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概要と使いどころ
Applies principles from Robert C. Martin's 'Clean Code'. Use this skill when writing, reviewing, or refactoring code to ensure high quality, readability, and maintainability. Covers naming, functions, comments, error handling, and class design.
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Build or adapt a local harness to drive, inspect, and profile an interactive CLI or TUI without external services. Use for CLI UX checks, startup regressions, memory leaks, hangs, prompt flows, or terminal demos.
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Parse a SIF (Standard Interchange Format) input into a readable preview and optionally append canonical product rows to the project's CSV library. Use when asked to convert or inspect SIF dealer data. For the reverse direction use /as:csv-to-sif.
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Create or update an Arch Studio skill for Codex or Claude Code using the host's native skill maker when available, with Arch Studio governance and validation. Use when asked to create, package, adapt or revise a reusable skill.
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Check that this machine's agent team can work and say what is wrong in plain lines: tools installed, core skills installed, skill commands runnable, hooks configured, Reach seat live, a heartbeat running, both vendors' quota readable, temp space free. Checks only, never repairs. Use on a new machine, when agents stop reaching each other or a long run fails to start, or when the owner asks whether everything is healthy.
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Query EBI QuickGO REST API for GO terms and protein annotations. Fetch term metadata by ID, search by keyword, walk ancestor/descendant hierarchies, download annotations filtered by taxon, evidence code, aspect. Use for GO resolution, ontology traversal, annotation retrieval before enrichment. Use gseapy-gene-enrichment for enrichment; uniprot-protein-database for proteins.
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Retrieve mouse phenotype data from the Jackson Laboratory Mouse Phenome Database (MPD) via its REST API. Browse 520+ projects, look up per-project measure metadata, pull strain-level means (raw or LS-mean adjusted) and per-animal values, find measures by MP/VT ontology terms, and resolve strain nomenclature or gene coordinates. Use for QTL support, cross-strain comparison, mouse model selection, and ontology-driven phenotype discovery. Use monarch-database for disease-gene-phenotype knowledge graphs; ensembl-database for mouse genome annotations.
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NCBI GEO access via GEOparse and E-utilities. Search by keyword/organism/platform, download GSE series matrices, parse GPL annotations, extract GSM metadata, load expression matrices into pandas. For single-cell use cellxgene-census; for multi-DB access use gget-genomic-databases.
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Query ARCHS4 REST API for uniformly processed RNA-seq expression, tissue patterns, co-expression across 1M+ human/mouse samples. Retrieve z-scores, co-expressed genes, samples by metadata, HDF5 matrices. For variant population genetics use gnomad-database; for pathway enrichment use gget-genomic-databases (Enrichr).
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Annotated matrices for single-cell genomics. Stores X with obs/var metadata, layers, embeddings (obsm/varm), graphs (obsp/varp), uns. Use for .h5ad/.zarr I/O, concatenation, scverse integration. For analysis use scanpy; for probabilistic models use scvi-tools.
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Query RCSB PDB (200K+ structures) via the public REST + GraphQL APIs with plain `requests` (no SDK). Search by text, attribute, sequence, or 3D structure similarity (Search API); retrieve metadata via GraphQL (Data API); download PDB/mmCIF from files.rcsb.org. For AlphaFold predictions use alphafold-database-access; for protein sequences only use uniprot-protein-database.
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Look up EMDB cryo-EM density maps and fitted atomic models via the entry REST API + EBI Search WS. Fetch entry metadata (resolution, method, organism, sample), map download URLs, fitted PDB IDs, and citations. Keyword search via EBI Search. No auth. For atomic coordinates use pdb-database; for AlphaFold predictions use alphafold-database-access.
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Multi-Omics Factor Analysis v2 (MOFA+) with mofapy2. Jointly decompose omics layers (scRNA, ATAC, proteomics, methylation) into latent factors capturing major variation. Multi-group designs. AnnData views → MOFA object → train → variance explained → correlate factors with metadata → visualize/cluster → enrich top loadings.
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Query bioRxiv/medRxiv preprints via REST API. Search by DOI, category, or date range; retrieve metadata (title, abstract, authors, category, DOI, version history) and PDFs. No auth. For peer-reviewed biomedical use pubmed-database; broader scholarly search use openalex-database.
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Access USPTO patent data via PatentsView REST API and Google Patents Public Data (BigQuery). Search by inventor, assignee, CPC, or keywords; download metadata and claims; analyze portfolios; track tech trends. For IP landscape analysis, competitor monitoring, prior art search, and tech forecasting in life sciences and biotech.
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Python API v2 for Opentrons OT-2/Flex liquid handlers: protocols as Python files with metadata and run(); control pipettes, labware, and modules (thermocycler, heater-shaker, magnetic, temperature). Simulate via opentrons_simulate then upload. Use PyLabRobot for vendor-agnostic scripts (Hamilton, Tecan).
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Search the PRIDE Archive v3 REST API for proteomics datasets: discover projects by keyword + faceted filters (organism, instrument, disease, software), fetch project metadata, list and download RAW/PEAK/RESULT/FASTA files (with FTP/Aspera URLs), look up which projects mention a UniProt accession, and find similar projects. PRIDE v3 no longer exposes peptide/PSM-level identification endpoints — for spectrum-level data download the project's RESULT files. Use uniprot-protein-database for protein sequences; interpro-database for domain architecture.
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Parse/write FCS (Flow Cytometry) files v2.0-3.1. Events as NumPy, channel metadata, multi-dataset files, CSV/FCS export. Use FlowKit for gating/compensation.
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Implement ReasoningBank adaptive learning with AgentDB's 150x faster vector database. Includes trajectory tracking, verdict judgment, memory distillation, and pattern recognition. Use when building self-learning agents, optimizing decision-making, or implementing experience replay systems.
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Implement adaptive learning with ReasoningBank for pattern recognition, strategy optimization, and continuous improvement. Use when building self-learning agents, optimizing workflows, or implementing meta-cognitive systems.
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Architecture patterns, design principles, and proven recipes for building robust robotics software. Use this skill when designing robot software architectures, choosing between behavioral frameworks, structuring perception-planning-control pipelines, implementing state machines, designing safety systems, or architecting multi-robot systems. Trigger whenever the user mentions behavior trees, finite state machines, subsumption architecture, sensor fusion, robot safety, watchdogs, heartbeats, graceful degradation, hardware abstraction layers, real-time constraints, or software architecture for robots. Also applies to sim-to-real transfer, digital twins, and robot fleet management.
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Use when evaluating a newly adapted model's accuracy/eval score. Runs evalscope eval (or the test/srt/run_eval.py fallback) against an OpenAI-compatible endpoint on datasets like gsm8k / aime, producing per-dataset reports and a score. Accuracy only — throughput/latency benchmarks belong to model-speed-benchmark. Triggers on accuracy, eval, evalscope, gsm8k, aime, run_eval — not throughput.
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Provides comprehensive code review capability for Next.js applications, validates Server Components, Client Components, Server Actions, caching strategies, metadata, API routes, middleware, and performance patterns. Use when reviewing Next.js App Router code changes, before merging pull requests, after implementing new features, or for architecture validation. Triggers on "review Next.js code", "Next.js code review", "check my Next.js app".
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Provides implementation patterns for Clean Architecture, Hexagonal Architecture (Ports & Adapters), and Domain-Driven Design in Python applications with FastAPI or Flask. Use when designing maintainable backends with separation of concerns, implementing repository patterns, creating entities/value objects/aggregates, or structuring domain logic independent of frameworks for testability.
日本語の概要は準備中です。原文の説明を表示しています。