Claude Skills by jackspace

Expert guidance for Git workflows, troubleshooting, and best practices

This skill provides comprehensive automation for GitHub repository setup and configuration. It should be used when creating new projects, setting up CI/CD pipelines, configuring issue templates, enabling security scanning, or migrating existing projects to GitHub automation. The skill prevents 18 documented errors in GitHub Actions YAML syntax, workflow configuration, issue template structure, Dependabot setup, and CodeQL security scanning. It includes 12 production-tested workflow templates...

This skill provides complete coverage of Google Gemini embeddings API (gemini-embedding-001) for building RAG systems, semantic search, document clustering, and similarity matching. Use when implementing vector search with Google's embedding models, integrating with Cloudflare Vectorize, or building retrieval-augmented generation systems. Covers SDK usage (@google/genai), fetch-based Workers implementation, batch processing, 8 task types (RETRIEVAL_QUERY, RETRIEVAL_DOCUMENT, SEMANTIC_SIMILARI...

This skill provides comprehensive knowledge for building type-safe APIs with Hono, focusing on routing patterns, middleware composition, request validation, RPC client/server patterns, error handling, and context management. Use when: building APIs with Hono (any runtime), setting up request validation with Zod/Valibot/Typia/ArkType validators, creating type-safe RPC client/server communication, implementing custom middleware, handling errors with HTTPException, extending Hono context with c...

Transform infrastructure documentation, runbooks, and operational knowledge into reusable Claude Code skills. Convert Proxmox configs, Docker setups, Kubernetes deployments, and cloud infrastructure patterns into structured, actionable skills.

--- name: motion description: | Production-ready setup for Motion (formerly Framer Motion) - the most popular React animation library with 30,200+ GitHub stars. Motion provides declarative animations, gesture controls, scroll-based effects, spring physics, layout animations, and SVG manipulation. This skill should be used when building UIs that need complex animations beyond simple list transitions: gesture controls (drag, hover, tap), scroll-linked animations, parallax effects, shared elemen...

Consult external AIs (Gemini 2.5 Pro, OpenAI Codex, fresh Claude) for second opinions when stuck on bugs or making architectural decisions. Use when: debugging attempts have failed, making significant architectural choices, security concerns, or need fresh perspective. Automatically suggests consultation after one failed attempt. Provides synthesis comparing multiple AI perspectives with web research, thinking mode, and repo-aware analysis.

Coordinate development workflows across multiple Git repositories with synchronized branching, batch commits, cross-repo operations, and monorepo-like workflows for microservices and multi-package projects.

This skill provides comprehensive knowledge for integrating Neon serverless Postgres and Vercel Postgres (which is built on Neon infrastructure) into web applications. It should be used when setting up serverless Postgres databases, configuring connection pooling for edge and serverless environments, implementing database branching workflows, or troubleshooting Postgres connection issues in Cloudflare Workers, Vercel Edge Functions, or Node.js serverless functions. Use this skill when: - Set...

Automated network troubleshooting and diagnostics for WSL/Linux environments

Use this skill for Next.js App Router patterns, Server Components, Server Actions, Cache Components, and framework-level optimizations. Covers Next.js 16 breaking changes including async params, proxy.ts migration, Cache Components with "use cache", and React 19.2 integration. For deploying to Cloudflare Workers, use the cloudflare-nextjs skill instead. This skill is deployment-agnostic and works with Vercel, AWS, self-hosted, or any platform. Keywords: Next.js 16, Next.js App Router, Next.j...

Use this skill when contributing code to open source projects. The skill covers proper pull request creation, avoiding common mistakes that annoy maintainers, cleaning up personal development artifacts before submission, writing effective PR descriptions, following project conventions, and communicating professionally with maintainers. It prevents 16 common contribution mistakes including working on main branch, not testing before PR submission, including unrelated changes, submitting plannin...

Use this skill when building AI applications with OpenAI Agents SDK for JavaScript/TypeScript. The skill covers both text-based agents and realtime voice agents, including multi-agent workflows (handoffs), tools with Zod schemas, input/output guardrails, structured outputs, streaming, human-in-the-loop patterns, and framework integrations for Cloudflare Workers, Next.js, and React. It prevents 9+ common errors including Zod schema type errors, MCP tracing failures, infinite loops, tool call f...

Complete guide for OpenAI's traditional/stateless APIs: Chat Completions (GPT-5, GPT-4o), Embeddings, Images (DALL-E 3), Audio (Whisper + TTS), and Moderation. Includes both Node.js SDK and fetch-based approaches for maximum compatibility. Use when: integrating OpenAI APIs, implementing chat completions with GPT-5/GPT-4o, generating text with streaming, using function calling/tools, creating structured outputs with JSON schemas, implementing embeddings for RAG, generating images with DALL-E ...

Complete guide for OpenAI's Assistants API v2: stateful conversational AI with built-in tools (Code Interpreter, File Search, Function Calling), vector stores for RAG (up to 10,000 files), thread/run lifecycle management, and streaming patterns. Both Node.js SDK and fetch approaches. ⚠️ DEPRECATION NOTICE: OpenAI plans to sunset Assistants API in H1 2026 in favor of Responses API. This skill remains valuable for existing apps and migration planning. Use when: building stateful chatbots with...

This skill provides comprehensive knowledge for working with OpenAI's Responses API, the unified stateful API for building agentic applications. It should be used when building AI agents that preserve reasoning across turns, integrating MCP servers for external tools, using built-in tools (Code Interpreter, File Search, Web Search, Image Generation), managing stateful conversations, implementing background processing, or migrating from Chat Completions API. Use when building agentic workflow...

Generates comprehensive planning documentation for web application projects, structuring work into context-safe phases with built-in verification criteria. Creates IMPLEMENTATION_PHASES.md, DATABASE_SCHEMA.md, API_ENDPOINTS.md, ARCHITECTURE.md, and other planning docs based on project needs. Optimized for Cloudflare Workers + Vite + React stack. Use when starting new projects, adding major features, or restructuring existing work into manageable phases. Keywords: project planning, planning d...

Manages session state and context handoffs for multi-session projects using the Session Handoff Protocol. Creates and maintains SESSION.md to track phase progress, git checkpoints, and next actions across context clears. Integrates with project-planning skill to convert IMPLEMENTATION_PHASES.md into trackable session state. Use when starting new projects after planning, resuming work after context clear, or managing complex multi-phase implementations. Keywords: session management, SESSION.m...

Expert guidance for Proxmox VE cluster authentication, API access, and infrastructure management.

Creates minimal working prototypes for quick idea validation. Single-file when possible, includes test data, ready to demo immediately. Use when user says "prototype", "MVP", "proof of concept", "quick demo".

This skill provides comprehensive knowledge for building type-safe, validated forms in React using React Hook Form and Zod schema validation. Use when: building forms with validation in React, integrating Zod schema validation with React Hook Form, using shadcn/ui Form or Field components, implementing client and server-side validation with a single schema, handling complex validation scenarios (nested objects, arrays, conditional fields, async validation), building multi-step forms or wizar...

Analyzes codebases to generate comprehensive documentation including structure, languages, frameworks, dependencies, design patterns, and technical debt. Use when user says "analyze repository", "understand codebase", "document project", or when exploring unfamiliar code.

Test authenticated routes in the your project using cookie-based authentication. Use this skill when testing API endpoints, validating route functionality, or debugging authentication issues. Includes patterns for using test-auth-route.js and mock authentication.

Access AlphaFold's 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.

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

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

Access COSMIC cancer mutation database. Query somatic mutations, Cancer Gene Census, mutational signatures, gene fusions, for cancer research and precision oncology. Requires authentication.

Access and analyze comprehensive drug information from the DrugBank database including drug properties, interactions, targets, pathways, chemical structures, and pharmacology data. This skill should be used when working with pharmaceutical data, drug discovery research, pharmacology studies, drug-drug interaction analysis, target identification, chemical similarity searches, ADMET predictions, or any task requiring detailed drug and drug target information from DrugBank.

Query Ensembl genome database REST API for 250+ species. Gene lookups, sequence retrieval, variant analysis, comparative genomics, orthologs, VEP predictions, for genomic research.

Access NCBI GEO for gene expression/genomics data. Search/download microarray and RNA-seq datasets (GSE, GSM, GPL), retrieve SOFT/Matrix files, for transcriptomics and expression analysis.

Access RCSB PDB for 3D protein/nucleic acid structures. Search by text/sequence/structure, download coordinates (PDB/mmCIF), retrieve metadata, for structural biology and drug discovery.

Query PubChem via PUG-REST API/PubChemPy (110M+ compounds). Search by name/CID/SMILES, retrieve properties, similarity/substructure searches, bioactivity, for cheminformatics.

Access USPTO APIs for patent/trademark searches, examination history (PEDS), assignments, citations, office actions, TSDR, for IP analysis and prior art searches.

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.

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.

Electronic lab notebook API integration. Access notebooks, manage entries/attachments, backup notebooks, integrate with Protocols.io/Jupyter/REDCap, for programmatic ELN workflows.

Latch platform for bioinformatics workflows. Build pipelines with Latch SDK, @workflow/@task decorators, deploy serverless workflows, LatchFile/LatchDir, Nextflow/Snakemake integration.

Microscopy data management platform. Access images via Python, retrieve datasets, analyze pixels, manage ROIs/annotations, batch processing, for high-content screening and microscopy workflows.

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.

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.

Autonomous biomedical AI agent framework for executing complex research tasks across genomics, drug discovery, molecular biology, and clinical analysis. Use this skill when conducting multi-step biomedical research including CRISPR screening design, single-cell RNA-seq analysis, ADMET prediction, GWAS interpretation, rare disease diagnosis, or lab protocol optimization. Leverages LLM reasoning with code execution and integrated biomedical databases.

Primary Python toolkit for molecular biology. Preferred for Python-based PubMed/NCBI queries (Bio.Entrez), sequence manipulation, file parsing (FASTA, GenBank, FASTQ, PDB), advanced BLAST workflows, structures, phylogenetics. For quick BLAST, use gget. For direct REST API, use pubmed-database.

Primary Python tool for 40+ bioinformatics services. Preferred for multi-database workflows: UniProt, KEGG, ChEMBL, PubChem, Reactome, QuickGO. Unified API for queries, ID mapping, pathway analysis. For direct REST control, use individual database skills (uniprot-database, kegg-database).

Query CZ CELLxGENE Census (61M+ cells). Filter by cell type/tissue/disease, retrieve expression data, integrate with scanpy/PyTorch, for population-scale single-cell analysis.

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.

Molecular machine learning toolkit. Property prediction (ADMET, toxicity), GNNs (GCN, MPNN), MoleculeNet benchmarks, pretrained models, featurization, for drug discovery ML.

NGS analysis toolkit. BAM to bigWig conversion, QC (correlation, PCA, fingerprints), heatmaps/profiles (TSS, peaks), for ChIP-seq, RNA-seq, ATAC-seq visualization.

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.

Comprehensive toolkit for protein language models including ESM3 (generative multimodal protein design across sequence, structure, and function) and ESM C (efficient protein embeddings and representations). Use this skill when working with protein sequences, structures, or function prediction; designing novel proteins; generating protein embeddings; performing inverse folding; or conducting protein engineering tasks. Supports both local model usage and cloud-based Forge API for scalable infer...

Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NCBI taxonomy, visualization (PDF/SVG), for phylogenomics.