# DeepDNA local (pypi · deepdna-mcp)

Reads a raw DNA file on your computer and reports the variants DeepDNA curates, with sources.

- Trust score: 83/100 (high trust)
- Change this week: +3
- Registry status: active
- Liveness: live
- Owner verified: no
- Last scored: 2026-11-04

## Components

- pypi · `deepdna-mcp`: 83/100 (this document), [markdown](https://verifymcp.io/servers/ai-deepdna-local/deepdna-mcp.md), [page](https://verifymcp.io/servers/ai-deepdna-local/deepdna-mcp)

## Channel facts

- Registry: `pypi`
- Package: `deepdna-mcp`
- Version: `0.1.2`
- Transport: `stdio`

## Trust breakdown

How this component scores in each security and reliability category. Every signal is checked automatically from public evidence about the published package, including repeated runs of it in an isolated sandbox, and we only credit what we can confirm. Scores are 0–100 per category. Scoring method: https://verifymcp.io/docs/scoring (what has changed: https://verifymcp.io/docs/scoring/changelog)

Scored 2026-11-04.

- **Supply Chain Security**: 100/100
  - No malware found by supply-chain analysis.
  - No known CVEs affecting this package version or its production dependencies.
  - Runs hatchling.build at install time, a recognised build step with no custom scripting around it.
  - 1 of 31 dependencies flagged as unhealthy.
- **Provenance & Transparency**: 97/100
  - Source repository is publicly reachable at the declared URL.
  - Cryptographically verified build provenance (signed, bound to alfonsoguv/deepdna-mcp).
  - Clear OSI-approved license (MIT).
  - Actively maintained (last published 6 days ago).
  - Disclosure check failed: no security disclosure policy was found in the source repository.
- **Schema Quality & AI Usability**: 61/100
  - AI-judged instruction clarity (good).
  - Context-footprint check failed: tool/resource definitions use about 637 tokens (~318/item across 2 items; 2 tools + 0 resources), over budget; trim descriptions and params.
  - Usage-examples check failed: none of the tools include examples.
- **Stability & Change Management**: 57/100
  - Stability observed for 17 of 30 days with no destabilising changes; credit accrues until the full window elapses.
- **Tool Coverage**: 100/100
  - 100% of tools have a non-trivial description (not blank, and not just the tool's name).
  - 100% of tool parameters carry a description.
  - Structured output schemas are declared (100% of tools); any adoption earns full credit.
- **Tool Safety**: 50/100
  - Injection-marker check failed: the server instructions contains an instruction to conceal the call from the user, the text "do not tell the user", at byte 463 of that field.
  - We read all 2 captured tool definition(s), and no name or description among them implies an irreversible operation.
  - An AI judge read all 3 captured unit(s) of tool text and found none that tries to manipulate the model reading it.
- **Capabilities**: 100/100
  - Implements a current MCP spec version (2026-07-28).

## Install

### How do I install the DeepDNA local MCP server?

DeepDNA local runs locally as a PyPI package, launched with uvx deepdna-mcp. Ready-made configuration for Claude, Cursor, VS Code, Codex and 5 more is on this page, copied from each client's own documentation.

### Claude

```bash
claude mcp add ai-deepdna-local -- uvx deepdna-mcp
```

### Cursor

```json
{
  "mcpServers": {
    "ai-deepdna-local": {
      "command": "uvx",
      "args": [
        "deepdna-mcp"
      ]
    }
  }
}
```

### VS Code

```json
{
  "servers": {
    "ai-deepdna-local": {
      "command": "uvx",
      "args": [
        "deepdna-mcp"
      ]
    }
  }
}
```

### Codex

```bash
codex mcp add ai-deepdna-local -- uvx deepdna-mcp
```

### opencode

```json
{
  "$schema": "https://opencode.ai/config.json",
  "mcp": {
    "ai-deepdna-local": {
      "type": "local",
      "command": [
        "uvx",
        "deepdna-mcp"
      ],
      "enabled": true
    }
  }
}
```

### OpenClaw

```bash
openclaw mcp add ai-deepdna-local --command uvx --arg deepdna-mcp
```

### Hermes

```yaml
mcp_servers:
  ai-deepdna-local:
    command: "uvx"
    args: ["deepdna-mcp"]
```

### Netclaw

```json
{
  "McpServers": {
    "ai-deepdna-local": {
      "Transport": "stdio",
      "Command": "uvx",
      "Arguments": [
        "deepdna-mcp"
      ]
    }
  }
}
```

### Vellum

```bash
assistant mcp add ai-deepdna-local -t stdio -c uvx -a deepdna-mcp
```

### Other

```json
{
  "mcpServers": {
    "ai-deepdna-local": {
      "command": "uvx",
      "args": [
        "deepdna-mcp"
      ]
    }
  }
}
```

## Changelog

Every change recorded for this component, newest first. Days that predate change tracking, or that we cannot explain, say so: "we were watching and nothing happened" and "we were not watching" are different claims.

### 2026-11-03 (score 83, +1)

No change was recorded against any check on this day. Stability & Change Management went from 50 to 53. That category is still filling its 30-day observation window: 15 days of observed history at the previous scan, 16 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-11-01 (score 82, +1)

No change was recorded against any check on this day. Stability & Change Management went from 43 to 47. That category is still filling its 30-day observation window: 13 days of observed history at the previous scan, 14 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-10-30 (score 81, +15)

- [security improvement] Malware scan: unverified → pass

### 2026-10-29 (score 66, −14)

- [security regression] Malware scan: pass → unverified
- [functional] Package version: 0.1.1 → 0.1.2

### 2026-10-27 (score 80, +1)

No change was recorded against any check on this day. Stability & Change Management went from 27 to 30. That category is still filling its 30-day observation window: 8 days of observed history at the previous scan, 9 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-10-25 (score 79, +1)

No change was recorded against any check on this day. Stability & Change Management went from 20 to 23. That category is still filling its 30-day observation window: 6 days of observed history at the previous scan, 7 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-10-23 (score 78, +1)

No change was recorded against any check on this day. Stability & Change Management went from 13 to 17. That category is still filling its 30-day observation window: 4 days of observed history at the previous scan, 5 at this one. The score rises as the window fills, whether or not the server changes.

### 2026-10-21 (score 77, +1)

No change was recorded against any check on this day. Stability & Change Management went from 7 to 10. That category is still filling its 30-day observation window: 2 days of observed history at the previous scan, 3 at this one. The score rises as the window fills, whether or not the server changes.

## MCP tools (2)

### `read_dna_file` (~297 tokens)

Read a raw DNA file on this computer

Read the user's raw DNA file (23andMe, AncestryDNA, MyHeritage or FamilyTreeDNA; .txt, .csv or .zip) on this
computer and report, for each curated variant, one of four states: read, no_call, not_in_file, or unexpected_letters
(the file's letters fit neither the record nor its complement). For positions the record marks as countable it gives
how many copies of the variant allele the file shows, with the record's text and sources. Pass `genes` for what the
user asked about (for example ["CYP2C19"] before discussing clopidogrel). APOE, BRCA1 and HFE are disease-risk
genes: they are read only when named in `genes`, so do not offer or report them unless the user asks for them by
name. A count at one position is not a metabolizer status, diplotype, diagnosis or dose: say so, and refer anything
that could matter for health to a clinician and a validated test.

Input parameters:

- `genes`: Gene symbols the user asked about, e.g. ["CYP2C19"]
- `path` (string, required): Full path to the raw DNA file on this computer, e.g. /Users/name/Downloads/genome.txt
- `sex`: Only if the user gives it: some chromosome X positions (G6PD) need it

### `lookup_drug_gene` (~139 tokens)

Look up drug-gene guidance

Cited pharmacogenomic guidance for a gene, optionally for one drug, from DeepDNA's public API: the guideline
(CPIC or DPWG where one exists, otherwise a drug label or the primary literature), a summary and sources. Sends
only the gene and drug names. The phenotype groups it lists are the guideline's own: do not place the user in one
from read_dna_file counts. Educational information, not a dose or a prescription.

Input parameters:

- `drug`: Generic drug name, e.g. "clopidogrel"
- `gene` (string, required): Gene symbol, e.g. "CYP2C19"

## Diagnostics

Captured diagnostic sections: Provenance, Install scripts, Dependencies. The full working is on the page: https://verifymcp.io/servers/ai-deepdna-local/deepdna-mcp#diagnostics

## Score history

- 2026-11-04: 83
- 2026-11-03: 83
- 2026-11-02: 82
- 2026-11-01: 82
- 2026-10-31: 81
- 2026-10-30: 81
- 2026-10-29: 66
- 2026-10-28: 80
- 2026-10-27: 80
- 2026-10-26: 79
- 2026-10-25: 79
- 2026-10-24: 78
- 2026-10-23: 78
- 2026-10-22: 77
- 2026-10-21: 77
- 2026-10-20: 76
- 2026-10-19: 76
- 2026-10-18: 75

## Common questions

### What is the DeepDNA local MCP server?

DeepDNA local is an MCP server listed in the public MCP registry as ai.deepdna/local. Reads a raw DNA file on your computer and reports the variants DeepDNA curates, with sources. This page covers its PyPI package (deepdna-mcp).

### Is the DeepDNA local MCP server safe to use?

DeepDNA local scores 83 out of 100 on VerifyMCP. We found no known CVEs affecting it as of 4 November 2026. Its build provenance is signed and verified. That is a record of what we were able to check automatically, not an endorsement. The category breakdown on this page shows every signal behind the number, including the ones we could not confirm.

### What tools does the DeepDNA local MCP server expose?

DeepDNA local exposes 2 tools: read_dna_file, lookup_drug_gene. Their descriptions and schemas cost roughly 436 tokens of context every time the server is loaded.

### Is the DeepDNA local MCP server still maintained?

DeepDNA local is still listed as active in the MCP registry. We last reached this channel on 4 November 2026. Those dates come from our own scans of the registry and the channel itself, not from anything the publisher announced.

### What licence is the DeepDNA local MCP server under?

DeepDNA local declares the MIT licence, which is OSI-approved. That covers the source only, and says nothing about the cost of any service it calls.

## Links

- PyPI project: https://pypi.org/project/deepdna-mcp/
- Socket report: https://socket.dev/pypi/package/deepdna-mcp
- Repository: https://github.com/alfonsoguv/deepdna-mcp
- Changelog RSS feed: https://verifymcp.io/servers/ai-deepdna-local/deepdna-mcp.xml
- Changelog JSON feed: https://verifymcp.io/servers/ai-deepdna-local/deepdna-mcp.json
- HTML version of this page: https://verifymcp.io/servers/ai-deepdna-local/deepdna-mcp