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Tooluniverse Polygenic Risk Score

Listed
mims-harvard·vlatest·other·Apache-2.0

This skill calculates a polygenic risk score based on genetic variants, offering personalized insights into potential health risks and informing proactive wellness strategies.

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 mims-harvard/tooluniverse --skill tooluniverse-polygenic-risk-score -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

mims-harvard

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 1 host that is neither well-known infrastructure nor declared in the skill's frontmatter: www.pgscatalog.org.

    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.pgscatalog.orgundeclared

    What it found

    • plugin/skills/tooluniverse-polygenic-risk-score/python_implementation.py:14contacts www.pgscatalog.org
      - PGS Catalog: https://www.pgscatalog.org/
    • plugins/tooluniverse/skills/tooluniverse-polygenic-risk-score/python_implementation.py:14contacts www.pgscatalog.org
      - PGS Catalog: https://www.pgscatalog.org/
    • skills/tooluniverse-polygenic-risk-score/python_implementation.py:14contacts www.pgscatalog.org
      - PGS Catalog: https://www.pgscatalog.org/

  • 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 mims-harvard/tooluniverse at f5c37eebeb.

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

Commit
f5c37eebeb
Manifest
skills/tooluniverse-polygenic-risk-score/SKILL.md
Scanned
11 files, 3,320 lines
Copies in repo
3 — all of them scanned
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 calculates a polygenic risk score (PRS), which is a prediction of genetic risk, not a diagnosis. It extracts genome-wide significant variants from GWAS Catalog, builds weighted PRS models using effect sizes, and calculates individual risk scores based on genotype data. The resulting PRS is interpreted as population percentiles and risk categories to provide personalized insights into potential health risks.

When to use it

  • Calculate genetic risk for complex diseases like type 2 diabetes or coronary artery disease.
  • Determine an individual's genetic predisposition to conditions such as Alzheimer’s disease or breast cancer.
  • Understand PRS percentile and associated risk categories.
  • Build a polygenic risk score model for a specific condition.

Key capabilities

  • Extracts genome-wide significant variants from GWAS Catalog.
  • Constructs weighted PRS models using effect sizes (beta coefficients).
  • Calculates individual risk scores based on genotype data.
  • Interprets PRS as population percentiles and risk categories.
  • Standardizes raw PRS to z-scores for comparison with the population distribution.

Example prompts

  • "Calculate my genetic risk for type 2 diabetes."
  • "Build a polygenic risk score for coronary artery disease."
  • “What's my genetic predisposition to Alzheimer's disease?”
  • "Interpret my PRS percentile for breast cancer risk."

Tips & gotchas

  • PRS predicts genetic risk, not disease; a high score does not guarantee development of the condition.
  • PRS performance varies significantly across ancestries due to differences in allele frequencies and LD patterns.
  • Always consult GWAS Catalog for accurate effect sizes and allele frequencies – do not assume values.