Model Context Protocol (MCP) server for Omics AI Explorer - enables AI agents to conversationally query genomics data
If you already use Omics Ai MCP, the omics ai mcp mcp server is the piece that lets your assistant work with it directly. Model Context Protocol (MCP) server for Omics AI Explorer - enables AI agents to conversationally query genomics data.
This MCP server wraps the functionality of the omics-ai-python-library to provide AI agents with seamless access to genomics data across multiple Omics AI Explorer networks including:
Setup follows the usual MCP pattern — install or clone the server, register it in your client's configuration file, restart the client. The configuration blocks on this page cover the common clients.
The toolset is worth reading before you wire it up, because it tells you what the integration is really for:
list_collections — The list_collections tool exposed by this serverlist_tables — The list_tables tool exposed by this serverget_schema_fields — The get_schema_fields tool exposed by this serverquery_table — Queries data from a table with optional filtering and paginationcount_rows — The count_rows tool exposed by this serversql_search — Executes direct SQL queries against a collection using Trino syntax with enhanced result formattingPlenty of database access servers cover similar ground. The differences that matter in practice are scope of access and how much setup stands between you and a working tool call. Omics Ai MCP's toolset — list_collections, list_tables, get_schema_fields and 3 more — is a fair guide to whether it matches your workflow. It is maintained by mfiume; worth a glance at recent repository activity before you build anything load-bearing on it.
We check each listing at SyncDev against the project's documentation before it goes live — if something here drifts out of date, it is a bug worth reporting.
| Tool | What it does |
|---|---|
| list_collections | The list_collections tool exposed by this server. |
| list_tables | The list_tables tool exposed by this server. |
| get_schema_fields | The get_schema_fields tool exposed by this server. |
| query_table | Queries data from a table with optional filtering and pagination. |
| count_rows | The count_rows tool exposed by this server. |
| sql_search | Executes direct SQL queries against a collection using Trino syntax with enhanced result formatting. |
{
"mcpServers": {
"omics-ai": {
"command": "node",
"args": ["src/index.js"],
"cwd": "/path/to/omics-ai-mcp"
}
}
}Configuration as documented by the project. Restart the client after saving.
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