deepchem
Molecular ML with diverse featurizers and pre-built datasets. Use for property prediction (ADMET, toxicity) with traditional ML or GNNs when you want extensive featurization options and MoleculeNet benchmarks. Best for quick experiments with pre-trained models, diverse molecular representations. For graph-first PyTorch workflows use torchdrug; for benchmark datasets use pytdc.
arboreto
Infer gene regulatory networks (GRNs) from gene expression data using scalable algorithms (GRNBoost2, GENIE3). Use when analyzing transcriptomics data (bulk RNA-seq, single-cell RNA-seq) to identify transcription factor-target gene relationships and regulatory interactions. Supports distributed computation for large-scale datasets.
molfeat
Molecular featurization for ML (100+ featurizers). ECFP, MACCS, descriptors, pretrained models (ChemBERTa), convert SMILES to features, for QSAR and molecular ML.
datamol
Pythonic wrapper around RDKit with simplified interface and sensible defaults. Preferred for standard drug discovery including SMILES parsing, standardization, descriptors, fingerprints, clustering, 3D conformers, parallel processing. Returns native rdkit.Chem.Mol objects. For advanced control or custom parameters, use rdkit directly.
cobrapy
Constraint-based metabolic modeling (COBRA). FBA, FVA, gene knockouts, flux sampling, SBML models, for systems biology and metabolic engineering analysis.
anndata
Data structure for annotated matrices in single-cell analysis. Use when working with .h5ad files or integrating with the scverse ecosystem. This is the data format skill—for analysis workflows use scanpy; for probabilistic models use scvi-tools; for population-scale queries use cellxgene-census.
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.
pymoo
Multi-objective optimization framework. NSGA-II, NSGA-III, MOEA/D, Pareto fronts, constraint handling, benchmarks (ZDT, DTLZ), for engineering design and optimization problems.
dask
Distributed computing for larger-than-RAM pandas/NumPy workflows. Use when you need to scale existing pandas/NumPy code beyond memory or across clusters. Best for parallel file processing, distributed ML, integration with existing pandas code. For out-of-core analytics on single machine use vaex; for in-memory speed use polars.
cirq
Google quantum computing framework. Use when targeting Google Quantum AI hardware, designing noise-aware circuits, or running quantum characterization experiments. Best for Google hardware, noise modeling, and low-level circuit design. For IBM hardware use qiskit; for quantum ML with autodiff use pennylane; for physics simulations use qutip.
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.
binary-analysis-patterns
Master binary analysis patterns including disassembly, decompilation, control flow analysis, and code pattern recognition. Use when analyzing executables, understanding compiled code, or performing static analysis on binaries.
vercel-deploy
Zero-auth Vercel deployment workflow with automatic framework detection for 20+ frameworks. Use when deploying web applications to Vercel, creating preview deployments, or setting up deployment pipelines. Supports Next.js, Vite, Remix, SvelteKit, Astro, Nuxt, and more.
verification-before-completion
Gate function preventing unverified completion claims. Use before claiming any task is done.
visual-and-observational-rules
Defines the visual aspects of the game and how the player observes the world. This includes map color-coding, screen effects, and the overall simulation style.
voice-clone-generator
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vue-expert
Vue.js ecosystem expert including Vue 3, Composition API, Nuxt, and Pinia
wave-executor
Fresh-process orchestration for EPIC-tier batch pipelines. Spawns a new Bun process per wave via the Claude Agent SDK, preventing GC-related crashes in long-running sessions.
web-design-guidelines-vercel
Review UI code for Web Interface Guidelines compliance. Use when asked to "review my UI", "check accessibility", "audit design", "review UX", or "check my site against best practices".
web-perf
Structured 5-phase web performance audit workflow with Core Web Vitals thresholds and actionable optimization recommendations. Use when auditing website performance, diagnosing slow page loads, optimizing Core Web Vitals scores, or reviewing frontend performance patterns. Covers Webpack, Vite, Next.js, and Nuxt optimization.
web3-expert
Web3 and blockchain expert including Solidity, Ethereum, and smart contracts
webapp-testing
Test local web applications using Playwright with Python. Verify frontend functionality, debug UI behavior, capture screenshots, and view browser console logs. Supports static HTML files, dynamic webapps with running servers, and automated test generation.
webmcp-browser-tools
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websocket-engineer
Expert WebSocket and real-time communication engineering — WebSocket protocol (RFC 6455), ws/Socket.IO server implementation, authentication, heartbeat/reconnection, horizontal scaling with Redis pub/sub, Server-Sent Events (SSE), WebRTC signaling, and observability. Use for chat, live dashboards, multiplayer, collaborative editing, and event-driven real-time systems.
windows-terminal
Spawn and manage Windows Terminal (wt.exe) windows and tabs from Node.js scripts and Claude Code hooks, with App Execution Alias resolution, correct CLI flags, and anti-patterns to avoid
workflow-creator
Creates multi-agent orchestration workflows for complex tasks. Handles enterprise workflows, operational procedures, and custom orchestration patterns. Use when user needs to automate multi-phase processes with agent coordination.
workflow-patterns
TDD task implementation patterns - red-green-refactor cycle, phase checkpoints, git commits, and verification protocols for quality assurance.
workflow-updater
Research-backed workflow to refresh existing workflow files with phase-gate regression checks, idempotency validation, and ecosystem alignment.
writing-skills
TDD applied to documentation - create production-ready skills. Use when authoring new skills. Includes writing style guidelines for clear prose.
yara-authoring
YARA-X detection rule authoring with expert judgment, linting, atom analysis, and best practices. Teaches how to think like an expert YARA author for malware detection, threat hunting, and indicator-of-compromise identification using YARA-X (the Rust-based successor to legacy YARA).
starknet-react-rules
Specific rules for Starknet React projects, focusing on blockchain integration.
recommend-evolution
Detect capability gaps and record standardized evolution recommendations.
recovery
Workflow recovery protocol for resuming workflows after context loss, session interruption, or errors. Handles state reconstruction, artifact recovery, and seamless workflow continuation.
reddit-researcher
Search and read public Reddit posts, subreddits, and comments via the unauthenticated JSON API. Safe read-only access with SSRF-prevention hostname allowlist.
regulatory-compliance
Validate systems and processes against GDPR/CCPA privacy regulations, privacy-by-design principles, ADA/WCAG accessibility standards, data processing agreements (DPAs), and provide compliance checklists with regulatory change monitoring guidance.
requesting-code-review
Dispatch code-reviewer agent for two-stage review. Use after completing implementation tasks.
research-synthesis
Research best practices and synthesize into design decisions for artifact creation. Invoke BEFORE any creator skill to ensure research-backed decisions.
response-rater
Rates responses and plans against quality rubrics. Used for plan validation, response quality audits, and multi-agent consensus.
restcontroller-conventions
Specifies standards for RestController classes, including API route mappings, HTTP method annotations, dependency injection, and error handling with ApiResponse and GlobalExceptionHandler.
ripgrep
Enhanced code search with custom ripgrep binary supporting ES module extensions and advanced patterns.
rule-auditor
Validates code against coding standards and best practices. Reports compliance violations and suggests fixes.
rule-creator
Creates rule files for the Claude Code framework. Rules are markdown files in .claude/rules/ that are auto-loaded by Claude Code.
rust-expert
Rust programming expert including ownership, borrowing, lifetimes, async Tokio patterns, error handling, trait system, performance optimization, testing, and production systems development
scheduled-tasks
Schedule recurring tasks and heartbeat monitoring using Claude Code's cron system (CronCreate/CronList/CronDelete). Implements the Agentic Heartbeat Pattern for ecosystem health monitoring.
schema-creator
Creates JSON Schema validation files for skills, agents, hooks, workflows, and data structures. Ensures type safety and input validation across the framework.
scientific-skills
Comprehensive scientific research toolkit with 139 specialized skills for biology, chemistry, medicine, data science, and computational research. Transforms Claude into an AI research assistant with access to scientific databases, analysis tools, and domain-specific workflows.
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.
alphafold-database
Access AlphaFold 200M+ AI-predicted protein structures. Retrieve structures by UniProt ID, download PDB/mmCIF files, analyze confidence metrics (pLDDT, PAE), for drug discovery and structural biology.
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.
benchling-integration
Benchling R&D platform integration. Access registry (DNA, proteins), inventory, ELN entries, workflows via API, build Benchling Apps, query Data Warehouse, for lab data management automation.
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