anndata-mcp
Server Configuration
Describes the environment variables required to run the server.
| Name | Required | Description | Default |
|---|---|---|---|
No arguments | |||
Instructions
Guidance the server publishes about itself, which clients place ahead of the tool catalog so the model reads it before choosing anything.
This server publishes no instructions, or was last inspected before Glama recorded them.
Capabilities
Features and capabilities supported by this server
Protocol revision2025-11-25
| Capability | Details |
|---|---|
| tools | {
"listChanged": true
} |
| prompts | {
"listChanged": false
} |
| resources | {
"subscribe": false,
"listChanged": false
} |
| extensions | {
"io.modelcontextprotocol/ui": {}
} |
| experimental | {} |
Tools
Functions exposed to the LLM to take actions
| Name | Description |
|---|---|
| view_raw_dataC | View the raw data of an AnnData object. |
| get_summaryB | Get a summary of an AnnData object from a file or URL. |
| get_descriptive_statsA | Provide basic descriptive statistics (e.g., count, mean, std, min, max, etc. or value counts) for an attribute or attribute value of an optionally filtered AnnData object. |
Prompts
Interactive templates invoked by user choice
| Name | Description |
|---|---|
No prompts | |
Resources
Contextual data attached and managed by the client
| Name | Description |
|---|---|
No resources | |
TDQS
Scored across 3 tools
The three tools have distinct purposes: view_raw_data displays raw data, get_summary provides a structural overview, and get_descriptive_stats computes statistical summaries. While summary and stats could overlap slightly, their focus on structure vs. attribute-level statistics keeps them distinguishable.
All tool names follow a consistent verb_noun pattern using 'view_' or 'get_' prefixes, making the naming predictable and easy to understand.
With only 3 tools, the server is on the thin side but appropriate for a focused read-only inspection toolset. It is not too sparse to be useless, but it offers limited functionality.
The server is missing common AnnData operations such as listing attributes, accessing subsets, or modifying/saving data. This creates significant gaps for users expecting a more complete workflow, though basic inspection is covered.