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Clinvar Database

Listed
jackspace·vlatest·database·MIT

Access ClinVar variant information, including classifications and evidence, directly within Jackspace for streamlined genomic analysis.

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 jackspace/claudeskillz --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

jackspace

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 1 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 3 hosts that are neither well-known infrastructure nor declared in the skill's frontmatter: eutils.ncbi.nlm.nih.gov, ftp.ncbi.nlm.nih.gov, www.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

    www.ncbi.nlm.nih.govundeclaredeutils.ncbi.nlm.nih.govundeclaredftp.ncbi.nlm.nih.govundeclared

    What it found (3 of 11)

    • skills/scientific-db-clinvar-database/SKILL.json:10contacts www.ncbi.nlm.nih.gov
      "content": "### 1. Search and Query ClinVar\r\n\r\n#### Web Interface Queries\r\n\r\nSearch ClinVar using the web interface at https://www.ncbi.nlm.nih.gov/cli…
    • skills/scientific-db-clinvar-database/SKILL.json:10contacts eutils.ncbi.nlm.nih.gov
      "content": "### 1. Search and Query ClinVar\r\n\r\n#### Web Interface Queries\r\n\r\nSearch ClinVar using the web interface at https://www.ncbi.nlm.nih.gov/cli…
    • skills/scientific-db-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"

  • 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.

  • No pipe-to-shell installers: passed

    No pipe-to-shell or download-and-run installers.

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

  • Pinned to a commit: passed

    Scanned jackspace/claudeskillz at aef4e299d1.

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

Commit
aef4e299d1
Manifest
skills/scientific-db-clinvar-database/SKILL.md
Scanned
2 files, 350 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 the ClinVar database, a public archive of reports describing relationships among human genes, genetic variants and phenotypes. It allows you to query this data to retrieve information about specific gene variations, their clinical significance, and associated diseases. The tool can be used for research, diagnostics, or understanding potential health risks related to genetic factors.

When to use it

  • Researching Genetic Diseases: Investigate the known variants and clinical implications of a particular disease.
  • Variant Interpretation: Determine the clinical significance of a newly identified genetic variant.
  • Understanding Family History: Explore whether specific gene variations are present in your family history and their potential impact.
  • Supporting Diagnostic Assessments: Aid in interpreting genetic test results for diagnostic purposes.

Key capabilities

  • Access to ClinVar data
  • Querying by gene name or variant ID
  • Retrieval of clinical significance information
  • Association with related phenotypes/diseases

Example prompts

  • "What is the clinical significance of the BRCA1 c.6879C>T variant?"
  • "Show me all variants associated with Alzheimer's disease in ClinVar."
  • "Tell me about the phenotype reported for rs1234567."

Tips & gotchas

The accuracy and completeness of the information depend on the data available in the ClinVar database. Be aware that interpretations can change as new research emerges.