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autonomous-builder

Full-stack software development agent for design, implementation, testing, and deployment. Use when the user explicitly asks for end-to-end project creation, feature development, bug fixing, or code refactoring.

clinical-reports

Write comprehensive clinical reports including case reports (CARE guidelines), diagnostic reports (radiology/pathology/lab), clinical trial reports (ICH-E3, SAE, CSR), and patient documentation (SOAP, H&P, discharge summaries). Full support with templates, regulatory compliance (HIPAA, FDA, ICH-GCP), and validation tools.

cs-foundations

Master discrete mathematics, logic, formal proofs, and computational thinking. Build the mathematical foundation for all computer science.

creating-data-visualizations

Create analytical charts and plots from existing data. Use for exploratory or reporting visuals such as bars, lines, scatters, and dashboards; not for publication-grade scientific figures or AI-generated schematics.

detecting-data-anomalies

Investigate outliers, rare events, spikes, and suspicious records in datasets. Use as an explicit anomaly-analysis helper when you want concrete anomaly-detection workflow guidance, not generic data validation or end-to-end ML ownership.

detecting-performance-regressions

Compare current benchmark results against historical baselines to spot performance regressions. Use as an explicit/manual helper for build-to-build degradation review, not for broad optimization strategy or low-level profiling ownership.

skill-creator

Guide for creating effective skills. This skill should be used when users want to create a new skill (or update an existing skill) that extends Codex's capabilities with specialized knowledge, workflows, or tool integrations.

skill-installer

Install Codex skills into $CODEX_HOME/skills from a curated list or a GitHub repo path. Use when a user asks to list installable skills, install a curated skill, or install a skill from another repo (including private repos).

algorithmic-art

Creating algorithmic art using p5.js with seeded randomness and interactive parameter exploration. Use this when users request creating art using code, generative art, algorithmic art, flow fields, or particle systems. Create original algorithmic art rather than copying existing artists' work to avoid copyright violations.

alpha-vantage

Access real-time and historical stock market data, forex rates, cryptocurrency prices, commodities, economic indicators, and 50+ technical indicators via the Alpha Vantage API. Use when fetching stock prices (OHLCV), company fundamentals (income statement, balance sheet, cash flow), earnings, options data, market news/sentiment, insider transactions, GDP, CPI, treasury yields, gold/silver/oil prices, Bitcoin/crypto prices, forex exchange rates, or calculating technical indicators (SMA, EMA, MACD, RSI, Bollinger Bands). Requires a free API key from alphavantage.co.

astropy

Comprehensive Python library for astronomy and astrophysics. This skill should be used when working with astronomical data including celestial coordinates, physical units, FITS files, cosmological calculations, time systems, tables, world coordinate systems (WCS), and astronomical data analysis. Use when tasks involve coordinate transformations, unit conversions, FITS file manipulation, cosmological distance calculations, time scale conversions, or astronomical data processing.

chembl-database

Query ChEMBL bioactive molecules and drug discovery data. Search compounds by structure/properties, retrieve bioactivity data (IC50, Ki), find inhibitors, perform SAR studies, for medicinal chemistry.

clinical-decision-support

Generate professional clinical decision support (CDS) documents for pharmaceutical and clinical research settings, including patient cohort analyses (biomarker-stratified with outcomes) and treatment recommendation reports (evidence-based guidelines with decision algorithms). Supports GRADE evidence grading, statistical analysis (hazard ratios, survival curves, waterfall plots), biomarker integration, and regulatory compliance. Outputs publication-ready LaTeX/PDF format optimized for drug development, clinical research, and evidence synthesis.

clinicaltrials-database

Query ClinicalTrials.gov via API v2. Search trials by condition, drug, location, status, or phase. Retrieve trial details by NCT ID, export data, for clinical research and patient matching.

clinpgx-database

Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele functions, for precision medicine and genotype-guided dosing decisions.

create-plan

Create a concise plan. Use when a user explicitly asks for a plan related to a coding task.

data-artist

Create beautiful data visualizations with mathematical elegance, color theory, and narrative design - the "Data is Beautiful" aesthetic.

datacommons-client

Work with Data Commons, a platform providing programmatic access to public statistical data from global sources. Use this skill when working with demographic data, economic indicators, health statistics, environmental data, or any public datasets available through Data Commons. Applicable for querying population statistics, GDP figures, unemployment rates, disease prevalence, geographic entity resolution, and exploring relationships between statistical entities.

digital-brain

This skill should be used when the user asks to "write a post", "check my voice", "look up contact", "prepare for meeting", "weekly review", "track goals", or mentions personal brand, content creation, network management, or voice consistency.

Code & Development Featured

docs-review

Review documentation changes for compliance with the Metabase writing style guide. Use when reviewing pull requests, files, or diffs containing documentation markdown files.

docs-write

Write documentation following Metabase's conversational, clear, and user-focused style. Use when creating or editing documentation files (markdown, MDX, etc.).

docx

Document toolkit (.docx). Create/edit documents, tracked changes, comments, formatting preservation, text extraction, for professional document processing.

pdf

PDF manipulation toolkit. Extract text/tables, create PDFs, merge/split, fill forms, for programmatic document processing and analysis.

pptx

Presentation toolkit (.pptx). Create/edit slides, layouts, content, speaker notes, comments, for programmatic presentation creation and modification.

adaptyv

Cloud laboratory platform for automated protein testing and validation. Use when designing proteins and needing experimental validation including binding assays, expression testing, thermostability measurements, enzyme activity assays, or protein sequence optimization. Also use for submitting experiments via API, tracking experiment status, downloading results, optimizing protein sequences for better expression using computational tools (NetSolP, SoluProt, SolubleMPNN, ESM), or managing protein design workflows with wet-lab validation.

aeon

This skill should be used for time series machine learning tasks including classification, regression, clustering, forecasting, anomaly detection, segmentation, and similarity search. Use when working with temporal data, sequential patterns, or time-indexed observations requiring specialized algorithms beyond standard ML approaches. Particularly suited for univariate and multivariate time series analysis with scikit-learn compatible APIs.

architecture-patterns

Implement proven backend architecture patterns including Clean Architecture, Hexagonal Architecture, and Domain-Driven Design. Use when architecting complex backend systems or refactoring existing applications for better maintainability.

bio-database-evidence

Unified biological database evidence owner. Use for gene annotation, variant clinical significance, cancer mutation evidence, GWAS trait associations, pathway mapping, target-disease evidence, protein structures, protein interaction networks, reference single-cell census queries, and cross-database biological ID mapping. Do not use for full single-cell analysis, bulk RNA-seq differential expression, BAM/VCF processing, protein embedding models, metabolic flux modeling, genomic interval ML, or flow-cytometry file parsing.

biopython

Primary retained Python toolkit for molecular biology sequence work. Preferred for sequence manipulation, FASTA/FASTQ/GenBank parsing, Bio.Entrez, BLAST workflows, alignments, structures, and phylogenetics. For biological database evidence lookup, use bio-database-evidence. For single-cell workflows use scanpy. For direct literature REST API, use pubmed-database.

brainstorming

You MUST use this before any creative work - creating features, building components, adding functionality, or modifying behavior. Explores user intent, requirements and design before implementation.

claude-skills

Claude Skills meta-skill: extract domain material (docs/APIs/code/specs) into a reusable Skill (SKILL.md + references/scripts/assets), and refactor existing Skills for clarity, activation reliability, and quality gates.

Code & Development Featured

code-reviewer

Default code-quality route for broad code review, PR review, maintainability, correctness, and regression-risk checks. Do not use as the primary route for dedicated OWASP/security audits, review-feedback handling, completion verification, AI-code cleanup, or TDD/test-first work.

coding-tutor

Personalized coding tutorials that build on your existing knowledge and use your actual codebase for examples. Creates a persistent learning trail that compounds over time using the power of AI, spaced repetition and quizes.

commit-with-reflection

Git提交与调试反思报告生成技能。用于分析开发过程中的错误、调试步骤和解决方案,生成结构化的中文反思报告,并创建包含报告引用的Git提交。显式请求词:反思提交、智能提交、生成调试报告、commit with reflection。

comprehensive-research-agent

Ensure thorough validation, error recovery, and transparent reasoning in research tasks with multiple tool calls

content-research-writer

Assists in writing high-quality content by conducting research, adding citations, improving hooks, iterating on outlines, and providing real-time feedback on each section. Transforms your writing process from solo effort to collaborative partnership.

context-fundamentals

This skill should be used when the user asks to "understand context", "explain context windows", "design agent architecture", "debug context issues", "optimize context usage", or discusses context components, attention mechanics, progressive disclosure, or context budgeting. Provides foundational understanding of context engineering for AI agent systems.

dask

Parallel/distributed computing. Scale pandas/NumPy beyond memory, parallel DataFrames/Arrays, multi-file processing, task graphs, for larger-than-RAM datasets and parallel workflows.

data-quality-frameworks

Implement data quality validation with Great Expectations, dbt tests, and data contracts. Use when building data quality pipelines, implementing validation rules, or establishing data contracts.

data-storytelling

Transform data into compelling narratives using visualization, context, and persuasive structure. Use when presenting analytics to stakeholders, creating data reports, or building executive presentations.

datavis

Comprehensive data visualization toolkit for creating beautiful, mathematically elegant visualizations with D3.js, Chart.js, and custom SVG. Use when (1) building interactive data visualizations, (2) designing color palettes for charts, (3) choosing scales and visual encodings, (4) creating data pipelines from Census/SEC/Wikipedia APIs, (5) crafting narrative-driven data stories, (6) making perceptually accurate charts, or (7) implementing force-directed networks, timelines, or geographic maps.

denario

Multiagent AI system for scientific research assistance that automates research workflows from data analysis to publication. This skill should be used when generating research ideas from datasets, developing research methodologies, executing computational experiments, performing literature searches, or generating publication-ready papers in LaTeX format. Supports end-to-end research pipelines with customizable agent orchestration.

dnanexus-integration

DNAnexus cloud genomics platform. Build apps/applets, manage data (upload/download), dxpy Python SDK, run workflows, FASTQ/BAM/VCF, for genomics pipeline development and execution.

doc

Use when the task involves reading, creating, or editing `.docx` documents, especially when formatting or layout fidelity matters; prefer `python-docx` plus the bundled `scripts/render_docx.py` for visual checks.

cancel-ralph

Codex-compatible cancel command for Ralph loop state, preserving the original command name.

context-hunter

Discover codebase patterns, conventions, and unwritten rules before making changes. Use when implementing features, fixing bugs, or refactoring code.

designing-experiments

Design experiments and quasi-experiments before analysis. Use when choosing study design, treatment/control structure, outcomes, assumptions, validation plans after scientific experiment failure, or which of DiD, ITS, synthetic control, or regression discontinuity fits the research question. For fitting models or estimating effects on existing data, use performing-causal-analysis instead.

dialectic

Minimal compatibility wrapper for vibe Dialectic Mode (multi-perspective design analysis).