381,784 Collected SKILL.md files

Explore AI Agent Skills & Claude Prompts

Discover open-source agent skills for Claude Code, Codex, ChatGPT, and any tool that uses SKILL.md.

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ClawBio
Showing 12 of 87 skills
ClawBio

hla-typing

by ClawBio
star 979

HLA allele typing from WGS/WES VCF data

navigation main article SKILL.md
schedule Updated 1 month ago
ClawBio

vcf-annotator

by ClawBio
star 979

Annotate VCF variants with Ensembl VEP, ClinVar, and gnomAD. Ranks variants by impact (HIGH/MODERATE/LOW/MODIFIER) and generates a reproducible report.

navigation main article SKILL.md
schedule Updated 2 months ago
ClawBio

ukb-ppp-region-fetch

by ClawBio
star 979

Fetch a regional slice of plasma pQTL summary statistics from the UK Biobank Pharma Proteomics Project (UKB-PPP; Sun 2023 Nature) for a specific (protein, ancestry) measurement. Use when an agent needs per-variant beta / SE / p-value around a coloc-lead variant for downstream colocalisation, Mendelian randomisation, or regional plotting against a pQTL exposure. The canonical use case is the cis-window around the protein's coding gene TSS, but UKB-PPP releases full-genome summary stats per protein so any GRCh38 window (including trans loci) is supported when the user supplies an explicit (chromosome, start_bp, end_bp). Input: protein_label (HGNC or UniProt), ancestry, chromosome, start_bp, end_bp. Output: harmonised TSV slice + manifest + human-readable report.

navigation main article SKILL.md
schedule Updated 1 month ago
ClawBio

ukb-navigator

by ClawBio
star 979

Semantic search across UK Biobank's 12,000+ data fields and publications — find the right variables for your research question.

navigation main article SKILL.md
schedule Updated 2 months ago
ClawBio

labstep

by ClawBio
star 979

Query and display Labstep electronic lab notebook data — experiments, protocols, resources, and inventory — via labstepPy. Supports offline demo mode with synthetic biology data.

navigation main article SKILL.md
schedule Updated 2 months ago
ClawBio

ld-1000g-region-compute

by ClawBio
star 979

Compute pairwise r² between a lead variant and every variant in a window using the 1000 Genomes Phase 3 GRCh38 reference panel, ancestry-stratified. Use when an agent needs LD coloring for a regional plot or LD pruning around a candidate causal variant. Single client (on-demand region fetch from EBI 1000G FTP); no multi-GB cold-start.

navigation main article SKILL.md
schedule Updated 1 month ago
ClawBio

nfcore-sarek-wrapper

by ClawBio
star 979

ClawBio wrapper around nf-core/sarek 3.8.1 covering mapping through annotation for germline, tumor-only, and somatic paired analyses.

navigation main article SKILL.md
schedule Updated 12 days ago
ClawBio

nfcore-rnaseq-wrapper

by ClawBio
star 979

Wrapper skill for running nf-core/rnaseq bulk RNA-seq preprocessing from FASTQ or BAM inputs with strict preflight, reproducibility outputs, and downstream handoff to ClawBio bulk RNA-seq DE skills.

navigation main article SKILL.md
schedule Updated 14 days ago
ClawBio

ncbi-datasets

by ClawBio
star 979

Download genomes, genes, virus sequences, and taxonomy data from NCBI using the datasets and dataformat CLI tools.

navigation main article SKILL.md
schedule Updated 1 month ago
ClawBio

nfcore-scrnaseq-wrapper

by ClawBio
star 979

Wrapper skill for running nf-core/scrnaseq 4.1.0 upstream single-cell RNA-seq preprocessing from FASTQ with strict preflight, reproducibility outputs, and downstream handoff to ClawBio scRNA skills.

navigation main article SKILL.md
schedule Updated 12 days ago
ClawBio

archaic-introgression

by ClawBio
star 979

Detect Neanderthal and Denisovan introgression segments from modern human genomes

navigation main article SKILL.md
schedule Updated 2 months ago
ClawBio

galaxy-bridge

by ClawBio
star 979

Galaxy tool discovery, intelligent recommendation, and execution — 8,000+ bioinformatics tools from usegalaxy.org with multi-signal scoring and workflow suggestions

navigation main article SKILL.md
schedule Updated 2 months ago
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Browse Agent Skills by Occupation

23 major groups · 867 SOC occupations

Browse by Category

Explore agent skills organized by their primary use case

SKILLMD / CREATORS AND OCCUPATION CATEGORIES

Explore the agent skills ecosystem by occupation and creator

SkillMD is not just a keyword search box. It is an open map that organizes public skills by occupation, creator, and repository, helping you see which workflows, judgment criteria, and domain habits people are writing for AI agents.

Then follow creators and GitHub repositories back to the source: compare the skills a team maintains, whether the repo is active, and how the README frames the work before you open, install, or reuse anything.

Use it three ways: learn an unfamiliar field by occupation, study how creators organize skills, then use source context to decide what is worth opening or reusing.

01 Map a field

Browse 23 occupation groups and 867 SOC roles to learn what skills exist in adjacent domains and how they break down real work.

02 Follow creators

Use creator and repository pages to inspect maintained skill collections, recent updates, and source context before trusting a result.

03 Search with sources

Search 1.7M+ collected skills, then use occupation tags, creators, and GitHub source context to decide what is worth opening.

Start with the occupation map, then follow creators and repositories back to real code. SkillMD helps explain why a skill is worth opening, not only what it is named.

SEO KNOWLEDGE HUB & TECHNICAL OVERVIEW

Standardizing Agent Capabilities with SKILL.md and Model Context Protocol (MCP)

In the rapidly evolving landscape of artificial intelligence, LLM agents (Large Language Model agents) have transitioned from simple text predictors to autonomous problem solvers. To orchestrate complex, multi-step agentic workflows, developers require a standardized format to specify agent capabilities, prompt instructions, system rules, and database bindings. This is where SKILL.md and the Model Context Protocol (MCP) have emerged as standard developer paradigms. SkillMD serves as the central directory for indexing, exploring, and sharing these critical agent configurations.

Our open-source registry currently tracks over 1.7 million collected SKILL.md configurations and system prompts. By compiling agent configurations from active developers on GitHub, we bridge the gap between prompt engineering research and production execution. Whether you are building agents with Anthropic's Claude Code, OpenAI's GPT-4, Google's Gemini, or local models using Ollama and LlamaIndex, standardized skill definitions ensure your agents behave predictably across different runtime environments.

What is the Model Context Protocol (MCP)?

The Model Context Protocol (MCP) is an open-source standard designed to connect LLMs to data sources, developer tools, and external environments. MCP establishes a bidirectional communication channel between client applications (like Cursor, Claude Desktop, or custom agent systems) and servers hosting data or capabilities. Standardizing instructions via SKILL.md enables LLMs to query databases, read local files, execute terminal commands, and integrate third-party APIs. SkillMD allows you to find ready-to-run MCP servers and prompt instructions for various occupations and technical tasks.

The Structure of a Professional SKILL.md File

A valid SKILL.md configuration is designed to be easily read by humans and parsed by LLMs. It contains precise system instructions, trigger conditions, required parameters, and execution examples. Below is the typical architectural blueprint of a professional agent skill:

  • Metadata & Core Scope: Declares the name of the skill, author details, target models, and a description of the capability.
  • Triggers & Intent Detection: Details semantic triggers that help the agent decide when to invoke this skill.
  • System Prompts: Explicit system-level instructions that direct the agent's behavior, personality, safety guardrails, and formatting preferences.
  • Capabilities & Tools: Lists the files, databases, or APIs the agent must access to complete the tasks.
  • Few-Shot Examples: Demonstrates real inputs and outputs, helping the model generalize behavior through in-context learning.

Optimizing Agent Workflows for Modern LLMs

Writing effective agent skills requires deep knowledge of prompt engineering. With the release of advanced reasoning models like Claude 3.5 Sonnet, ChatGPT o1, and DeepSeek-V3, prompt templates must focus on structured thinking. Developers are encouraged to use XML tags (e.g., <thought>, <context>, and <rules>) to isolate execution boundaries. Standardized prompts prevent agents from suffering from context drift, ensuring that long-running tasks remain aligned with the initial system parameters.

Exploring by SOC Occupations and Creator Profiles

What makes SkillMD unique is its taxonomy. Instead of simple text search, we parse and organize files according to the Standard Occupational Classification (SOC) system. This means you can discover skills written for Computer and Mathematical roles, Business and Financial operations, Legal, Design, and and Educational Instruction fields. By tracking creator profiles, developers can study how different teams organize their custom instructions, compare version updates, and fork public configs for specialized enterprise use cases.

SkillMD operates as a high-performance index running on a fast Go backend and a highly responsive Astro SSR frontend. All search queries execute in milliseconds, featuring smart debouncing to prevent multiple API requests while keeping user data secure. Join our community of developers to standardize your AI agent instructions and optimize your LLM prompting workflows today.

8 QUESTIONS

Frequently Asked Questions

A practical guide to agent skills: what they are, how to inspect them, and how SkillMD helps you explore the ecosystem.