# OakVar MCP Server

> Use this tool when you need to perform genomic variant analysis, manage annotator modules, and generate customizable reports. The OakVar MCP Server enables AI assistants to run annotation pipelines, query variant databases, and produce outputs in various formats. It is ideal for use cases requiring comprehensive genomic data analysis and interpretation, taking in genomic variant data as input and producing annotated reports as output.

Canonical page: https://skillsregistry.net/skills/miliyarsh-oakvar-mcp  
JSON: https://api.skillsregistry.net/v1/skills/miliyarsh-oakvar-mcp

## Description

Enables AI assistants to perform genomic variant analysis using OakVar, including running annotation pipelines, managing 200+ annotator modules, querying variant databases, and generating reports in various formats.

## Trust

- **Trust score (0–1):** 0.94
- **Verification tier:** verified
- **Last scanned:** 2026-09-19

## Facts

- **Version:** 1.0.0
- **Skill type:** atomic
- **Execution layer:** mcp-remote
- **Runtime environment:** api
- **Category:** database
- **Updated:** 2026-09-19

## Source

- **Source listing:** [Glama](https://glama.ai/mcp/servers/f9nd8htvtx)
- **Repository:** <https://github.com/miliyarsh/oakvar-mcp>

## Use it

Resolve this record through the SkillsRegistry MCP server (no auth, read-only):

```
claude mcp add --transport http --scope user skillsregistry https://api.skillsregistry.net/mcp
```

```json
{
  "jsonrpc": "2.0",
  "id": 1,
  "method": "tools/call",
  "params": {
    "name": "get_skill",
    "arguments": {
      "slug": "miliyarsh-oakvar-mcp"
    }
  }
}
```

REST: `GET https://api.skillsregistry.net/v1/skills/miliyarsh-oakvar-mcp` · pull for local use: `GET https://api.skillsregistry.net/v1/skills/miliyarsh-oakvar-mcp/pull`

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SkillsRegistry indexes agent skills from public registries and GitHub. Skills we have analysed are scanned with Circle-IR and scored on six dimensions; each listing states its scan coverage. More: https://skillsregistry.net/llms.txt