ghe-changelog
This skill should be used when updating the project CHANGELOG, tracking requirement changes, recording design decisions, or documenting version history. Uses git-diff to detect and categorize changes to both code and requirements. Trigger on "changelog", "version history", "what changed", or after significant commits.
ghe-checkpoint
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ghe-claim
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ghe-design
Reference material for Athena when writing requirements. NOT a template - Athena writes requirements freely based on the domain. This skill provides guidance patterns that may be useful, not constraints to follow.
ghe-report
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ghostty
Control Ghostty terminal emulator via CLI. Manage windows, tabs, splits, and configuration.
gcloud
Google Cloud Platform CLI - manage GCP resources including Compute Engine, Cloud Run, GKE, Cloud Functions, Storage, BigQuery, and more.
flywheel-discord
Security rules and behavioral guidelines for operating as Clawdstein in The Agent Flywheel Hub Discord server. This is a PUBLIC community server—apply strict data isolation.
de-slopify
Remove telltale signs of AI-generated 'slop' writing from README files and documentation. Make your docs sound authentically human.
dcg
Destructive Command Guard - High-performance Rust hook for Claude Code that blocks dangerous commands before execution. SIMD-accelerated, modular pack system, whitelist-first architecture. Essential safety layer for agent workflows.
cursor
Control Cursor AI code editor via CLI. Open files, folders, diffs, and manage extensions.
csctf
Chat Shared Conversation To File - Convert ChatGPT, Gemini, Grok, and Claude share links to clean Markdown + HTML transcripts. Preserves code fences with language detection, deterministic filenames, GitHub Pages publishing. Bun-native CLI.
cm
CASS Memory System - procedural memory for AI coding agents. Three-layer cognitive architecture with confidence decay, anti-pattern learning, cross-agent knowledge transfer, trauma guard safety system. Bun/TypeScript CLI.
claude-chrome
Claude in Chrome - browser automation via the official Anthropic extension. Control your logged-in Chrome browser, automate workflows, fill forms, extract data, and run scheduled tasks.
cass
Coding Agent Session Search - unified CLI/TUI to index and search local coding agent history from Claude Code, Codex, Gemini, Cursor, Aider, ChatGPT, Pi-Agent, Factory, and more. Purpose-built for AI agent consumption with robot mode.
caam
Coding Agent Account Manager - Sub-100ms account switching for AI coding CLIs with fixed-cost subscriptions. Vault profiles, isolated profiles for parallel sessions, smart rotation with health scoring, cooldown tracking, automatic failover, TUI dashboard. Go CLI.
bv
Beads Viewer - Graph-aware triage engine for Beads projects. Computes PageRank, betweenness, critical path, and cycles. Use --robot-* flags for AI agents.
beads-workflow
Converting markdown plans into beads (tasks with dependencies) and polishing them until they're implementation-ready. The bridge between planning and agent swarm execution. Includes exact prompts used.
agent-swarm-workflow
Jeffrey Emanuel's multi-agent implementation workflow using NTM, Agent Mail, Beads, and BV. The execution phase that follows planning and bead creation. Includes exact prompts used.
agent-mail
MCP Agent Mail - Mail-like coordination layer for multi-agent workflows. Identities, inbox/outbox, file reservations, contact policies, threaded messaging, pre-commit guard, Human Overseer, static exports, disaster recovery. Git+SQLite backed. Python/FastMCP.
agent-fungibility
The philosophy and practical benefits of agent fungibility in multi-agent software development. Why homogeneous, interchangeable agents outperform specialized role-based systems at scale.
libreoffice-writer
Use when creating, editing, formatting, exporting, or extracting LibreOffice Writer (.odt) documents via UNO, including session-based edits, structured text targets, tables, images, lists, patch workflows, and snapshots.
libreoffice-impress
Use when creating, editing, formatting, or extracting LibreOffice Impress (.odp) presentations via UNO, including session-based slide edits, structured targets, lists, tables, charts, media, notes, master pages, patch workflows, and snapshots.
libreoffice-calc
Use when creating, editing, formatting, exporting, or extracting LibreOffice Calc (.ods) spreadsheets via UNO, including session-based cell and range edits, sheets, named ranges, validation, charts, patch workflows, and snapshots.
test-case-generator
从需求文档（文字、图片、PDF、DOCX）生成结构化的功能测试用例。遵循 15 字段规范，输出 Excel 文件，支持正向/异常场景、边界值、安全性测试。
testing-test-writing
Write focused tests for core user flows and critical paths using Pest framework, with minimal tests during development and strategic coverage at completion points. Use this skill when creating or editing test files in tests/Feature/ or tests/Unit/ directories, when writing Pest tests with descriptive names, when testing critical user workflows and business logic, when mocking external dependencies, when implementing fast unit tests, when testing behavior rather than implementation details, or when deciding what needs test coverage at feature completion.
global-validation
Implement server-side validation with allowlists, specific error messages, type checking, and sanitization to prevent security vulnerabilities and ensure data integrity. Use this skill when creating or editing form request classes, when validating API inputs, when implementing validation rules in controllers or services, when writing client-side validation for user experience, when sanitizing user input to prevent injection attacks, when validating business rules, when implementing error message display, or when ensuring consistent validation across all application entry points.
file-header-guardian
文件头三行契约注释。触发：create file、新建文件、编写代码。
simpy
Process-based discrete-event simulation framework in Python. Use this skill when building simulations of systems with processes, queues, resources, and time-based events such as manufacturing systems, service operations, network traffic, logistics, or any system where entities interact with shared resources over time.
shap
Model interpretability and explainability using SHAP (SHapley Additive exPlanations). Use this skill when explaining machine learning model predictions, computing feature importance, generating SHAP plots (waterfall, beeswarm, bar, scatter, force, heatmap), debugging models, analyzing model bias or fairness, comparing models, or implementing explainable AI. Works with tree-based models (XGBoost, LightGBM, Random Forest), deep learning (TensorFlow, PyTorch), linear models, and any black-box model.
security-compliance
Guides security professionals in implementing defense-in-depth security architectures, achieving compliance with industry frameworks (SOC2, ISO27001, GDPR, HIPAA), conducting threat modeling and risk assessments, managing security operations and incident response, and embedding security throughout the SDLC.
seaborn
Statistical visualization. Scatter, box, violin, heatmaps, pair plots, regression, correlation matrices, KDE, faceted plots, for exploratory analysis and publication figures.
scvi-tools
This skill should be used when working with single-cell omics data analysis using scvi-tools, including scRNA-seq, scATAC-seq, CITE-seq, spatial transcriptomics, and other single-cell modalities. Use this skill for probabilistic modeling, batch correction, dimensionality reduction, differential expression, cell type annotation, multimodal integration, and spatial analysis tasks.
scikit-survival
Comprehensive toolkit for survival analysis and time-to-event modeling in Python using scikit-survival. Use this skill when working with censored survival data, performing time-to-event analysis, fitting Cox models, Random Survival Forests, Gradient Boosting models, or Survival SVMs, evaluating survival predictions with concordance index or Brier score, handling competing risks, or implementing any survival analysis workflow with the scikit-survival library.
scikit-learn
Machine learning in Python with scikit-learn. Use when working with supervised learning (classification, regression), unsupervised learning (clustering, dimensionality reduction), model evaluation, hyperparameter tuning, preprocessing, or building ML pipelines. Provides comprehensive reference documentation for algorithms, preprocessing techniques, pipelines, and best practices.
scikit-bio
Biological data toolkit. Sequence analysis, alignments, phylogenetic trees, diversity metrics (alpha/beta, UniFrac), ordination (PCoA), PERMANOVA, FASTA/Newick I/O, for microbiome analysis.
scientific-writing
Core skill for the deep research and writing tool. Write scientific manuscripts in full paragraphs (never bullet points). Use two-stage process: (1) create section outlines with key points using research-lookup, (2) convert to flowing prose. IMRAD structure, citations (APA/AMA/Vancouver), figures/tables, reporting guidelines (CONSORT/STROBE/PRISMA), for research papers and journal submissions.
scientific-visualization
Create publication figures with matplotlib/seaborn/plotly. Multi-panel layouts, error bars, significance markers, colorblind-safe, export PDF/EPS/TIFF, for journal-ready scientific plots.
scientific-slides
Build slide decks and presentations for research talks. Use this for making PowerPoint slides, conference presentations, seminar talks, research presentations, thesis defense slides, or any scientific talk. Provides slide structure, design templates, timing guidance, and visual validation. Works with PowerPoint and LaTeX Beamer.
scientific-schematics
Create publication-quality scientific diagrams using Nano Banana Pro AI with smart iterative refinement. Uses Gemini 3 Pro for quality review. Only regenerates if quality is below threshold for your document type. Specialized in neural network architectures, system diagrams, flowcharts, biological pathways, and complex scientific visualizations.
scientific-critical-thinking
Evaluate research rigor. Assess methodology, experimental design, statistical validity, biases, confounding, evidence quality (GRADE, Cochrane ROB), for critical analysis of scientific claims.
scientific-brainstorming
Research ideation partner. Generate hypotheses, explore interdisciplinary connections, challenge assumptions, develop methodologies, identify research gaps, for creative scientific problem-solving.
scholar-evaluation
Apply the ScholarEval framework to systematically evaluate scholarly and research work. This skill provides structured evaluation methodology based on peer-reviewed research assessment criteria, en...
scanpy
Single-cell RNA-seq analysis. Load .h5ad/10X data, QC, normalization, PCA/UMAP/t-SNE, Leiden clustering, marker genes, cell type annotation, trajectory, for scRNA-seq analysis.
research-lookup
Look up current research information using Perplexity's Sonar Pro Search or Sonar Reasoning Pro models through OpenRouter. Automatically selects the best model based on query complexity. Search academic papers, recent studies, technical documentation, and general research information with citations.
research-grants
Write competitive research proposals for NSF, NIH, DOE, and DARPA. Agency-specific formatting, review criteria, budget preparation, broader impacts, significance statements, innovation narratives, and compliance with submission requirements.
reactome-database
Query Reactome REST API for pathway analysis, enrichment, gene-pathway mapping, disease pathways, molecular interactions, expression analysis, for systems biology studies.
rdkit
Cheminformatics toolkit for fine-grained molecular control. SMILES/SDF parsing, descriptors (MW, LogP, TPSA), fingerprints, substructure search, 2D/3D generation, similarity, reactions. For standard workflows with simpler interface, use datamol (wrapper around RDKit). Use rdkit for advanced control, custom sanitization, specialized algorithms.
qutip
Quantum mechanics simulations and analysis using QuTiP (Quantum Toolbox in Python). Use when working with quantum systems including: (1) quantum states (kets, bras, density matrices), (2) quantum operators and gates, (3) time evolution and dynamics (Schrödinger, master equations, Monte Carlo), (4) open quantum systems with dissipation, (5) quantum measurements and entanglement, (6) visualization (Bloch sphere, Wigner functions), (7) steady states and correlation functions, or (8) advanced methods (Floquet theory, HEOM, stochastic solvers). Handles both closed and open quantum systems across various domains including quantum optics, quantum computing, and condensed matter physics.
qiskit
Comprehensive quantum computing toolkit for building, optimizing, and executing quantum circuits. Use when working with quantum algorithms, simulations, or quantum hardware including (1) Building quantum circuits with gates and measurements, (2) Running quantum algorithms (VQE, QAOA, Grover), (3) Transpiling/optimizing circuits for hardware, (4) Executing on IBM Quantum or other providers, (5) Quantum chemistry and materials science, (6) Quantum machine learning, (7) Visualizing circuits and results, or (8) Any quantum computing development task.
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