bio-applied-gwas

bio-applied-gwas is a skill for Claude Code, Codex from Pavel-Kravchenko/Bioinformatics. It costs 59 tokens per session (3,872 once invoked), scanned A, original, no licence file.

A genome-wide association study workflow for testing whether genetic variants are linked to traits or diseases. It includes quality checks, ancestry correction, statistical tests, and standard association plots.

In plain words
What is it for?
Use it to analyze SNP-array or other genotype data, run per-variant linear or logistic tests, and inspect Manhattan plots, QQ plots, and linkage patterns.
Why use it?
It reduces misleading associations caused by poor-quality variants or differences in ancestry between participants.

Skill for Claude CodeCodex

Which agent this was written for is unclear — body not stored (licence); the path alone says nothing.

Good fit Use it to analyze SNP-array or other genotype data, run per-variant linear or logistic tests, and inspect Manhattan plots, QQ plots, and linkage patterns.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/pavel-kravchenko/bioinformatics/bio-applied-gwas
Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Any agent
npx skills add Pavel-Kravchenko/Bioinformatics --skill bio-applied-gwas
Clone the repo
git clone --depth 1 https://github.com/Pavel-Kravchenko/Bioinformatics

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for bio-applied-gwas

README.md
[![agentmods](https://agentmods.dev/badge/skills/pavel-kravchenko/bioinformatics/bio-applied-gwas/github.svg)](https://agentmods.dev/skills/pavel-kravchenko/bioinformatics/bio-applied-gwas)
Your own site
<a href="https://agentmods.dev/skills/pavel-kravchenko/bioinformatics/bio-applied-gwas"><img src="https://agentmods.dev/badge/skills/pavel-kravchenko/bioinformatics/bio-applied-gwas/github.svg" alt="Measured on agentmods" height="20"></a>

Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.

agentmods 80×15 button for bio-applied-gwas

Your own site · 80×15
<a href="https://agentmods.dev/skills/pavel-kravchenko/bioinformatics/bio-applied-gwas"><img src="https://agentmods.dev/badge/skills/pavel-kravchenko/bioinformatics/bio-applied-gwas.svg" alt="Reviewed on agentmods" width="80" height="20"></a>
Per session 59 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 3,872 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 1 finding. A grade says what 26 rules found in the file — not that it is safe.
Origin unknown No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00059 $0.03872
Opus 5 $0.00030 $0.01936
Sonnet 5 $0.00012 $0.00774
Haiku 4.5 $0.00006 $0.00387

Measured 8d ago against content hash f6f1780d2042, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-11, from the pricing page.

Security

Grade A, and why

bio-applied-gwas scanned grade A with 1 finding against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 8d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Makes network callslowCapability

Not a fault in itself. Listed so you know the mod talks to something, and to what.

import urllib.request
Skills/bio-applied-gwas/SKILL.md · 267 lines

The source is not reproduced here

No licence file

A repository with no LICENSE is all rights reserved by default, so the body is not copied here. The metadata, the measurements and the link are.

Read it on GitHub

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 8d ago First seen · 267 lines · 59 tokens per session scan A f6f1780d2042

Subscribe to this mod's changes

bio-applied-gwas is a skill published in the GitHub repository Pavel-Kravchenko/Bioinformatics (5 stars, last pushed 2mo ago), with no licence file. It adds 59 tokens to every session and 3,872 once invoked, about $0.0003 per session on Opus 5. A static security scan graded it A with 1 finding (makes network calls). No closer match exists in the catalogue, so it is treated as the original; first seen 2026-09-03.