{"repo":"aipoch/medical-research-skills","free":true,"listed":false,"github":"https://github.com/aipoch/medical-research-skills","clone":"git clone https://github.com/aipoch/medical-research-skills.git","description":"Hundreds of agent skills for medical research, including protocol design, data analysis, evidence insights, and academic writing.","language":"Python","stars":1719,"topics":["ai","bioinformatics","biology","cancer-genomics","computational-biology","data-analysis","data-visualization","differential-expression","genomics","medical","medical-ai","medical-research","science","single-cell"],"license":"MIT","category":"ai_research_toolkit","readme_excerpt":"# Medical Research Agent Skills\r\n\r\n[](./LICENSE)\r\n\r\n\r\n[](https://x.com/aipoch_ai)\r\n[](https://www.linkedin.com/company/pochai)\r\n[](https://www.youtube.com/@AIPOCH_AI)\r\n\r\nA curated library of 550+ medical research agent skills created by [AIPOCH](https://www.aipoch.com), designed to work with **Claude Code, Codex, Open Code, Hermes Agent, OpenClaw**, and other SKILL.md-compatible agent platforms. It supports the research workflow across four core areas: Evidence Insights, Protocol Design, Data Analysis, and Academic Writing. Built exclusively for medical and biomedical researchers. Every skill in this library is reviewed and evaluated through [**MedSkillAudit**](https://www.aipoch.com/benchmark)— A Domain-Specific Audit Framework for Medical Research Agent Skills — before going live. Equip your AI agent with AIPOCH medical research skills, and turn it into a capable medical research assistant.\r\n\r\n> ⭐ **Star this repo** — the library is actively maintained and grows with new skills, improvements, and fixes regularly. Hit the star button to keep it close, stay current with the latest releases, and help more researchers discover Medical Research Agent Skills. Every star directly supports the continued development of this library.\r\n\r\n
\r\n\r\n\r\n ![\"AIPOCH](\"https://github.com/user-attachments/assets/1a6a7005-d9fc-49d5-8dba-3cb822d7e71d\")
\r\n \r\n\r\n---\r\n\r\n> 💡**New:** We are launching Open Science, an open-source, model-agnostic AI workbench designed to support scientific discovery workflows. [Learn more](https://github.com/aipoch/open-science)\r\n\r\n> **MedSkillAudit** - a domain-specific audit framework for medical research agent skills. [Try skill-auditor here.](https://github.com/aipoch/medical-research-skills/tree/main/skill-auditor)\r\n\r\n## 🗂️ Skills Overview\r\n\r\nAll skills in AIPOCH are **originally designed and developed in-house**, built to reflect medical research workflows and standards. The library is primarily organized into five categories: **Evidence Insights, Protocol Design, Data Analysis, Academic Writing**, and Others.\r\n\r\n| 📚**Category** | **Highlights** |\r\n| -------------------- | --------------------------------------------------------------------------------------------------------------------------------------------- |\r\n|🔍 **Evidence Insight** | e.g., search strategy design, database selection, evidence-level prioritization, critical appraisal, literature synthesis and gap identification.|\r\n| 🧪 **Protocol Design** |e.g., experimental design generation, study type selection, causal inference planning, statistical power calculation, validation strategy. |\r\n|📊 **Data Analysis** | e.g., R/Python bioinformatics code generation, statistical modeling, data cleaning pipelines, machine learning workflows, result visualization. |\r\n|✍️ **Academic Writing** | e.g., SCI manuscript drafting, methods/results/discussion writing, meta-analysis narrative, cover letters, abstract generation.|\r\n| 🌍 **Other (General / Non-Research)** | all general skills that do not fall into categories 1–4. |\r\n\r\n**📌 Total Skills in Library: 554 and growing**\r\n\r\n## 🗂️ Browse by Research Stage\r\n\r\n### 🔍 Literature \\& Evidence Discovery — 79 skills\r\n\r\nBefore a study begins, researchers need to know what is already established, where the evidence is weak, and where the genuine gaps are\\. This category covers the full evidence pipeline: building precision search strategies across PubMed and multiple databases, screening literature at scale, reading papers with methodological depth, mapping the evidence landscape around a disease or biomarker, and identifying research gaps with an evidence audit trail\\.\r\n\r\n- **Search \\& retrieval** — PubMed Boolean query builder, multi\\-database search strategy designer, preprint surveillance across bioRxiv and medRxiv, weekly research digest by keyword, literature filtering by study design and relevance, clinical question clarifier\r\n- **Structured paper reading** — close reading with structured annotation, extensive reading for rapid topic coverage, figure\\-first reading workflow, methods reverse\\-engineering, result reliability assessment, evidence level ranking by study design, high\\-value paper screener, full research literature reading pipeline, academic paper reading and research development system\r\n- **Evidence landscape** — disease mechanism evidence mapper, biomarker landscape scanner by type and validation level, drug and target evidence organizer, research hotspot and trend analysis, emerging topic scout, keyword velocity tracker, topic evidence mapper\r\n- **Gap identification** — evidence\\-audited medical research gap finder, population gap detector, method gap detector, unmet clinical need extractor, basic\\-to\\-clinical translational opportunity finder, bioinformatics\\-to\\-clinical translational opportunity finder, topic saturation and whitespace checker, novelty vs feasibility assessor\r\n- **Citation \\& integrity** — citation network builder and visualizer, citation chasing and lineage mapping, retraction watcher, paper\\-to\\-claim verifier, contradictory findings resolver, target novelty scorer, translational gap analyzer\r\n- **Research intelligence** — systematic review screener with PRISMA workflow support, clinical study information extractor from PMIDs, experimental protocol extractor from publications, methodology extractor for batch protocol comparison, funding trend forecaster, NIH grant funding scout, study design identifier, research paper downloader from open\\-access sources\r\n\r\n### 🧪 Study Design \\& Protocol Development — 68 skills\r\n\r\nMoving from a research question to a submission\\-ready protocol requires choosing the right study architecture, controlling for bias sources, and justifying every design decision to reviewers and ethics boards\\. This category provides hypothesis formulation tools, study design selectors, sample size calculators, and 30\\+ disease\\- and method\\-specific study planners that generate full protocol drafts grounded in current methodological standards\\.\r\n\r\n- **Core design tools** — hypothesis generator, aim and hypothesis designer, study objective refiner, primary plan recommender, feasibility\\-aware study planner, inclusion and exclusion criteria builder, endpoint definition designer, sample size and power planning assistant, confounder and bias control planner, validation strategy designer, basic research design advisor, clinical research design advisor, automated LLM\\-driven hypothesis generation and testing for tabular datasets\r\n- **Translational pathway** — mechanism\\-to\\-validation planner, translational study blueprint, animal and cell validation planner, gap\\-to\\-study design converter, research algorithm matcher for data modality and resource constraints\r\n- **Clinical study planners** — clinical cohort protocol designer, case\\-control study planner, real\\-world evidence study designer using EHR, claims, or registry data, prognostic biomarker protocol designer, treatment response predictor planner, Mendelian randomization protocol designer, QTL colocalization study planner, drug repurposing study planner, single\\-cell research planner, bulk omics integrative planner, multi\\-omics clinical integration planner\r\n- **Specialized study planners** — two\\-sample Mendelian randomization, bidirectional multi\\-phenotype MR, MR and scRNA\\-seq integration, NHANES biomarker study, FAERS pharmacovigilance disproportionality, FAERS multi\\-drug single\\-SOC safety comparison, single\\-drug FAERS safety profile, active comparator FAERS safety comparison, network toxicology and molecular docking, dual\\-disease transcriptomic ML, dual\\-disease shared transcriptome biomarker, tumor immune infiltration diagnostic ML, conventional oncology hub\\-gene, conventional non\\-oncology hub\\-gene, non\\-tumor ML, non\\-tumor mechanism\\-guided diagnostic ML, cross\\-disease shared biomarker network, comorbidity common immune biomarker, PCD immune oncology, single\\-gene oncology reference\\-grounded, generic phenotype scoring, process\\-related diagnostic biomarker nomogram, pathway\\-anchored network pharmacology, hub\\-first network pharmacology, single\\-compound network toxicology disease link, comparative network toxicology shared mechanism, two\\-sample MR exposure screening\r\n- **Regulatory \\& registration** — PROSPERO systematic review protocol writer, INPLASY registration helper, IRB application assistant, IACUC protocol drafter, meta\\-analysis protocol writer, protocol standardization for reproducible SOPs, research proposal generator from existing literature, competitive research proposal writer for NSF/NIH/DOE/DARPA\r\n\r\n### 🧬 Omics \\& Bioinformatics Analysis — 52 skills\r\n\r\nFrom raw sequencing files to interpretable biological findings, these skills cover single\\-cell RNA\\-seq, bulk transcriptomics, multi\\-omics integration, genomics, proteomics, and microbiome workflows — with outputs formatted for direct inclusion in manuscript figures and methods sections\\.\r\n\r\n- **Single\\-cell RNA\\-seq** — end\\-to\\-end Scanpy QC\\-to\\-clustering pipeline, ","default_branch":"main","files":19884,"tree":[".github/workflows/release.yml",".github/workflows/sync-awesome-skills.yml",".gitignore","LICENSE","README.md","awesome-med-research-skills/Academic Writing/arxiv-preflight/SKILL.md","awesome-med-research-skills/Academic Writing/arxiv-preflight/eval_report_arxiv-preflight_result.json","awesome-med-research-skills/Academic Writing/arxiv-preflight/evals/evals.json","awesome-med-research-skills/Academic Writing/arxiv-preflight/evals/fixtures/clean/main.tex","awesome-med-research-skills/Academic Writing/arxiv-preflight/evals/fixtures/clean/refs.bib","awesome-med-research-skills/Academic 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