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Experimental data: discover and acquire raw or near-raw measurements, sample-level observations, and reusable datasets from sequencing, transcriptomics, single-cell, perturbation, proteomics, metabolomics, genomics, and structural-biology repositories. Use for study or sample metadata, matrices, reads, spectra, experimental structures, and downloadable research artifacts—not curated database assertions or reference marker collections.
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Fast-forward through OpenSpec artifact creation. Use when the user wants to quickly create all artifacts needed for implementation without stepping through each one individually.
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Verify implementation matches change artifacts. Use when the user wants to validate that implementation is complete, correct, and coherent before archiving.
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Create, manage, and track execution plans as first-class repository artifacts in docs/exec-plans/
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Runs the Autoware autonomous-driving stack against CARLA on UE 5.8 over CARLA's native ROS 2 interface — no bridge process. Reports the DDS contract (rt/vehicle/status/* out, rt/control/command/* in), the Autoware-only sensor blueprints, generates the lanelet2 + point-cloud map artifacts Autoware needs instead of an .xodr, and drives the two shipped modes (classical NDT stack, or the camera-only VAD end-to-end model). Use when the user asks to "run Autoware on CARLA", "connect an AV stack", "drive the ego from Autoware", "generate a lanelet2 map", or asks which topics CARLA exchanges with Autoware.
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App Store Connect API 4.5.1 (REST) アプリ配布リファレンス。JWT 認証、API キー作成・失効、 Apps, Builds, Bundle IDs, Bundle ID Capabilities, Certificates, Devices, Provisioning Profiles, Users, User Invitations, Merchant IDs, Pass Type IDs、TestFlight (Beta Groups / Testers)、 Sandbox Testers、App Review, Review Submissions, Customer Reviews, Custom Product Pages, Phased Release、In-App Purchases, Subscriptions, Subscription Groups, App Price Points, Promotional Offers, Win-back Offers, Sales Reports、App Asset Library (screenshots / app previews)、 Webhooks / Webhook Events / Deliveries、Xcode Cloud (Workflows, Build Runs, Artifacts)、 Alternative Distribution (EU マーケットプレイス / Web Distribution)、 Game Center (Achievements, Leaderboards, Challenges)、Analytics / 診断レポート。
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Claude Code (code.claude.com) の各サーフェス（Desktop / IDE / Web / mobile / ターミナル UX）リファレンス。 Desktop app (launch.json, scheduled tasks, WSL, Linux, iOS simulator)、 VS Code / JetBrains / Chrome 拡張 (Claude in Chrome)、 claude.ai/code クラウドセッション (--cloud, --teleport, Projects)、mobile、 interactive mode, fullscreen, /tui, voice dictation, accessibility, computer use, artifacts。
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Analyze suspicious artifacts in an isolated lab to contain and recover. For incident responders on owned estates. Never write, improve, or distribute malware.
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Set up something that runs on a schedule (a weekly report, a daily digest) as a scheduled workflow, change, pause or debug one, and build interactive pages (project artifacts and workspaces) that read live Fabric data. Use when the user asks for a recurring job, a status page, a dashboard or a page with buttons, or asks why one did not run.
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Quality control for IMC/MIBI data across pixel, channel, image, slide, and batch levels, covering Poisson-count SNR (cell-level Gaussian-mixture and empty-channel comparison), spillover-matrix QC (the three physical sources), drift and the missing EQ-bead analog, acquisition artifacts, and sample-of-origin batch effects. Use when deciding whether to keep or drop a channel, ROI, or slide, distinguishing a dim antibody from a failed one, reading a spillover matrix, or diagnosing batch-driven clustering before analysis.
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Compares Hi-C contact maps between conditions across the right scale -- differential bin-pair contacts (multiHiCcompare, diffHic), differential A/B compartments (dcHiC), differential TAD boundaries (delta insulation), and differential loops (diffloop, DiffHiChIP) -- with distance-stratified between-sample normalization, replicate-aware NB-GLM FDR, HiCRep SCC reproducibility gating, and CNV correction for cancer/aneuploid samples. Use when comparing Hi-C between treatment and control, finding differential contacts/compartments/boundaries/loops, normalizing two maps of unequal depth, choosing a replicate-aware test, gating replicates with SCC, or correcting copy-number artifacts before a tumor-vs-normal comparison.
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Interactive cell annotation and image QC for IMC/MIBI using napari, napari-imc, Mantis Viewer, and cytomapper, covering the pixels-to-cell-table bridge, overlaying masks to catch segmentation/spillover artifacts, inter-annotator variability as the accuracy ceiling, contrast-as-threshold, and building class-balanced ground-truth label sets. Use when manually labeling cells, generating training data for a classifier, QC-ing segmentation on the image, confirming clusters are spatially real, or choosing an annotation viewer.
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Model gene-family birth-death dynamics across a species tree using CAFE5 (Mendes et al 2020 Bioinformatics 36:5516 gamma-distributed rate categories), CAFE5-error (annotation-error-aware), Count (Csurös 2010 ancestral state reconstruction), BadiRate (Librado 2012 likelihood + parsimony), DupliPHY-Family, and ALE/AleRax (for per-family DTL; see [[gene-tree-species-tree-reconciliation]]). Test lineage-specific gene-family expansions and contractions, distinguish biological dynamics from annotation artifacts, account for assembly fragmentation, identify functional enrichment in expanded / contracted families. Use when correlating gene-family changes with phenotype evolution, ranking lineages by adaptive gene-family-rate shifts, post-WGD dosage-balance analysis, or building Birth-death models from OrthoFinder presence/absence matrices.
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Detects allele-specific transcription factor or histone modification binding from heterozygous-variant ChIP-seq using WASP (reference-bias filter; mandatory upstream), RASQUAL (joint QTL + bias-corrected testing), BaalChIP (Bayesian beta-binomial with copy-number-aware overdispersion), and AlleleSeq (personalized diploid genome). Handles imprinted-locus awareness, X-inactivation artifacts, cancer copy-number imbalance, and integration with downstream caQTL / bQTL mapping. Use when identifying variants with allelic effects on TF binding, fine-mapping causal regulatory variants, validating deep-learning variant predictions, or characterizing cis-acting regulatory effects.
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Calls ChIP-seq peaks with MACS3, MACS2, HOMER, or SPP across narrow (TF) and broad (histone) modes. Handles input control matching, fragment-size modeling vs --nomodel, effective genome size, ENCODE-style IDR vs naive overlap, hyper-ChIPable artifacts, and aligner-specific shifts. Use when calling peaks from ChIP-seq alignments, choosing between narrow vs broad mode for a histone mark, deciding model vs nomodel for low-depth data, applying ENCODE pseudoreplicate IDR, or reconciling MACS vs HOMER vs SPP results.
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Assesses ChIP-seq quality across antibody specificity, fragmentation, enrichment, replicate concordance, and library complexity. Computes FRiP, NSC/RSC (phantompeakqualtools), library complexity (NRF/PBC1/PBC2), deepTools plotFingerprint (JS distance, AUC, synthetic JS), ChIPQC, IDR with ENCODE Nself/Nt rules, and detects hyper-ChIPable artifacts. Use when validating an antibody, diagnosing failed peak calls, deciding whether to proceed with downstream analysis, grading against ENCODE thresholds, or auditing replicate concordance.
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Create distinctive, production-grade frontend interfaces with high design quality. Generates creative, polished code that avoids generic AI aesthetics. Use when the user asks to build web components, pages, artifacts, posters, or applications, or when any design skill requires project context.
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Azure Container Registry SDK for Python. Use for managing container images, artifacts, and repositories.
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Create distinctive, production-grade frontend interfaces with high design quality. Use this skill when the user asks to build web components, pages, artifacts, posters, or applications (examples include websites, landing pages, dashboards, React components, HTML/CSS layouts, or when styling/beautifying any web UI). Generates creative, polished code and UI design that avoids generic AI aesthetics.
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Use when the user asks about the pwdev-prd audit trail — 'auditoria do prd', 'eventos', 'decisões registradas', 'audit report', 'exportar relatório de auditoria' — querying the shared SQLite database read-only (summary, events, decisions, artifacts, stats, export, query).
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Inventory, archive, and summarize PWDEV Flow project history safely. Use when the user asks to find stale artifacts, archive completed work, clean the Flow workspace without deletion, or generate a changelog from verified history.
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Enable, record, query, summarize, or verify the opt-in PWDEV Flow semantic audit trail. Use when the user asks what Flow actions occurred, wants audit integrity checked, or needs a portable JSONL record of workflow gates and artifacts.
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Discover and approve feature requirements through focused interviewing and repository research. Use when the user has a feature idea, unclear scope, conflicting requirements, or needs Flow context artifacts before design.
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Use when the user wants to query the local pwdev audit trail — 'ver auditoria', 'relatório de auditoria', 'audit stats', 'exportar auditoria em PDF' — summary, events, decisions, artifacts, statistics, a Markdown/PDF export or a custom read-only SELECT. Do NOT use to enable the audit (feat-init) or for plan status (feat-status).
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