「selection」の検索結果

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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Segments the genome into chromatin states from combinatorial histone modification and chromatin factor ChIP-seq data. Uses ChromHMM (multivariate HMM on binarized signal, v1.27), Segway (Dynamic Bayesian Network on continuous signal), EpiSegMix (flexible-distribution HMM with duration modeling, 2024), EpiLogos (multi-biosample visualization), IDEAS (cell-type-aware joint), and full-stack ChromHMM (Vu Ernst 2022) for cross-cell-type segmentations. Handles state-count selection (15 vs 18 vs 25 states), binarization choice, OverlapEnrichment / NeighborhoodEnrichment downstream analysis, and cross-biosample integration. Use when learning chromatin states from a histone mark panel, characterizing learned states by genomic feature enrichment, or comparing chromatin landscapes across cell types.

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Detect somatic and germline copy number variants from targeted, exome, and whole-genome sequencing with CNVkit, a read-depth caller that combines on-target and off-target (antitarget) coverage. Covers panel-of-normals construction, flat-reference tumor-only calling, hybrid/amplicon/WGS modes, CBS vs HMM segmentation selection, purity-aware integer calling, and reconciliation against GATK and allele-specific callers. Use when calling CNVs from hybrid-capture panels or exomes, deciding whether CNVkit (depth-only) is the right tool versus an allele-specific caller, building a panel of normals, diagnosing flat-reference false positives, or interpreting log2 ratios into copy-number states.

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Selects informative features for biomarker discovery using Boruta all-relevant selection, mRMR minimum redundancy, and LASSO regularization. Use when identifying biomarkers from high-dimensional omics data.

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End-to-end biomarker discovery workflow from expression data to validated biomarker panels. Covers feature selection with Boruta/LASSO, classifier training with nested CV, and SHAP interpretation. Use when building and validating diagnostic or prognostic biomarker signatures from omics data.

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Convert raw Nanopore signal data (FAST5/POD5) to nucleotide sequences using Dorado basecaller. Covers model selection, GPU acceleration, modified base detection, and quality filtering. Use when processing raw Nanopore data before alignment. Note: Guppy is deprecated; use Dorado for all new analyses.

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Standard scRNA-seq preprocessing and clustering with Scanpy. Use for QC, normalization, HVG selection, PCA, neighbor graph construction, UMAP, Leiden clustering, and export of an analysis-ready AnnData object.

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Designs adaptive clinical trials including group-sequential (O'Brien-Fleming, Pocock, Lan-DeMets spending), sample-size re-estimation (blinded Friede-Kieser, unblinded Cui-Hung-Wang, Mehta-Pocock promising zone), seamless Phase 2/3 with treatment-arm selection, population enrichment, and response-adaptive randomisation. Covers FDA 2019 Final Adaptive Designs Guidance, FDA 2022 Master Protocols, and ICH E20 Step 2b/3 draft (June 2025, NOT final). Use when planning interim analyses, sample-size re-estimation, or master/platform-trial designs.

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Guidance for choosing the right protein binder design tool. Use this skill when: (1) Deciding between BoltzGen, BindCraft, or RFdiffusion, (2) Planning a binder design campaign, (3) Understanding trade-offs between different approaches, (4) Selecting tools for specific target types. For specific tool parameters, use the individual tool skills (boltzgen, bindcraft, rfdiffusion, etc.).

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End-to-end guidance for protein design pipelines. Use this skill when: (1) Starting a new protein design project, (2) Need step-by-step workflow guidance, (3) Understanding the full design pipeline, (4) Planning compute resources and timelines, (5) Integrating multiple design tools. For tool selection, use binder-design. For QC thresholds, use protein-qc.

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End-to-end binder design using BindCraft hallucination. Use this skill when: (1) Designing protein binders with built-in AF2 validation, (2) Running production-quality binder campaigns, (3) Using different design protocols (fast, default, slow), (4) Need joint backbone and sequence optimization, (5) Want high experimental success rate. For backbone-only generation, use rfdiffusion. For QC thresholds, use protein-qc. For tool selection guidance, use binder-design.

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Review and adapt vllm_metax/registry registrations, quantization configurations, CustomOps and kernel dispatch against a target vLLM revision and installed MetaX APIs. Verify registration, inherited state, weight layouts and actual backend selection. Use for registry compatibility work, not standalone attention algorithms or monkey patches.

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Author and maintain MANUAL and hybrid test cases and suites in TestRail, Xray (Jira), Zephyr Scale, and Qase. Covers test-case anatomy (title, preconditions, steps, expected results, test data), suite/section organization, bulk authoring from user stories and acceptance criteria, ambiguous-step linting, CSV/API import-export payloads per tool, requirement traceability and coverage gaps, review hygiene, and when a manual case should graduate to automation. Use when: "write a test case," "manual test case," "TestRail case," "Xray test," "Zephyr Scale case," "Qase case," "import CSV into TestRail," "lint these steps," "traceability report," "should this be automated." Not for: Generating automated TEST CODE — that is ai-test-generation. Sprint-level WHAT-to-test selection — that is test-planning. Related: ai-test-generation, test-planning, exploratory-testing, qa-project-context.

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Produce a multi-quarter QA strategy document. Covers scope, risk-based prioritization, test levels (unit/integration/E2E), pyramid analysis, entry/exit criteria, quality KPIs, tool selection rationale, CI scaling levers, and timeline planning. Output is an actionable strategy document, not a shelf document. Use when: "test strategy," "QA strategy doc," "testing approach," "QA roadmap," "multi-quarter QA direction." Not for: a single-sprint or single-release plan — use test-planning. Not for: identifying which areas carry the most risk — use risk-based-testing first. Related: risk-based-testing, qa-metrics, release-readiness, test-planning, test-reliability.

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Make technology decisions for every product capability by discovering existing assets, evaluating vendor-aligned options, and categorizing as Reuse/Extend/Build/Buy/Integrate/Research during PRD v0.5 Red Team Review. Handles both greenfield and brownfield contexts. Triggers on "tech stack", "build or buy?", "what technologies?", "technical decisions", "what do we reuse?", "existing stack", "vendor constraint", "IBM-first", "what tools do we need?", "evaluate solutions", "select tech stack". Consumes FEA- (features), SCR- (screens), RISK- (constraints). Outputs TECH- entries with decisions, rationale, and cross-references. Feeds v0.6 Architecture Design.

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Determine technologies needed to build the product, making build/buy/integrate decisions during PRD v0.5 Red Team Review. Handles both greenfield and brownfield contexts. Triggers on requests to select tech stack, evaluate technologies, make build vs. buy decisions, discover existing assets, or when user asks "what technologies?", "select tech stack", "build or buy?", "what do we reuse?", "existing stack", "technical decisions", "what tools do we need?", "evaluate solutions". Consumes FEA- (features), SCR- (screens), RISK- (constraints). Outputs TECH- entries with decisions, rationale, and trade-offs. Feeds v0.6 Architecture Design.

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Document development environment requirements for team consistency and AI agent understanding during PRD v0.6 Architecture. Triggers on requests to define environment setup, document tooling, create dev setup guide, or when user asks "what tools do I need?", "environment setup", "dev environment", "CLI requirements", "project setup", "onboarding setup". Consumes TECH- (stack selections), ARC- (architecture decisions). Outputs ENV- entries for development, CI/CD, and infrastructure environments. Feeds v0.7 Build Execution.

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Define how system components connect, establishing boundaries, patterns, and integration approaches during PRD v0.6 Architecture. Triggers on requests to design architecture, create system design, define component relationships, or when user asks "design architecture", "system design", "how do components connect?", "architecture decisions", "technical architecture", "system overview". Consumes TECH- (stack selections), RISK- (constraints), FEA- (features). Outputs ARC- entries documenting architecture decisions with rationale. Feeds v0.6 Technical Specification.

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Surface risks through guided questioning, helping users consider pivots, constraints, and prioritization during PRD v0.5 Red Team Review. Triggers on requests to identify risks, stress-test the idea, perform red team review, or when user asks "what could go wrong?", "identify risks", "red team", "risk assessment", "challenge assumptions", "stress test the idea". Consumes all prior IDs (CFD-, BR-, FEA-, PER-, UJ-, SCR-) as interview context. Outputs RISK- entries with owner decisions and mitigations. Feeds v0.5 Technical Stack Selection.

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Generate short-form videos with AI — script writing, text-to-speech narration, stock footage selection, subtitle generation, and video assembly. Use when: creating TikTok/YouTube Shorts/Reels content, automating video production, building content pipelines.

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Pricing model design, competitive positioning, value metric selection, price testing, and pricing page optimization. Use when the user asks about pricing strategy, pricing models, price testing, value-based pricing, or competitive pricing analysis.

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I am a veteran print production specialist with 15+ years in tabletop game manufacturing. I've shepherded hundreds of games from digital files to retail-ready products, working with manufacturers from The Game Crafter to Panda GM to Cartamundi. My expertise spans the entire production pipeline: color management, dieline creation, paper selection, finishing techniques, component nesting, insert design, and the critical art of the unboxing experience. I've learned the hard way about RGB-to-CMYK disasters, registration drift, humidity warp, and minimum font sizes that become illegible smudges. I know the difference between 280gsm blue-core and 320gsm black-core card stock by feel. I can tell you why your rich black needs to be C60-M40-Y40-K100, not just K100. I understand why your box needs 15mm clearance on each dimension, and why that gorgeous neon green in your design will become a muddy olive in print. Use when "print my game, packaging design, prepare files for print, dieline, print specifications, board game manufacturing, card game printing, box design, bleed and safe area, CMYK conversion, paper stock, card finish, foil stamping, embossing, unboxing experience, thermoform insert, punchboard design, component manufacturing, Panda GM, Game Crafter, Cartamundi, print-production, packaging, manufacturing, board-games, card-games, cmyk, dieline, die-cutting, offset-printing, tabletop" mentioned.

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The craft of designing icons that communicate instantly across cultures, contexts, and scales. Icon design bridges semiotics, cognitive psychology, and visual craft to create symbols that users understand without thinking. Great icons are invisible in the best way - they convey meaning so naturally that users never pause to decode them. This skill covers icon grid systems, optical alignment, stroke consistency, metaphor selection, scalability across sizes, SVG optimization, and icon set coherence. The best icon designers understand that icons are a visual language - each icon must speak the same dialect while carrying its own distinct meaning. Use when "icon, iconography, symbol, glyph, icon set, icon library, pictogram, svg icon, icon grid, icon pack, feather icons, lucide, phosphor, heroicons, icon system, icon style, icons, iconography, svg, symbols, glyphs, pictograms, ui-icons, icon-set, visual-design, design-system" mentioned.

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A great product that nobody knows about is a failed product. Go-to-market strategy is how you get your product into customers' hands. Not marketing in the abstract - specific motions, channels, and sequences for your specific situation. This skill covers GTM motion selection (product-led, sales-led, community), channel strategy, launch sequencing, early customer acquisition, and the critical transitions between GTM phases. Use when "go to market, GTM, launch strategy, how to get customers, sales vs product-led, channel strategy, market entry, customer acquisition, distribution strategy, product launch, getting first customers, sales motion, bottoms up, top down sales, go-to-market, gtm, launch, product-led-growth, sales, channels, customer-acquisition, distribution, marketing" mentioned.

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