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Clinvar Database

Listed
ovachiever·vlatest·database

Queries ClinVar data via API to identify genetic variants, their classifications, and associated clinical significance.

Repository

Install on your platform

Showing Claude Code. One command installs this skill into any of the agents below.

  1. 1

    Run this in your project

    terminal
    $ npx skills add ovachiever/droid-tings --skill clinvar-database -a claude-code

  2. Uses the open-source skills CLI and needs Node.js. Add -g to install it for your user instead of this project.

What we know about this skill

Publisher

ovachiever

Taken from the source listing. We haven't verified who controls this account.

Install target

Live repository

Not pinned. Installing fetches whatever the repository holds at the time you run the command.

No human has reviewed this code. The checks below are a static scan of the files at one commit — nobody has run this skill or judged whether it works. A skill runs with whatever access you give your agent, so read the source before you install it.

Automated safety checks

scanned

This skill failed 2 of 6 checks. A failure is not proof of bad intent; it means something in the code needs a human to look at it before you run it.

  • No undeclared network calls: failed

    Contacts 2 hosts that are neither well-known infrastructure nor declared in the skill's frontmatter: eutils.ncbi.nlm.nih.gov, ftp.ncbi.nlm.nih.gov.

    Every host the skill dials — from its scripts, its config endpoints or the commands it tells the agent to run — is either well-known package and API infrastructure or declared in its own frontmatter. Links in documentation are not counted.

    Hosts contacted

    eutils.ncbi.nlm.nih.govundeclaredftp.ncbi.nlm.nih.govundeclared

    What it found (3 of 11)

    • skills/clinvar-database/SKILL.md:51contacts eutils.ncbi.nlm.nih.gov
      curl "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=clinvar&term=BRCA1[gene]+AND+pathogenic[CLNSIG]&retmode=json"
    • skills/clinvar-database/references/api_reference.md:38contacts eutils.ncbi.nlm.nih.gov
      curl "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=clinvar&term=BRCA1[gene]+AND+pathogenic[CLNSIG]&retmode=json&retmax=100"
    • skills/clinvar-database/references/api_reference.md:66contacts eutils.ncbi.nlm.nih.gov
      curl "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=clinvar&id=12345&retmode=json&version=2.0"

  • No pipe-to-shell installers: failed

    Runs code fetched at install time in 1 place.

    No `curl … | sh` pattern, in the code or in the instructions, that runs code fetched at run time.

    What it found

    • skills/clinvar-database/references/api_reference.md:138remote script run via command substitution
      sh -c "$(curl -fsSL ftp://ftp.ncbi.nlm.nih.gov/entrez/entrezdirect/install-edirect.sh)"

  • Declares what it does: passed

    SKILL.md parses and declares a name and a description.

    SKILL.md exists, its frontmatter parses, and it declares a name and a description.

  • No obfuscated payloads: passed

    No encoded or obfuscated payloads.

    No base64, hex or compressed blob is decoded and then executed, and no encoded shell commands.

  • No credential access: passed

    Reads no keys, tokens, keychains or credential files.

    Neither the code nor the SKILL.md instructions read SSH keys, cloud credentials, keychains, token stores, browser cookie databases or dotfiles that hold secrets.

  • Pinned to a commit: passed

    Scanned ovachiever/droid-tings at 7acd12a754.

    The exact upstream commit SHA that was scanned is recorded, so the result refers to specific bytes.

Commit
7acd12a754
Manifest
skills/clinvar-database/SKILL.md
Scanned
4 files, 1,073 lines
This is a static scan, not a review. It reads the skill's files; it does not run them, and it cannot tell you whether the skill is any good or whether the code does what its description says. A skill runs with whatever access you give your agent.
What each check looks for →

About this skill

What it does

This skill provides access to and querying capabilities of the ClinVar database, a public archive of reports describing relationships among human genes, genetic variants, and phenotypes. It allows users to retrieve specific variant information, search by gene or phenotype, and generally leverage the vast clinical significance data stored within ClinVar. The skill facilitates research and analysis related to genetic disorders and personalized medicine.

When to use it

  • Investigating a patient's genetic variant: Retrieve detailed information about a specific variant to understand its potential impact on health.
  • Researching gene-disease associations: Explore the relationship between genes, variants, and associated diseases or conditions.
  • Analyzing clinical trial data: Access ClinVar data to supplement and interpret results from clinical trials involving genetic factors.
  • Understanding phenotypic implications of a variant: Determine the observed phenotypes associated with a particular genetic variation.

Key capabilities

  • Variant retrieval by ID
  • Gene-based searches
  • Phenotype-based searches
  • Access to ClinVar data fields (e.g., clinical significance, allele frequency)

Example prompts

  • "What is the clinical significance of variant rs1234567?"
  • "Find all variants associated with the BRCA1 gene."
  • "Show me variants related to Alzheimer's disease according to ClinVar."

Tips & gotchas

The accuracy and completeness of information depend on the data available in the ClinVar database. Be aware that clinical significance classifications can change as new evidence emerges.