gnomad-database SKILL.md skillA
gnomad-database from pengqianhan/ai-human-research-os is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add pengqianhan/ai-human-research-os/gnomad-database@git:20260715.38d79bePins git:20260715.38d79be in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- pengqianhan/ai-human-research-os
- Path
research-skills-hub/science-skills/gnomad_database/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260715.38d79be, committed Jul 15, 2026
- Size
- 3,098 bytes
- Repository stars
- 3
- License
- MIT
Query the Genome Aggregation Database (gnomAD). Use when determining the rarity or allele frequency of specific genetic variants, retrieving gene constraint metrics (pLI, LOEUF) to assess loss-of-function intolerance, finding variants in a genomic region or gene, or querying structural variants. Don't use for analyzing individual patient genomes, tracking somatic mutations in cancer (use COSMIC), or requesting raw sequencing reads (use ENA).
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# gnomAD Database
## Prerequisites
1. **`uv`**: Read the `uv` skill and follow its Setup instructions to ensure
`uv` is installed and on PATH.
2. **User Notification**: If .licenses/gnomad_database_LICENSE.txt does not
already exist in the workspace root directory then (1) prominently notify
the user to check the terms at https://gnomad.broadinstitute.org/policies
and https://gnomad.broadinstitute.org/data#api, then (2) create the file
recording the notification text and timestamp.
## Core Rules
- **Use the Wrapper**: ALWAYS execute the provided helper scripts to query the
database rather than accessing the database directly. The scripts
automatically enforce the gnomAD API rate limits gracefully.
- **Notification**: If this skill is used, ensure this is mentioned in the
output.
## Utility Scripts
All scripts are located in the `scripts/` subdirectory of this skill's
installation directory. When running them, use the full absolute path to the
script (e.g. `/path/to/gnomad_database/scripts/get_variant_frequency.py`).
**1. Variant Frequency.** Retrieves global and ancestry-specific allele
…Read the whole file at its exact version.
How to install
mdr add pengqianhan/ai-human-research-os/gnomad-database@sha256:f2082c83ddca825eThe line at the top of this page pins the label git:20260715.38d79be, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_gzzr4bzys34x6a4j)
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Versions
The registry has recorded 1 version of this file, committed on Jul 15, 2026.
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (3098 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
pengqianhan/ai-human-research-os · 3 stars · license MIT · pushed 2026-11-06 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_gzzr4bzys34x6a4j GET https://markdownregistry.com/api/v1/resolve?ref=pengqianhan/ai-human-research-os/gnomad-database GET https://markdownregistry.com/api/v1/blob/f2082c83ddca825e0c336097c6b59a9237d99a33887577cd90fc574f1d3bc18b
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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