AI assistants
  • Open source with Python, enabling customization

Cons

  • Limited to spatial transcriptomics, not a general-purpose tool
  • Small community (39 stars) may mean fewer resources and updates
  • Requires understanding of spatial biology to interpret results

Key facts

What we have checked

Days since the last commit
5
Checked GitHub
GitHub forks
14
Checked GitHub
GitHub stars
45
Checked GitHub
Days to a first reply on issues
0.2
Checked GitHub
Open issues
4
Checked GitHub
Releases in the last 90 days
22
Checked GitHub

Each value shows when we last confirmed it and where it came from. Values we have not confirmed are left out, never guessed.

How to use

How to set it up

As the listing publishes it. We have not run this install.

Install

uvx --from chatspatial chatspatial server

Tools exposed

  • chatspatial

Clients the listing names (not checked here)

Claude Desktop, Claude Code, Codex, OpenCode

Install

Add cafferychen777/ChatSpatial to your client

Not verified yet

Our lab has not run this server yet. "Config checked" on a client means the recipe matches that client's documented config format; it does not mean we ran it.

Claude Code

Config checked

Run in your terminal (runs on your computer)

claude mcp add --transport stdio cafferychen777-chatspatial -- uvx chatspatial@1.6.0 server

Version 1.6.0 · From the Official MCP registry, read · Format checked against Claude Code's config docs

Claude Desktop

Config checked

Add to claude_desktop_config.json (runs on your computer)

{
  "mcpServers": {
    "cafferychen777-chatspatial": {
      "command": "uvx",
      "args": [
        "chatspatial@1.6.0",
        "server"
      ]
    }
  }
}

Version 1.6.0 · From the Official MCP registry, read · Format checked against Claude Desktop's config docs

Cursor

Config checked

Add to .cursor/mcp.json (runs on your computer)

{
  "mcpServers": {
    "cafferychen777-chatspatial": {
      "command": "uvx",
      "args": [
        "chatspatial@1.6.0",
        "server"
      ]
    }
  }
}

Version 1.6.0 · From the Official MCP registry, read · Format checked against Cursor's config docs

VS Code

Config checked

Add to .vscode/mcp.json (runs on your computer)

{
  "servers": {
    "cafferychen777-chatspatial": {
      "type": "stdio",
      "command": "uvx",
      "args": [
        "chatspatial@1.6.0",
        "server"
      ]
    }
  }
}

Version 1.6.0 · From the Official MCP registry, read · Format checked against VS Code's config docs

Codex

Config checked

Add to ~/.codex/config.toml (runs on your computer)

[mcp_servers.cafferychen777-chatspatial]
command = "uvx"
args = ["chatspatial@1.6.0", "server"]

Version 1.6.0 · From the Official MCP registry, read · Format checked against Codex's config docs

  • ChatGPT: ChatGPT connects only to remote servers that need no API key.

Recipes come from the server's entry in the official MCP registry. Check the package name before you run it, and keep keys out of shared files.

Works with

What cafferychen777/ChatSpatial connects to

5 clients, each with how we know and when we checked.

Works withTypeHow we knowChecked
Claude CodeClientInstall recipe matches the client's documented formatRuns locally, version 1.6.0Config checkedClaude Code docs
Claude DesktopClientInstall recipe matches the client's documented formatRuns locally, version 1.6.0Config checkedClaude Desktop docs
CursorClientInstall recipe matches the client's documented formatRuns locally, version 1.6.0Config checkedCursor docs
VS CodeClientInstall recipe matches the client's documented formatRuns locally, version 1.6.0Config checkedVS Code docs
CodexClientInstall recipe matches the client's documented formatRuns locally, version 1.6.0Config checkedCodex docs

Health and security

Is cafferychen777/ChatSpatial looked after, and what do its setup files show

Health score

65 out of 100

Does someone look after this repository? It does not say the code is good or safe. Worked out from GitHub signals checked . How it is worked out

PartPointsWhat we saw
Recent activity30 of 30Last push 5 days ago
Releases15 of 1522 releases in 90 days
Issue replies20 of 20First reply in 0.2 days (median)
Maintainer0 of 15Owned by a single user
Official source0 of 20Community server

Sources

Where this comes from

  • GitHubRegistry

    Checked · Days since the last commit, GitHub forks, GitHub stars, Days to a first reply on issues, Open issues, Releases in the last 90 days

A source shows what was published when we checked it. It does not certify security, performance or a working installation. Read our method.

Changelog

What changed

No changes recorded yet. Releases, price changes and deprecations appear here, with their dates, once we track them for this record.

Pairs with

Other entries in the index that connect to this one. Click through to see the chain.

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