9.3K skills · sorted by relevance
Resolves rsIDs, navigates RsMergeArch/SNPHistory merge chains, and converts between rsID, SPDI, HGVS, and VCF representations using the dbSNP Build 156 JSON architecture. Use when normalizing variant identifiers, joining variant databases by cluster ID, or tracking deprecated rsIDs through historical merges.
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Constructs and validates polygenic risk scores using LDpred2-auto, SBayesRC, MegaPRS, PRS-CS, PROSPER, MUSSEL, BridgePRS, JointPRS, PRSmix, or PGS Catalog Calculator with ancestry-aware reference panels (HapMap3, UKB-LD), Pejaver-style calibration, and PRS-RS reporting standards. Use when computing PRS for cohorts, applying Whiffin-style absolute-risk transformation, assessing cross-ancestry portability (Martin 2017 / Ding 2023 continuous ancestry), or auditing PRS manuscripts against the 22-item PRS-RS reviewer checklist.
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Queries gnomAD v4 (807k samples), v3, v2.1.1, and constraint metrics with grpmax FAF95, bottleneck-group exclusion, LOEUF interpretation, SV/CNV/mtDNA catalogs, and Whiffin max-credible-AF framework. Use when filtering rare variants, applying ACMG BS1/BA1, ranking genes by LoF intolerance, or selecting between v2 (GRCh37 + chrX/Y constraint) and v4 (GRCh38 + 807k samples).
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Calls microsatellite instability from WES/WGS/targeted-panel with MSIsensor, MSIsensor-pro, MSIsensor-ct (panel-aware), MSIngs, MANTIS, MSIPanel, MSIDetect, and ngsMSI for FDA pembrolizumab MSI-H pan-tumor / Lynch syndrome / dMMR ICI biomarker. Use when stratifying ICI eligibility (Le 2015), pairing MSI with TMB-H (Sha 2020 / Salem 2018), screening Lynch syndrome (universal IHC + MSI), or distinguishing MSI-H tumors from POLE-exo hypermutator with overlapping signatures.
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Queries PharmGKB / CPIC / DPWG for drug-gene interactions; calls CYP2D6/CYP2C9/CYP2C19/DPYD/TPMT/NUDT15/UGT1A1/SLCO1B1 star alleles and phenotype with PharmCAT, Cyrius (CYP2D6 structural variants), Aldy, Stargazer; applies Caudle 2020 activity-score translation. Use when implementing pharmacogenomic-guided prescribing, applying CPIC vs DPWG guidance, screening HLA risk alleles for ICI / antiepileptics / abacavir, or interpreting compound TPMT+NUDT15 thiopurine risk.
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Profiles RNA-binding protein targets without antibody or UV crosslinking using STAMP (APOBEC1-RBP fusion, C-to-U editing), scSTAMP (single-cell), TRIBE/HyperTRIBE (ADAR-RBP, A-to-I editing), DART-seq (APOBEC1-YTH for m6A), or Bullseye/SAILOR edit-site detection pipelines. Use when antibody is unavailable or specificity is doubtful, when single-cell RBP profiling is needed (scSTAMP), or when in vivo RBP profiling without UV is preferred.
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Computes and interprets treatment effect measures (OR, RR, RD, HR, NNT) with calibrated confidence intervals (Wilson, Newcombe, Miettinen-Nurminen, MOVER, profile likelihood, Bender NNT) and reports marginal vs conditional estimands per FDA 2023 covariate adjustment guidance. Use when reporting treatment effects in confirmatory trials, comparing effect sizes across studies, or constructing forest plots.
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Annotates ChIP-seq peaks to genomic features, nearest genes, ENCODE candidate cis-regulatory elements (cCREs), and regulatory domains. Uses ChIPseeker (R), HOMER annotatePeaks.pl (CLI), pyranges (Python), GREAT/rGREAT (regulatory domain gene-set enrichment), ChIP-Enrich (locus-length-adjusted), ENCODE SCREEN cCRE classification (PLS/pELS/dELS/CTCF-only/DNase-H3K4me3), and ENCODE-rE2G for cell-type-specific enhancer-gene linking. Handles nearest-TSS vs host-gene ambiguity, promoter window definition, and feature priority. Use when assigning genomic context to peaks, linking enhancer peaks to target genes, classifying peaks against ENCODE cCRE registry, or running gene-set enrichment on peak-associated genes.
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Analyzes chemical libraries by scaffold using Bemis-Murcko scaffolds, generic frameworks, cyclic skeletons, matched molecular pair (MMP) analysis via mmpdb, R-group decomposition, Free-Wilson analysis, scaffold hopping, and chemotype-aware ML train/test splits. Use when identifying chemotype clusters in a library, deriving SAR transformation rules, decomposing series into R-groups, performing scaffold-balanced QSAR splits, or planning analog campaigns.
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Trim multiple sequence alignments using ClipKIT, trimAl, BMGE, Divvier, or HMMcleaner with mode selection guidance per downstream goal. Use when removing unreliable columns or contaminating residues before phylogenetic inference, HMM building, or selection analysis.
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Apply practical DAG decomposition, transitive-edge reduction, and reachability indexing to dense dependency graphs. Use when low width and repeated queries justify preprocessing. NOT for cyclic graphs, one-off graph checks, or exact-minimum-chain requirements.
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Apply practical DAG decomposition, transitive-edge reduction, and reachability indexing to dense dependency graphs. Use when low width and repeated queries justify preprocessing. NOT for cyclic graphs, one-off graph checks, or exact-minimum-chain requirements.
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Build low-fidelity wireframes, screen mockups, and user-flow diagrams in Frame0 (the hand-drawn Balsamiq-style wireframing tool) through its connected MCP server. Use when asked to wireframe a screen, sketch a UI, make a low-fi mockup, lay out an app's screens, or diagram a user flow with clickable links. Triggers: "wireframe", "frame0", "low-fi mockup", "sketch a screen", "user flow", "lo-fi", "rough out the UI". NOT for high-fidelity visual design, brand systems, or color/typography polish (use web-design-expert / Figma); NOT for production UI code (use frontend skills).
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Advanced CV for infrastructure inspection including forest fire detection, wildfire precondition assessment, roof inspection, hail damage analysis, thermal imaging, and 3D Gaussian Splatting reconstruction. Expert in multi-modal detection, insurance risk modeling, and reinsurance data pipelines. Activate on "fire detection", "wildfire risk", "roof inspection", "hail damage", "thermal analysis", "Gaussian Splatting", "3DGS", "insurance inspection", "defensible space", "property assessment", "catastrophe modeling", "NDVI", "fuel load". NOT for general drone flight control, SLAM, path planning, or sensor fusion (use drone-cv-expert), GPU shader development (use metal-shader-expert), or generic object detection without inspection context (use clip-aware-embeddings).
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Decompose DAGs into execution chains using width bounds, stratification, virtual nodes, and matching. Use when minimizing workflow lanes in dependency graphs. NOT for cyclic graphs, generic scheduling, or one-off queries with no preprocessing payoff.
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Expert in drone systems, computer vision, and autonomous navigation. Specializes in flight control, SLAM, object detection, sensor fusion, and path planning. Activate on "drone", "UAV", "SLAM", "visual odometry", "PID control", "MAVLink", "Pixhawk", "path planning", "A*", "RRT", "EKF", "sensor fusion", "optical flow", "ByteTrack". NOT for domain-specific inspection tasks like fire detection, roof damage assessment, or thermal analysis (use drone-inspection-specialist), GPU shader optimization (use metal-shader-expert), or general image classification without drone context (use clip-aware-embeddings).
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Analyze hierarchical DAG-like systems by separating undirected substrate from ordering metadata, then classifying diamonds, mixers, shortcuts, and hidden cycle structure. Use for workflow architecture, citation or genealogy DAG comparison, and information-flow diagnosis. NOT for ordinary cycle detection in arbitrary graphs, one-node runtime debugging, or systems with no real ordering constraint.
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Use when applying Cloudflare D1 migrations, fighting Supabase migration history vs SQL execution, choosing direct psql over CLI, designing idempotent migrations, debugging schema drift between local and remote, or recovering after a half-applied migration. Triggers: supabase migration repair instructions appearing, table missing after "applied" status, "Tenant or user not found" when running psql, --remote vs --local D1 confusion, NOT NULL on a populated column, foreign key constraint failures, drift between staging and prod schemas. NOT for Mongo/document migrations, ORM-managed migrations specifically (Prisma/Drizzle have their own conventions), or pure data backfills.
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Parses complex problems into candidate DAG (Directed Acyclic Graph) execution structures. Decomposes tasks into nodes with dependencies and identifies candidate parallelization opportunities. Activate on 'build dag', 'create workflow graph', 'decompose task', 'execution graph', 'task graph'. NOT for simple linear tasks or when an existing DAG structure is provided.
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Expert in ALL computational collage composition: photo mosaics, grid layouts, scrapbook/journal styles, magazine editorial, vision boards, mood boards, social media collages, memory walls, abstract/generative arrangements, and art-historical techniques (Hockney joiners, Dadaist photomontage, Surrealist assemblage, Rauschenberg combines). Masters edge-based assembly, Poisson blending, optimal transport color harmonization, and aesthetic optimization. Activate on 'collage', 'photo mosaic', 'grid layout', 'scrapbook', 'vision board', 'mood board', 'photo wall', 'magazine layout', 'Hockney', 'joiner', 'photomontage'. NOT for simple image editing (use native-app-designer), generating new images (use Stability AI), single photo enhancement (use photo-composition-critic), or basic image similarity search (use clip-aware-embeddings).
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Collage as a web design aesthetic — overlapping elements, mixed media, cut-out shapes, scrapbook layouts, and editorial magazine spreads adapted for the web. CSS techniques for layered compositions using z-index stacking, clip-path, mix-blend-mode, parallax layering, and grid-breaking layouts. Activate on 'collage web', 'editorial layout', 'magazine layout', 'overlapping elements', 'scrapbook', 'cut-out aesthetic', 'mixed media web', 'layered composition', 'grid-breaking', 'editorial web design', 'fashion website layout', 'David Carson'. NOT for photo collage/gallery grids (use collage-layout-expert), maximalist density (use maximalist-web-design), neobrutalism (use neobrutalist-web-designer).
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Building resilient distributed systems with circuit breakers, retries with full-jitter exponential backoff, retry budgets (per-request 3-attempt + per-client 10% ratio per Google SRE), deadline propagation, and the cascading-failure math (4 layers × 3 retries = 64x amplification). Grounded in Resilience4j, Microsoft Cloud Patterns, AWS Architecture Blog (Marc Brooker), and Google SRE Book. NOT for server-side rate limiting, bulkhead isolation, backpressure protocols, or database-specific retry.
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Choosing and operating an HTTP API versioning strategy that doesn't break clients — Stripe's date-based pinned versions, the Deprecation/Sunset header pair (RFC 9745 + RFC 8594), URI vs header vs media-type approaches, and the version-transformer pattern. Grounded in Stripe's published architecture and IETF RFCs. NOT for GraphQL schema evolution, gRPC/Protobuf wire compatibility, database schema migrations, or library/SDK semver.
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Generates OpenAPI 3.0/3.1 specs, TypeScript client types, and curl examples from existing route handler code. Supports Express, Next.js API routes, Fastify, and Hono. Produces complete documentation including auth requirements, rate limits, error codes, and request/response examples. Activate on: 'generate API docs', 'OpenAPI from code', 'document endpoints', 'API reference', 'swagger generation', 'endpoint documentation'. NOT for: API design from scratch (use api-architect), deployment (use devops-automator), testing (use test-automation-expert).
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