Agent skill

Variant Pharmacogenomics

Query PharmGKB (clinPGx) for pharmacogenomic clinical annotations — how a variant affects drug response, dosing, and adverse reactions.

MITAuto-check passed

Install Variant Pharmacogenomics

skills CLI

$ npx skills add InternScience/scp --skill variant-pharmacogenomics -a claude-code

Project install by default; add -g for ~/.claude/skills/.

GitHub CLI

$ gh skill install InternScience/scp variant-pharmacogenomics --agent claude-code

Project scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).

Manual copy

$ git clone --depth 1 https://github.com/InternScience/scp.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/variant-pharmacogenomics .claude/skills/variant-pharmacogenomics && rm -rf skills-src

Use ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.

Claude Code skills documentation · loads skills from .claude/skills/

Paste into Claude Code

Install the "variant-pharmacogenomics" agent skill from https://github.com/InternScience/scp/tree/main/skills/variant-pharmacogenomics into .claude/skills/variant-pharmacogenomics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "variant-pharmacogenomics", then confirm the skill loads.

Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

$skill-installer

$skill-installer install https://github.com/InternScience/scp/tree/main/skills/variant-pharmacogenomics

Type this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.

skills CLI

$ npx skills add InternScience/scp --skill variant-pharmacogenomics -a codex

Project install goes to .agents/skills/; add -g for ~/.codex/skills/.

GitHub CLI

$ gh skill install InternScience/scp variant-pharmacogenomics --agent codex

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

$ git clone --depth 1 https://github.com/InternScience/scp.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/variant-pharmacogenomics .agents/skills/variant-pharmacogenomics && rm -rf skills-src

Use ~/.agents/skills/ instead of .agents/skills for a personal install.

Codex skills documentation · loads skills from .agents/skills/

Paste into Codex

Install the "variant-pharmacogenomics" agent skill from https://github.com/InternScience/scp/tree/main/skills/variant-pharmacogenomics into .agents/skills/variant-pharmacogenomics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "variant-pharmacogenomics", then confirm the skill loads.

Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

skills CLI

$ npx skills add InternScience/scp --skill variant-pharmacogenomics -a cursor

Project install goes to .agents/skills/; add -g for ~/.cursor/skills/.

GitHub CLI

$ gh skill install InternScience/scp variant-pharmacogenomics --agent cursor

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

$ git clone --depth 1 https://github.com/InternScience/scp.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/variant-pharmacogenomics .cursor/skills/variant-pharmacogenomics && rm -rf skills-src

Use ~/.cursor/skills/ instead of .cursor/skills for a personal install.

Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/

Paste into Cursor

Install the "variant-pharmacogenomics" agent skill from https://github.com/InternScience/scp/tree/main/skills/variant-pharmacogenomics into .cursor/skills/variant-pharmacogenomics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "variant-pharmacogenomics", then confirm the skill loads.

Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

gemini skills install

$ gemini skills install https://github.com/InternScience/scp.git --path skills/variant-pharmacogenomics

--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.

skills CLI

$ npx skills add InternScience/scp --skill variant-pharmacogenomics -a gemini-cli

Project install goes to .agents/skills/; add -g for ~/.gemini/skills/.

GitHub CLI

$ gh skill install InternScience/scp variant-pharmacogenomics --agent gemini-cli

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

$ git clone --depth 1 https://github.com/InternScience/scp.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/variant-pharmacogenomics .gemini/skills/variant-pharmacogenomics && rm -rf skills-src

Use ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.

Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/

Paste into Gemini CLI

Install the "variant-pharmacogenomics" agent skill from https://github.com/InternScience/scp/tree/main/skills/variant-pharmacogenomics into .gemini/skills/variant-pharmacogenomics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "variant-pharmacogenomics", then confirm the skill loads.

Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

GitHub CLI

$ gh skill install InternScience/scp variant-pharmacogenomics

Installs for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).

skills CLI

$ npx skills add InternScience/scp --skill variant-pharmacogenomics -a github-copilot

Project install goes to .agents/skills/; add -g for ~/.copilot/skills/.

Manual copy

$ git clone --depth 1 https://github.com/InternScience/scp.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/variant-pharmacogenomics .github/skills/variant-pharmacogenomics && rm -rf skills-src

Use ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.

GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/

Paste into GitHub Copilot

Install the "variant-pharmacogenomics" agent skill from https://github.com/InternScience/scp/tree/main/skills/variant-pharmacogenomics into .github/skills/variant-pharmacogenomics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "variant-pharmacogenomics", then confirm the skill loads.

GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

skills CLI

$ npx skills add InternScience/scp --skill variant-pharmacogenomics -a opencode

OpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.

GitHub CLI

$ gh skill install InternScience/scp variant-pharmacogenomics --agent opencode

Project scope by default (.agents/skills/); add --scope user for a personal install.

Manual copy

$ git clone --depth 1 https://github.com/InternScience/scp.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/variant-pharmacogenomics .opencode/skills/variant-pharmacogenomics && rm -rf skills-src

Use ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.

OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/

Paste into OpenCode

Install the "variant-pharmacogenomics" agent skill from https://github.com/InternScience/scp/tree/main/skills/variant-pharmacogenomics into .opencode/skills/variant-pharmacogenomics/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "variant-pharmacogenomics", then confirm the skill loads.

OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.

Facts

Skill name: variant-pharmacogenomics
GitHub stars: 169
Used in: 1 other repo
Token cost: ~564 tokens
SKILL.md length: 9 words
Files: 1
Skills in repo: 73
Repo updated: Jun 3, 2026
First seen: Oct 7, 2026
Licence: MIT

At a glance

Query PharmGKB (clinPGx) for pharmacogenomic clinical annotations — how a variant affects drug response, dosing, and adverse reactions.

Reaches api.clinpgx.org and pharmgkb.org

What it does

Variant Pharmacogenomics is an agent skill from InternScience/scp. Query PharmGKB (clinPGx) for pharmacogenomic clinical annotations — how a variant affects drug response, dosing, and adverse reactions.

Its SKILL.md is about 560 tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.

The licence is MIT.

Example prompts

“/variant-pharmacogenomics”

Requirements

Python 3

What it can do on your machine

Read from SKILL.md and the folder at commit cea5398. It shows what the files ask for, not the result of running them.

Tool permissions
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Runs code
No scripts in the folder and no shell commands in SKILL.md (its code samples are tex and python).
From the folder's file list and the shell code blocks in SKILL.md.
Network
Hosts in commands or code, which the agent is likely to contact:
- api.clinpgx.org
- pharmgkb.org
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.

Context cost

Variant Pharmacogenomics loads about 564 tokens when it runs. Until then it costs about 40 tokens; SKILL.md has 9 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it: ~40
When it runs · the whole SKILL.md, loaded when a task matches: ~564

Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.

Safety

Auto-check passed

The automated check found no risky patterns in SKILL.md.

Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.

SKILL.md

The full file from InternScience/scp at commit cea5398, republished under its MIT licence (© InternScience). 9 words, ~564 tokens.

Download SKILL.mdSave it as .claude/skills/variant-pharmacogenomics/SKILL.md (or your agent's skills folder).

name: variant-pharmacogenomics
description: Query PharmGKB (clinPGx) for pharmacogenomic clinical annotations — how a variant affects drug response, dosing, and adverse reactions.
license: MIT license
metadata.skill-author: PJLab

PharmGKB (clinPGx) — Pharmacogenomic Annotations

Usage

Tool Description

tex

Query PharmGKB clinical annotations API to find drug-gene-variant interactions.
Database: PharmGKB / clinPGx (https://www.pharmgkb.org/)
API: GET https://api.clinpgx.org/v1/data/clinicalAnnotation?location.fingerprint={rsid}&view=base
Args:
    rs_id (str): dbSNP rsID (e.g. "rs7412")
Return:
    Clinical annotations: related drugs (chemicals), evidence level (1A/1B/2A/2B/3/4),
    related diseases, gene (APOE etc.), phenotype categories (efficacy/toxicity/dosage/PK),
    related guidelines and FDA labels.

Return Fields Explanation:
    - relatedChemicals: 关联的药物/化合物名称和 PharmGKB ID
    - levelOfEvidence.term: 证据级别 (1A=最强, 有CPIC/DPWG指南; 4=最弱, 个案报告)
    - location.genes: 变异所在基因
    - relatedDiseases: 关联疾病
    - types: 注释类型 (Efficacy=疗效, Toxicity=毒性, Dosage=剂量, PK=药代动力学)
    - relatedGuidelines: 关联的用药指南 (CPIC, DPWG 等)
    - relatedLabels: 关联的 FDA 药品标签

Query Example

python

import requests

rs_id = "rs7412"
url = f"https://api.clinpgx.org/v1/data/clinicalAnnotation?location.fingerprint={rs_id}&view=base"
resp = requests.get(url, timeout=30).json()

if isinstance(resp, dict) and "data" in resp:
    annotations = resp["data"]
elif isinstance(resp, list):
    annotations = resp
else:
    annotations = []

print(f"[PharmGKB] {rs_id} 药物基因组注释数: {len(annotations)}")

for i, ann in enumerate(annotations):
    # 药物
    drugs = [c.get("name", "") for c in ann.get("relatedChemicals", [])]
    # 证据级别
    evidence = ann.get("levelOfEvidence", {}).get("term", "N/A")
    # 基因
    genes = [g.get("symbol", "") for g in ann.get("location", {}).get("genes", [])]
    # 疾病
    diseases = [d.get("name", "") for d in ann.get("relatedDiseases", [])]
    # 注释类型
    ann_types = ann.get("types", [])

    print(f"\n  [{i+1}] 药物: {drugs}")
    print(f"       证据级别: {evidence}")
    print(f"       基因: {genes}")
    print(f"       类型: {ann_types}")
    if diseases:
        print(f"       疾病: {diseases}")

Files

Just SKILL.md in skills/variant-pharmacogenomics of InternScience/scp.

Open the folder on GitHubat commit cea5398

Used in 2 other repositories

We found 2 copies of this SKILL.md (exact, near-identical or edited) in other folders, from 1 other GitHub owner. This page covers the copy in InternScience/scp, which our catalogue first saw on October 7, 2026.

Compare with similar skills

Variant Pharmacogenomics next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.

Variant Pharmacogenomics compared with similar skills
Skill	Stars	Used in	Tokens	Auto-check	Licence	Repo updated
Variant Pharmacogenomics this skillInternScience/scp	169	1 repos	~564	Automated safety check: Pass	MIT	4 mo ago
Annotating Variantsmaziyarpanahi/openmed	5.5k	—	~2.1k	Automated safety check: Pass	Apache-2.0	today
Variant Annotationaipoch/medical-research-skills	2k	—	~3.5k	Automated safety check: Pass	MIT	22 days ago
Bio Variant AnnotationFreedomIntelligence/OpenClaw-Medical-Skills	3.1k	1 repos	~2.9k	Automated safety check: Pass	None	2 mo ago
Bio Clinical Databases PharmacogenomicsFreedomIntelligence/OpenClaw-Medical-Skills	3.1k	—	~1.9k	Automated safety check: Pass	None	2 mo ago
Variant AnnotationClawBio/ClawBio	1.2k	1 repos	~2.8k	Automated safety check: Pass	MIT	today

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Questions about Variant Pharmacogenomics

What does Variant Pharmacogenomics do?

Query PharmGKB (clinPGx) for pharmacogenomic clinical annotations — how a variant affects drug response, dosing, and adverse reactions. Variant Pharmacogenomics is an agent skill from InternScience/scp. Query PharmGKB (clinPGx) for pharmacogenomic clinical annotations — how a variant affects drug response, dosing, and adverse reactions.

How do I install Variant Pharmacogenomics in Claude Code?

Run `npx skills add InternScience/scp --skill variant-pharmacogenomics -a claude-code`. Or copy the skill folder (skills/variant-pharmacogenomics in InternScience/scp) into .claude/skills/variant-pharmacogenomics in your project. Claude Code loads it when a task matches its description.

How do I install Variant Pharmacogenomics in Codex?

Run `npx skills add InternScience/scp --skill variant-pharmacogenomics -a codex`. Or copy the skill folder (skills/variant-pharmacogenomics in InternScience/scp) into .agents/skills/variant-pharmacogenomics in your project. Codex loads it when a task matches its description.

Can I use Variant Pharmacogenomics in Cursor, Gemini CLI or GitHub Copilot?

Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add InternScience/scp --skill variant-pharmacogenomics -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/variant-pharmacogenomics, .gemini/skills/variant-pharmacogenomics, .github/skills/variant-pharmacogenomics and .opencode/skills/variant-pharmacogenomics in your project.

What does Variant Pharmacogenomics need to run?

SKILL.md names no scripts, command-line tools or credentials: Variant Pharmacogenomics is instructions for the agent only. Our summary lists: Python 3.

Does Variant Pharmacogenomics access the network?

SKILL.md names 2 domains. In commands or code: api.clinpgx.org and pharmgkb.org; the agent is likely to contact these when it follows the instructions. This is read from the text; nothing was executed.

Is Variant Pharmacogenomics safe to install?

Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.

What licence does Variant Pharmacogenomics use?

Variant Pharmacogenomics is published under the MIT licence (declared in SKILL.md). It allows redistribution, so the full SKILL.md is shown on this page.

How many tokens does Variant Pharmacogenomics use?

About 564 tokens (SKILL.md is roughly 2.3k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.

What are the alternatives to Variant Pharmacogenomics?

Skills that share tags, products or a category with Variant Pharmacogenomics: Annotating Variants (maziyarpanahi/openmed, 5.5k stars), Variant Annotation (aipoch/medical-research-skills, 2k stars), Bio Variant Annotation (FreedomIntelligence/OpenClaw-Medical-Skills, 3.1k stars) and Bio Clinical Databases Pharmacogenomics (FreedomIntelligence/OpenClaw-Medical-Skills, 3.1k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Variant Pharmacogenomics?

InternScience (a GitHub organization) maintains it in InternScience/scp, which has 169 GitHub stars. The repository holds 73 skills in this directory. The repository was last updated on June 3, 2026.

Source: InternScience/scp on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.

Variant Pharmacogenomics

Install Variant Pharmacogenomics

Facts

At a glance

What it does

Example prompts

Requirements

What it can do on your machine

Tool permissions

Runs code

Network

Credentials

Context cost

Safety

SKILL.md

PharmGKB (clinPGx) — Pharmacogenomic Annotations

Usage

Tool Description

Query Example

Files

Used in 2 other repositories

Compare with similar skills

Similar skills

Annotating Variants

Variant Annotation

Bio Variant Annotation

Bio Clinical Databases Pharmacogenomics

Variant Annotation

Clinpgx Database

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Questions about Variant Pharmacogenomics