'scan' 검색 결과

Reads, inspects, and writes Flow Cytometry Standard (FCS) files from conventional, spectral, and mass cytometry (CyTOF), and parses FlowJo/Cytobank/Diva workspaces. Covers FCS 2.0/3.0/3.1/3.2 internals ($PnE linear-vs-log, $DATATYPE, $SPILLOVER vs SPILL vs $COMP, $TIMESTEP), channel/parameter metadata, the silent linearize/truncate defaults, and R (flowCore, flowWorkspace, CytoML) plus Python (FlowKit, readfcs) readers. Use when loading flow or mass cytometry data, mapping detector channels to antibodies, extracting the event matrix, choosing a reader, or bridging FCS to the scanpy/AnnData ecosystem before preprocessing.

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Analyzes base-editing screens for variant function. Covers library design (Sanson 2020 GRACE, Hanna 2021 BRCA1/2 SNV scanning, Cuella-Martin 2021), CBE vs ABE chemistry choice (BE3/BE4 vs ABE7.10/ABE8.20/ABE8e), editing-window math (positions 4-8 from PAM-distal end, wider for ABE8e), bystander-edit quantification and the variant-call ambiguity it creates, sgRNA-efficiency filtering before hit calling, indel byproduct interpretation, the substitution-vs-indel diagnostic, variant annotation against ClinVar / COSMIC, and the Broad be-validation-pipeline. Use when designing a BE variant screen, choosing CBE vs ABE for a specific edit, interpreting bystander-confounded hits, distinguishing functional signal from indel artifact, integrating CRISPResso2 output with screen scoring, or deciding BE vs PE for SNV installation.

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Identify direct miRNA-target interactions from AGO HITS-CLIP, AGO-CLEAR-CLIP (chimeric reads), HEAP (Halo-Ago2 mouse), chimeric eCLIP / miR-eCLIP (deep miRNA-target profiling), or CLASH using chimeric-read processing pipelines, seed-pairing analysis, and 3' auxiliary pairing rules. Use when distinguishing direct miRNA targets from indirect, integrating CLIP-derived target maps with TargetScan / miRDB / DIANA predictions, applying canonical 7mer-8mer seed matching with 3' UTR context, or recovering miRNA-mRNA chimeras at scale.

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Detect positive (diversifying / episodic / pervasive) selection using codon dN/dS frameworks. Implements PAML codeml site models (M0/M1a/M2a/M7/M8/M8a), branch models, branch-site model A (Zhang 2005), and HyPhy methods (BUSTED, BUSTED-S, BUSTED-MH, BUSTED-PH, MEME, FEL, FUBAR, aBSREL, SLAC, RELAX, GARD, FUBAR-MH). Includes McDonald-Kreitman framework (asymptotic alpha, impMKT, polyDFE, DFE-alpha, GRAPES) for within-species + divergence inference, RERconverge for trait-correlated rate shifts, CSUBST for convergent substitution, and PhyloAcc for accelerated noncoding evolution. Use when testing adaptive evolution at codons, branches, or full gene; running GARD recombination pre-screen; controlling alignment-error and gBGC false positives; reconciling PAML vs HyPhy results; or performing genome-scale selection scans.

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Discovers de novo motifs and tests known motif enrichment in ChIP-seq, ATAC-seq, or other peak sequences using HOMER, MEME-ChIP (STREME, CentriMo, TOMTOM, FIMO), monaLisa, and AME. Handles background selection (GC-matched, dinucleotide-shuffled, Markov order-2, peak-flanks), motif databases (JASPAR 2024 CORE PWMs, JASPAR 2026 deep-learning collection, HOCOMOCO v12, HOMER built-in), centrally-enriched motif testing, and differential motif analysis. Use when identifying TF binding motifs in peaks, testing for known TF enrichment, scanning for motif instances, comparing motif content between conditions, or interpreting motifs from deep learning models.

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集群数据管理 Skill —— 涵盖数据使用规范、压缩优化、数据共享（ACL）、文件扫描与清理、文件完整性校验、genozip 基因组压缩等全流程。Use when the user asks about: managing data on the HPC cluster, compressing genomic files (fq/bam/vcf), sharing data between users/groups, scanning for large files or cleaning up disk space, checking file integrity (md5/gzip/bam), using genozip, checking disk quota, or any data lifecycle management task on the NCPGR HPC cluster.

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Assesses RNA-seq data quality specifically for alternative splicing analysis. QC layers include experimental design audit (library prep, read length, depth, replicates), STAR 2-pass cohort-style alignment, junction saturation curves and discovery plateau detection, novel-vs-known junction ratio diagnostics, junction-overhang distribution, splice-site strength scoring (MaxEntScan intrinsic + SpliceAI context-aware), strandedness verification, GENCODE basic vs comprehensive choice, and rRNA contamination screening. Splicing analysis is more demanding than DGE on read length, depth, library prep, alignment strategy, and annotation choice — failures silently bias PSI estimates and inflate novel-junction false positives. Use when evaluating data suitability for splicing analysis, troubleshooting low event detection, or designing sequencing experiments where AS is a primary endpoint.

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Build face recognition systems with InsightFace, ArcFace, enrollment pipelines, HDBSCAN clustering, and privacy-compliant architecture. Activate on: face recognition, face enrollment, face clustering, identity verification, facial search. NOT for: general object detection (computer-vision-pipeline), emotion analysis (ai-engineer).

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Use when optimizing Docker builds with BuildKit, designing multi-stage Dockerfiles, leveraging cache mounts, building multi-arch images, choosing distroless vs alpine, or signing images with cosign. Triggers: docker build slow, layer cache not hitting, npm install / pip install reruns, multi-stage final image bloat, glibc vs musl issues, RUN --mount=type=cache, BUILDKIT_INLINE_CACHE, registry cache exporters, qemu emulation for arm64, COPY ordering for cache. NOT for Docker daemon admin, Kubernetes-specific image policies, container security scanning workflows, or Buildpacks (different paradigm).

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Multi-stage Docker build optimizer for minimal, secure production images. Activate on: Dockerfile optimization, multi-stage build, distroless image, container size reduction, Docker security scanning, BuildKit features. NOT for: container orchestration (use kubernetes-manifest-generator), CI/CD pipelines (use github-actions-pipeline-builder), runtime container config (use environment-config-manager).

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Practical incident-response runbook for a suspected or confirmed ComfyUI / GPU-daemon compromise. Triage, scope, contain, forensic collection, weight-integrity verification, rebuild from clean snapshot, postmortem. NOT for hygiene scans on a healthy box (use supply-chain-defense-for-ml-extensions), and NOT for runtime hardening of a fresh deployment (use gpu-hosted-asset-hardening).

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Cryptographic security for agentic systems — zero-trust agent networking, signed message envelopes (JWS/JWE), capability-based security (ocaps), Merkle tree audit trails, WASM sandboxing, and formal verification. Covers CLI dev tool security, mTLS between agents, permission boundaries (least privilege for AI agents), and supply chain security for skills/plugins. Activate on: "agent security", "zero trust agents", "secure agent communication", "capability-based security", "ocap", "signed messages between agents", "agent audit trail", "sandbox agent execution", "agent permissions", "mTLS agents", "cryptographic verification", "agent supply chain", "OWASP agentic", "prove agent did X", "tamper-proof agent logs". NOT for: application-level SAST scanning (use security-auditor), network firewall rules (use infrastructure), SOC2/HIPAA compliance (organizational), or prompt injection defense (use prompt-engineer).

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Find and identify the CBasePlayerController_SetPawn and CBasePlayerController_GetPawn functions in CS2 binary using IDA Pro MCP. Use this skill when reverse engineering CS2 server.dll / libserver.so to locate the pawn-assignment routine by scanning for its distinctive multi-register-push prologue directly (no pre-resolved anchor needed), confirming uniqueness and byte-level match against a known reference signature. Trigger: CBasePlayerController_SetPawn, CBasePlayerController_GetPawn

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Find and identify the CBaseEntity_GetChangeAccessorPathInfo_1 virtual function in CS2 binary using IDA Pro MCP. Use this skill when reverse engineering CS2 server.dll or libserver.so to locate the second GetChangeAccessorPathInfo override by scanning CBaseEntity vtable slots near the known CBaseEntity_GetChangeAccessorPathInfo_2 slot for an implementation identical to CBaseEntity_GetChangeAccessorPathInfo_2. Trigger: CBaseEntity_GetChangeAccessorPathInfo_1

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Use when the user wants to work with PDF files, including text/table extraction, merging, splitting, rotation, watermarking, creation, form filling, encryption/decryption, image extraction, or OCR for scanned PDFs.

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Route a PR review request to the correct tool — code-review plugin (quick parallel scan across all dimensions) or pr-review-toolkit (deep-dive on a specific quality dimension such as type design, error handling, test quality, comments, or simplification). Use when the user asks for a code review, PR review, or mentions a specific quality concern before creating a PR.

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AgentShieldを使用してClaude Codeの設定（.claude/ディレクトリ）のセキュリティ脆弱性、設定ミス、インジェクションリスクをスキャン。CLAUDE.md、settings.json、MCPサーバー、フック、エージェント定義をチェック。

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Designs, hardens and audits the system around an agent that runs on its own — bot, scheduled task, routine, automation — all but the prompt text. Trigger for guardrails, kill switches, cadence and loop pacing (cron, wake, /loop), retries and failures, output contracts, protected resources, handoffs between agents, or isolating untrusted email and web content; to emit a spec as a Cowork task, routine, scheduled task or CI job; or say agentwright (emit, audit, refresh); it never schedules or runs one. Prompt text is promptwright's; CLAUDE.md, rigwright's; skills, skillwright's; runtime grants and credentials, gatewarden's scan; code threats, a security harness's.

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Keeps the user's identity and secrets out of anything public. Trigger on what should not be published in a repo, branch, history, diff, PR text, draft or pasted file, to find a home path, email, real or client name, or secret; for a commit's email, a codename or per-repo identity; for injected instructions in skills, hooks or prompts; for artifacts Claude made; for files named like secrets; after a leak, to plan a history rewrite; or say shieldwarden (scan, plan, rewrite, land, after, policy, check, identity, signposts, refresh). Rules and hooks are gatewarden's; rotation and gh sign-in keywarden's; brand words brandscribe's; a skill's own posture skillwright's; schedules agentwright's.

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Finds where every credential on the machine lives, without showing a value. Trigger to list where keys, tokens and passwords are stored (Credential Manager, gh, .env, settings, .mcp.json, Docker); to cut a gh token to least privilege or switch gh accounts; to rotate a key and update its users; after a key was printed, pasted or committed; to check a command that uses a token before it runs; or say keywarden (inventory, scope, rotate, leak, preflight, refresh). Drives op or bw when present. Leak scans and commit email are shieldwarden's; rules and hooks gatewarden's; routine credentials agentwright's; vetting a vault MCP trustwarden's.

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Audits what Claude may do (permission rules, hooks, MCP scope, an agent's grants) and maps what it reaches on disk. Trigger on audit my permissions, why was this allowed, what stalls a routine, swap an allow for a deny, is this hook safe, gate my git pushes, a guard hook or call cap, PowerShell twins of Bash denies, where a rule should live, what is eating my disk, where has Claude been, config drift from a repo copy, skills loading twice; or say gatewarden (audit, harden, explain, scan, hooks, capreview, layout, map, footprint, drift, loads, status, refresh). Installs are trustwarden's; tokens keywarden's; secrets shieldwarden's; standing config rigwright's; agent design agentwright's.

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Audit and harden a Convex app's authorization: identity-from-arg impersonation, missing per-document ownership checks, public queries leaking data by a client-supplied id, and writes into a parent/container the caller doesn't own. Scans for the 4 shapes, applies requireIdentity/requireOwner, verifies with tsc. TRIGGER on 'secure my app', 'audit auth/authz', 'who can access this data'. SKIP when there is no convex/ directory.

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Index-based file discovery using ABOUTME headers. Use INSTEAD of grep or Explore agent when searching for files by purpose or feature. Faster and more accurate than scanning code. Invoke this skill when user asks "which files handle X", "where is Y implemented", or when you need to find files related to a feature or task.

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Adds comprehensive accessibility testing to CI/CD pipelines using axe-core Playwright integration or pa11y-ci. Automatically generates markdown reports for pull requests showing WCAG violations with severity levels, affected elements, and remediation guidance. This skill should be used when implementing accessibility CI checks, adding a11y tests to pipelines, generating accessibility reports, enforcing WCAG compliance, automating accessibility scans, or setting up PR accessibility gates. Trigger terms include a11y ci, accessibility pipeline, wcag ci, axe-core ci, pa11y ci, accessibility reports, a11y automation, accessibility gate, compliance check.

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