94 skills · sorted by relevance
Check saved architecture decision records (ADRs) for broken references, circular replacement relationships, and inconsistent statuses. Use the results to verify imported records or stop a CI check when selected integrity rules fail.
Animate 3D objects in Three.js using timed keyframes, bone movement, and shape changes. Play animations stored in GLTF models, control playback speed and looping, blend actions, and create motion through code.
Design or refactor backend services with clear layers and dependency rules. Using Clean Architecture, Hexagonal Architecture, and Domain-Driven Design, it separates business logic from databases and frameworks and defines interfaces that support testing without external services.
Explore code structure and history using an index of code relationships and meaning-based search. Trace calls, assess change impact, find likely bug locations, generate architecture reports, and review pull requests for risk and conflicts.
Design and review system architecture, compare databases and structural approaches, and document technical decisions. Included tools generate architecture diagrams, inspect dependencies, and assess project structure to identify circular relationships, excessive coupling, and opportunities for improvement.
Style UI for supabase.com using extracted design tokens, named values for colors, corner radius, and body font. Reuse the supplied values and identify missing specifications instead of inventing new ones.
Explores an existing codebase at quick, deep, or architecture-focused levels. Summarizes structure, function calls, and dependencies, then produces documentation or a handoff for implementation without changing the code.
Run and validate an end-to-end Mission Control showcase with a locally installed Isaac Sim launched in its GUI window, driven through the isaac-sim-remote Python server, with Nova Carter SIL. Use for demos, showcase replays, Mission Control driving a simulated robot, or diagnosing the integrated small-warehouse scenario. Detect existing Isaac Sim installations without modifying them, automatically select a usable runtime without prompting whenever compatibility can be confirmed, and delegate requested installation or version changes to isaac-sim-installation. Defaults to a canonical Isaac 6.1 warehouse and deterministic circular route when the user does not specify another scenario.
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Memory integrity audit. Detects hallucinations, circular confirmations, and state poisoning. Runs automatically after 2 consecutive failures or at nightly deep dive. Uses Opus 4.6 as the auditor model.
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Create and composite HeyGen digital-human videos in the content workspace. Use whenever the user asks for a 数字人, 数字人5, HeyGen, AI 口播人物, 数字人小窗, 圆形头像口播, full-screen digital human, or asks to make a video that uses the existing avatar. Enforce Creator-plan CLI OAuth, the configured Digital Twin, local IndexTTS2 narration, Avatar III for an unspecified digital human but Avatar V whenever the named preset 数字人5 is requested, adaptive face measurement plus the approved human-reviewed visual-centering offset in the headroom_08 circular bottom-left layout unless full-screen is explicitly requested, subtitle-safe placement, credit-aware master reuse, final QC/archive routing, and mandatory pairing with `heygen-avatar-motion` before any motion prompt or paid generation.
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Architecture audit that maps module dependencies, checks layering integrity, and flags structural decay across a codebase, drawing on twelve classic engineering books. Triggers when: user asks to audit architecture, review folder/module structure, check for circular imports, understand how the codebase is organized, or asks "does this follow clean architecture?" or "why does everything depend on everything?". Also triggers for onboarding requests: "explain this codebase to a new developer" or "give me a codebase tour" (use onboarding mode). Do NOT trigger for: PR-level code review (use brooks-review) or line-level refactoring questions — this skill analyzes structural/module-level concerns, not individual functions.
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Analyze Swift Package Manager dependencies, package plugins, module variants, and CI-oriented build overhead that slow Xcode builds. Use when a developer suspects packages, plugins, or dependency graph shape are hurting clean or incremental build performance, mentions SPM slowness, package resolution time, build plugin overhead, duplicate module builds from configuration drift, circular dependencies between modules, oversized modules needing splitting, or modularization best practices.
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Tests whether two genomic interval sets overlap (colocalize) more than expected by chance using a permutation test against a structured-genome null model. Covers bedtools fisher (analytic 2x2 screen), bedtools shuffle + jaccard permutation, GAT (isochore/GC-conditioned simulation with FDR), regioneR (flexible permutation, randomizeRegions vs circularRandomizeRegions, localZScore), LOLA (universe-relative Fisher against a region database), and GREAT/rGREAT (regulatory-domain binomial + hypergeometric for ontology-from-regions). Stresses the universe/background choice, matched background, blacklist exclusion, and multiple-testing control. Use when asking whether peaks/regions are enriched at enhancers/TFBS/features, scoring region-set colocalization or region-set enrichment, comparing CNV/SV concordance, or turning an overlap count into a defensible p-value.
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Assigns GO terms, Pfam/InterPro domains, KEGG orthologs, EC numbers, and product names to predicted proteins using eggNOG-mapper (orthology), InterProScan (domain signatures), and KofamScan (KEGG), routing specialized functions to dbCAN/antiSMASH/AMRFinderPlus/SignalP. Covers the orthology-vs-domain-vs-homology paradigms, the annotation-error percolation cascade, domain-presence-is-not-function, GO IEA circularity in enrichment, evidence tiering, and bit-score/coverage thresholds. Use when adding functional annotation to predicted genes, choosing between eggNOG-mapper and InterProScan, or judging how much to trust a functional label.
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Evaluates genome assembly quality across the three orthogonal axes - contiguity (QUAST auN/NG50/NGx, not bare N50), completeness (BUSCO/compleasm gene-space plus Merqury k-mer completeness), and correctness (reference-free Merqury QV, Inspector/CRAQ structural errors, asmgene false-duplication/collapse). Covers why N50 is the most-gamed metric, why QV measured on the polishing reads is circular, distinguishing uncollapsed haplotigs from real WGD, and the EBP/VGP 6.C.Q40 standard. Use when judging whether an assembly is good enough to annotate or publish, comparing assemblers, diagnosing a fragmented or duplicated assembly, or assessing a phased diploid assembly.
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Normalize read-depth copy-ratio profiles and segment them into copy-number regions using circular binary segmentation (CBS, DNAcopy), hidden Markov models, HaarSeg, and fused-lasso methods. Covers GC-content, mappability, and replication-timing (wave-artifact) bias correction, panel-of-normals/PCA denoising, diploid-baseline centering, and algorithm selection by sequencing depth and event size. Use when choosing a segmentation algorithm, correcting depth bias, diagnosing oversegmentation or a mis-centered baseline, tuning CBS or HMM parameters, or understanding why a downstream CNV caller produced fragmented or shifted segments.
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Text curves around a circle and slowly rotates — a decorative badge/seal accent. Decorative only; keep the phrase short. Static ring under prefers-reduced-motion.
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Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number.
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Dependency graph visualization, circular dependency detection, CVE scanning, and license compliance
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Codebase'i knowledge graph olarak analiz et. Dependency, call graph, hotspot analizi.
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Use this skill when stuck in circular debugging, when solutions aren't working despite multiple attempts, or when the user expresses frustration with lack of progress. Bring in GPT-5 as a third-party consultant to provide fresh perspective on complex technical problems, architectural decisions, or multi-system debugging issues. Ideal when you've tried multiple approaches without success, when the problem involves obscure edge cases or novel challenges, or when a second expert opinion would help break through an impasse. Gather all context from the conversation so far and present it comprehensively to GPT-5.
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Annotate bacterial and archaeal genomes and plasmids with Bakta's Prodigal/HMM/diamond pipeline. Identifies CDS, ncRNA, tRNA, rRNA, tmRNA, sORFs, CRISPR arrays, oriC/oriV/oriT, and gaps against a curated UniRef-derived database. Produces NCBI-compatible GFF3, GenBank, EMBL, JSON, FASTA, TSV, and a circular genome plot. Use Prokka for legacy pipelines or non-bacterial kingdoms; PGAP for NCBI GenBank submission.
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Auto-annotate plasmids with features (promoters, terminators, resistance, origins, tags, fluorescent proteins) via BLAST against curated DBs (Addgene, fpbase, SnapGene). FASTA or raw sequence in; annotated GenBank, interactive HTML maps, CSV tables out. Handles circular topology. Use to verify synthetic constructs, prep Addgene submissions, share maps, or batch-annotate cloning libraries.
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Generates a Mermaid dependency graph showing import relationships between modules. Use when analyzing coupling, finding circular deps, or planning refactors.
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