Alterlab Clinpgx Agent Skill
Access ClinPGx pharmacogenomics data (the successor to PharmGKB) to query gene-drug interactions, CPIC/DPWG dosing guidelines, drug labels, and pharmacogene records. Use when interpreting pharmacogenes (CYP2D6, CYP2C19, TPMT, DPYD, SLCO1B1), looking up genotype-guided drug dosing, checking PGx drug-safety associations (e.g. HLA-B*57:01 and abacavir), or supporting precision medicine and clinical pharmacogenomics decisions. For star-allele definitions/frequencies see PharmVar; for germline/somatic variant pathogenicity see alterlab-clinvar. Part of the AlterLab Academic Skills suite.
Install
one command, takes just this skill from the repositorynpx skills add https://github.com/AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-clinpgxOther skills for the same job
different authors, same section of the catalogue
Creates detailed, sectionized implementation plans through research, stakeholder interviews, and multi-LLM review. Use when planning features that need thorough pre-implementation analysis.
This skill should be used when scientists need help with research problem selection, project ideation, troubleshooting stuck projects, or strategic scientific decisions. Use this skill when users ask to pitch a new research idea, work through a project problem, evaluate project risks, plan research strategy, navigate decision trees, or get help choosing what scientific problem to work on. Typical requests include "I have an idea for a project", "I'm stuck on my research", "help me evaluate this project", "what should I work on", or "I need strategic advice about my research".
Research ideation partner. Generate hypotheses, explore interdisciplinary connections, challenge assumptions, develop methodologies, identify research gaps, for creative scientific problem-solving.
Manage and trigger pre-built Zapier workflows and MCP tool orchestration. Use when user mentions workflows, Zaps, automations, daily digest, research, search, lead tracking, expenses, or asks to "run" any process. Also handles Perplexity-based research and Google Sheets data tracking.
Provide qualitative-first, evidence-traceable developmental review of scholarly works and audit low-stakes research-assessment rubrics with optional local quality controls. Never use for ranking people or consequential decisions.
Guides researchers through structured ideation frameworks to discover high-impact research directions. Use when exploring new problem spaces, pivoting between projects, or seeking novel angles on existing work.
Loop 2 of the Three-Loop Integrated Development System. META-SKILL that dynamically compiles Loop 1 plans into agent+skill execution graphs. Queen Coordinator selects optimal agents from 86-agent registry and assigns skills (when available) or custom instructions. 9-step swarm with theater detection and reality validation. Receives plans from research-driven-planning, feeds to cicd-intelligent-recovery. Use for adaptive, theater-free implementation.
Loop 1 of the Three-Loop Integrated Development System. Research-driven requirements analysis with iterative risk mitigation through 5x pre-mortem cycles using multi-agent consensus. Feeds validated, risk-mitigated plans to parallel-swarm-implementation. Use when starting new features or projects requiring comprehensive planning with <3% failure confidence and evidence-based technology selection.
How to use it
Take alterlab-ieu/alterlab-clinpgx from the repository into ~/.claude/skills for personal
use, or into .claude/skills inside a project.
The agent identifies a skill by the name field in its header. Two skills with the
same name cannot sit side by side — one of them will be ignored.
The instructions reference pip, uv.
Without those the skill loads but fails at the first command.