Design traceable data checks for reconciliation, integrity, transactions, and atomicity with separate observable oracles.
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概要と使いどころ
Design traceable data checks for reconciliation, integrity, transactions, and atomicity with separate observable oracles.
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Maps between gene identifier systems (Ensembl, Entrez, HGNC symbol, UniProt, RefSeq, MANE) using AnnotationDbi, biomaRt, mygene, pyensembl, and Ensembl REST. Encodes Ensembl version stripping with GENCODE _PAR_Y preservation, the Ziemann 2016 Excel autocorrect debacle and Bruford 2020 HGNC renames (SEPT*->SEPTIN*, MARCH*->MARCHF*, MARC*->MTARC*, DEC1->DELEC1), OCT4/POU5F1 alias resolution, biomaRt archive endpoints for release pinning, the `filters` (plural) gotcha, MANE Select for clinical reporting, cross-species orthology via Ensembl Compara / OMA / OrthoDB, and tx2gene construction for tximport. Use when converting gene IDs across systems, handling renamed symbols, building tx2gene, pinning to a specific Ensembl release for reproducibility, or mapping cross-species orthologs.
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Simulate transcription factor perturbation effects on cell state in silico with CellOracle and Dynamo, and predict transcriptional responses to genetic perturbations with GEARS, scGen, and CPA. Covers the direction-not-magnitude principle, local-linear validity, the GRN/velocity error it inherits, baseline discipline (mean and additive baselines), and the validation gap. Use when predicting TF knockout or overexpression effects, ranking driver TFs for fate transitions, or planning perturbation experiments. For GRN construction see multiomics-grn; for experimental Perturb-seq see single-cell/perturb-seq.
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Build enhancer-driven gene regulatory networks (eGRNs) by integrating single-cell RNA-seq and ATAC-seq using SCENIC+, CellOracle base GRNs, Pando, FigR, DIRECT-NET, TRIPOD, and scMEGA. Covers the accessibility-defines-enhancers principle, peak-to-gene linking and its cell-composition confound, the paired-vs-unpaired decision, and TF-region-gene eRegulon triplets. Use when analyzing 10x multiome or paired/unpaired scRNA+scATAC to infer cis-regulatory GRNs. For RNA-only regulons see scenic-regulons; for in silico TF perturbation see perturbation-simulation.
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Detect introgression and admixture between species or populations using Dsuite (Malinsky 2021 fast D-statistics), Patterson's D / ABBA-BABA test (Green 2010; Durand 2011), f4-ratio and f-branch statistic (Malinsky 2018), TreeMix (Pickrell & Pritchard 2012), HyDe (Blischak 2018), QuIBL (Edelman 2019), sprime (Browning 2018), Twisst (Martin 2017), PhyloNet (Solis-Lemus 2017) for explicit phylogenetic networks, and qpAdm / qpGraph (Patterson 2012; Lipson 2013). Distinguish introgression from incomplete lineage sorting (ILS), ancestral structure, ghost-lineage admixture, and rate variation. Use when testing inter-species gene flow, dating admixture events, identifying introgressed segments, building phylogenetic networks for reticulate evolution, or applying the ABBAclustering (Koppetsch-Malinsky-Matschiner 2024) framework for divergent-species gene flow.
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Call protein-RNA binding sites from CLIP-seq BAM with CLIPper, PureCLIP, Skipper, Piranha, omniCLIP, CTK, CLAM, or Paraclu. Use when choosing between coverage-based, HMM-based, beta-binomial window-based, and crosslink-site-based peak callers; applying ENCODE eCLIP thresholds (log2 IP/SMInput >= 3, -log10 p >= 3); deciding when SMInput is mandatory; or reconciling peak-set discordance between callers for the same RBP.
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Reads, validates, and prepares CDISC SDTM and ADaM clinical trial data for analysis. Covers SDTM domain joins (DM, AE, EX, VS, LB, DS), ADaM architecture (ADSL, BDS, OCCDS, ADTTE) with traceability, treatment-emergent AE conventions, baseline derivation, SUPPQUAL/NSV handling, Define-XML 2.1, and Pinnacle 21 / CORE validation. Use when working with clinical trial datasets in CDISC SDTM/ADaM format, preparing analysis-ready data, or validating for regulatory submission.
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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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End-to-end pipeline for writing ML/AI research papers — from experiment design through analysis, drafting, revision, and submission. Covers NeurIPS, ICML, ICLR, ACL, AAAI, COLM. Integrates automated experiment monitoring, statistical analysis, iterative writing, and citation verification.
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上层编排 Skill,通过 **Brave Search 发现 → 智能选择浏览器截图** 完成结构化素材采集。 文章素材收集编排Skill。为MediaClaw内容生产提供结构化的多平台素材采集workflow。 强制使用OpenClaw Browser截图实际文章页面,支持GitHub/Reddit/X/Medium/知乎等。 用法: (1) content-ops-toolkit素材阶段调用 (2) daily-*-content素材采集 (3) 独立素材收集任务。 Trigger: "收集素材", "素材收集", "采集素材", "素材", "找素材", "research materials", "material collect". Author: Daniel Li version: 2.1.0 dependencies: [brave-search, web-content-capture]
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易经占卜系统。支持铜钱法、蓍草法起卦,生成本卦、互卦、变卦,提供Oracle Voice诠释。当用户请求占卜、问卦、易经解读、或寻求决策指引时使用。
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GraalVM Native Image expert that adds native image support to Java applications, builds the project, analyzes build errors, applies fixes, and iterates until successful compilation using Oracle best practices.
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Write ML papers for NeurIPS/ICML/ICLR: design→submit.
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Use when building creative browser demos with @chenglou/pretext — DOM-free text layout for ASCII art, typographic flow around obstacles, text-as-geometry games, kinetic typography, and text-powered generative art. Produces single-file HTML demos by default.
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Identifies and exploits SQL injection vulnerabilities in web applications during authorized penetration tests using manual techniques and automated tools like sqlmap. The tester detects injection points through error-based, union-based, blind boolean, and time-based blind techniques across all major database engines (MySQL, PostgreSQL, MSSQL, Oracle) to demonstrate data extraction, authentication bypass, and potential remote code execution. Activates for requests involving SQL injection testing, SQLi exploitation, database security assessment, or injection vulnerability verification.
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Systematically audit AWS S3 bucket permissions to identify publicly accessible buckets, overly permissive ACLs, misconfigured bucket policies, and missing encryption settings using AWS CLI, S3audit, and Prowler to enforce least-privilege data access controls.
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SQL injection testing skill for offensive security assessments and bug bounty hunting. Covers error-based, UNION-based, boolean/time-based blind, out-of-band, second-order, NoSQL, GraphQL, WebSocket, and JSON-operator SQLi. Includes WAF bypass techniques, database-specific exploitation (MySQL, MSSQL, PostgreSQL, Oracle), cloud-native attack paths, ORM CVE tracking, and SQLmap automation. Use when performing web application SQL injection testing, database enumeration, privilege escalation via SQLi, or assessing injection vectors in APIs and modern stacks.
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Offensive methodology for attacking GraphQL APIs during penetration tests and bug bounty engagements. Covers the full attack lifecycle: endpoint discovery, introspection abuse and blind schema reconstruction when introspection is disabled, authentication and authorization bypass through Relay node IDs and nested object traversal, injection via variables and directives, query batching for brute force and OTP bypass, denial of service through depth bombs and alias amplification, WebSocket subscription hijacking, information disclosure through verbose errors and field suggestion oracles, and file upload abuse via the multipart GraphQL specification. Includes tool-specific guidance for InQL, graphql-cop, CrackQL, BatchQL, Altair, GraphQL Voyager, and clairvoyance. Trigger on: GraphQL, graphql, introspection query, batching attack, query depth, GraphQL injection, GraphQL IDOR, field suggestion, GraphQL auth bypass, GraphQL DoS, GraphQL security, graphql-cop, InQL, CrackQL, BatchQL, Relay node, alias amplificat...
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Hunt Microsoft SharePoint Server (2013/2016/2019/Subscription Edition) on-prem farms — anonymous endpoint enumeration, version disclosure, legacy SOAP login bypass (Authentication.asmx), ToolShell precondition chain (CVE-2025-53770), SafeControl reflection enumeration via Picker.aspx, NTLM Type-2 AD topology disclosure, custom-branding module discovery, EoL farm permanent-CVE-window exploitation, FormDigest anonymous issuance, file-extension blocklist NOT-an-oracle pattern, custom-zone Forms auth bridging on-prem AD. Use when target has SharePoint headers (SPRequestGuid, X-MS-InvokeApp, X-SharePointHealthScore, MicrosoftSharePointTeamServices) or paths (/_layouts/15/, /_vti_bin/, /_api/, /_catalogs/).
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Hunt Host Header Injection — password reset poisoning → ATO, web cache poisoning via unkeyed Host/X-Forwarded-Host, routing-based SSRF (Host picks upstream → cloud metadata/internal services), path-override SSRF/ACL-bypass (X-Original-URL/X-Rewrite-URL), OAuth redirect_uri/issuer poisoning, and absolute-URL link poisoning in emails. High to Critical when it reaches ATO or mass cache poisoning. Built on public Host-header research (PortSwigger 'Practical web cache poisoning' + James Kettle, and the classic password-reset-poisoning class). Use on any forgot-password flow, CDN/reverse-proxy-fronted app, OAuth/OIDC endpoint, or absolute-URL-in-email feature.
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Comprehensive Windows privilege escalation methodology for offensive security engagements. Covers the full attack surface from a standard user shell to NT AUTHORITYSYSTEM: token impersonation via SeImpersonate and SeAssignPrimaryToken privileges using JuicyPotato, PrintSpoofer, GodPotato, SweetPotato, and RoguePotato; service misconfigurations including unquoted service paths, weak service DACLs, writable service binaries, and insecure service creation permissions; AlwaysInstallElevated MSI exploitation; DLL hijacking through search order abuse, phantom DLL loading, and writable PATH directory injection; UAC bypass techniques via fodhelper.exe, eventvwr.exe, CMSTP, and environment variable manipulation; scheduled task abuse for writable task actions and new task creation; registry autorun exploitation for persistence and escalation; PrintNightmare (CVE-2021-34527) for remote and local privilege escalation; and credential harvesting from SAM database extraction, DPAPI blob decryption, LSA secret dumping,...
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Comprehensive methodology for auditing and exploiting TLS/SSL implementations and misconfigurations across network services and mobile applications. Covers protocol downgrade attacks including POODLE (CVE-2014-3566) against SSLv3 CBC padding, DROWN (CVE-2016-0800) cross-protocol attack leveraging SSLv2 export ciphers to decrypt TLS sessions, and FREAK (CVE-2015-0204) forcing RSA export-grade key exchange. Addresses BEAST (CVE-2011-3389) exploiting CBC IV predictability in TLS 1.0, CRIME (CVE-2012-4929) and BREACH targeting TLS-level and HTTP-level compression oracles respectively, and Heartbleed (CVE-2014-0160) for OpenSSL memory disclosure. Covers certificate validation bypass techniques for applications with improper hostname verification or chain validation, certificate pinning bypass using Frida and Objection for mobile application interception, HSTS bypass via NTP manipulation and subdomain exploitation, TLS 1.3 0-RTT replay attacks against non-idempotent endpoints, mutual TLS (mTLS) authentication a...
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Mobile (Android + iOS) application penetration testing methodology. Covers static analysis (apktool/jadx for Android, class-dump/Hopper/IDA for iOS), dynamic instrumentation with Frida and Objection, SSL pinning bypass strategies, root/jailbreak detection bypass, deep-link / URL-scheme abuse, exported component attacks (Android activities, services, providers, receivers; iOS XPC, URL schemes, universal links), insecure data storage (SharedPrefs, KeyStore misuse, NSUserDefaults, Keychain ACL bypass), IPC / Intent redirection, WebView vulnerabilities (JavaScriptInterface, file:// access), Firebase/AWS/Azure misconfiguration leakage, mobile API testing, biometric/Face ID/Touch ID bypass, app-cloning and runtime patching, and mobile malware/RAT analysis primitives. Use for mobile pentest, bug bounty mobile triage, or app-store reconnaissance.
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Smart contract security audit — 10 DeFi bug classes (accounting desync, access control, incomplete path, off-by-one, oracle, ERC4626, reentrancy, flash loan, signature replay, proxy), pre-dive kill signals (TVL < $500K etc), Foundry PoC template, grep patterns for each class, and real Immunefi paid examples. Use for any Solidity/Rust contract audit or when deciding whether a DeFi target is worth hunting.
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