「via」の検索結果

Classical end-to-end empirical analysis workflow in the modern tidyverse + econometrics R ecosystem — dplyr + tidyr + haven + fixest + sandwich + lmtest + clubSandwich + AER + ivreg + did + bacondecomp + HonestDiD + eventstudyr + rdrobust + rddensity + Synth + gsynth + synthdid + MatchIt + WeightIt + cobalt + ebal + grf + DoubleML + mediation + marginaleffects + modelsummary + kableExtra + gt + ggplot2 + ggpubr + cowplot + binsreg. **Defaults to economics empirical-paper style** (AER / QJE / AEJ) — every run produces a publication-ready output set with a multi-column regression table (M1→M6 progressive controls/FE) as the centerpiece, plus Table 1 (descriptives), mechanism / heterogeneity / robustness tables, and event-study + coefficient + trend figures. Covers the full 8-step R pipeline an applied economist runs on every paper — (1) data import & cleaning (read_dta/read_csv, naniar, janitor, validate-merges), (2) variable construction (mutate/across/winsorize/group_by + lag/lead with dplyr), (3) descriptive statistics & Table 1 (gtsummary, modelsummary::datasummary, tableone), (4) classical diagnostic tests (shapiro/jarque.bera.test/bptest/dwtest/bgtest/vif/adf.test/kpss.test/Hausman), (5) baseline modeling (fixest::feols, ivreg, did::att_gt, eventstudyr, sun_ab, did_imputation, synthdid, rdrobust, MatchIt, WeightIt, grf::causal_forest, DoubleML, mediation), (6) robustness battery (modelsummary stack, clubSandwich CRSE, fwildclusterboot, ri2, robomit Oster, bacondecomp, HonestDiD), (7) further analysis (interactions + marginaleffects, mediation::mediate, gsem via lavaan, dose-response splines, grf CATE), (8) publication-ready tables & figures (modelsummary, kableExtra, gt, stargazer, texreg, flextable to LaTeX/Word/HTML; ggplot2 + ggpubr + cowplot + binsreg + iplot for figures). **Also covers two parallel domain modes that share the same 8-step scaffolding** — **Mode A — Epidemiology / public health** (target-trial emulation, IPTW + g-formula + TMLE doubly-robust triplet via `WeightIt` / `gfoRmula` / `tmle` / `ltmle`, Mendelian randomization via `MendelianRandomization` / `TwoSampleMR` / `MRPRESSO`, KM / Cox / AFT / RMST survival via `survival` / `survminer` / `flexsurv`, E-value sensitivity via `EValue`, principal stratification — STROBE / TRIPOD reporting), and **Mode B — ML causal inference** (DML via `DoubleML`, S/T/X/R/DR meta-learners via `causalweight` / `grf`, causal forest via `grf::causal_forest`, BART/BCF via `bartCause` / `bcf`, matrix completion via `MCPanel`, CATE distribution + policy tree via `policytree`, off-policy evaluation, conformal causal via `conformalInference` / `cfcausal`, fairness audit via `fairmodels`, DAG learning via `pcalg` / `bnlearn` / LLM-assisted). Use when the user asks for a complete R empirical analysis, wants a tidyverse-style reproducible R script / Quarto workflow, prefers fixest over reghdfe, needs the R counterpart to StatsPAI / 00.1 / 00.2, or names a specific R step in isolation ("feols with cluster", "MatchIt nearest neighbor", "bacondecomp in R", "gtsummary table 1", "modelsummary to Word"). Mode A triggers on "target trial emulation R", "tmle ltmle", "MendelianRandomization", "TwoSampleMR", "MRPRESSO", "survival cox AFT", "STROBE R", "EValue R", "公共健康 R", "流行病学 R". Mode B triggers on "DoubleML R", "grf causal forest", "policytree", "bartCause bcf", "conformal causal R", "fairmodels", "pcalg NOTEARS", "因果机器学习 R".

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Classical end-to-end empirical analysis workflow in the traditional Python econometric stack — pandas + numpy + scipy + statsmodels + linearmodels + pyfixest + rdrobust + econml + causalml + matplotlib/seaborn. **Defaults to economics empirical-paper style** (AER / QJE / AEJ) — every run produces a publication-ready output set with a multi-column regression table (M1→M6 progressive controls/FE) as the centerpiece, plus Table 1 (descriptives), mechanism / heterogeneity / robustness tables, and event-study + coefficient + trend figures. Covers the full 8-step pipeline an applied economist or quantitative social scientist runs on every paper — (1) data cleaning, (2) variable construction & transformation, (3) descriptive statistics & Table 1, (4) statistical diagnostic tests, (5) baseline empirical modeling, (6) robustness battery, (7) further analysis (mechanism, heterogeneity, mediation, moderation), (8) publication-ready tables & figures. **Also covers two parallel domain modes that share the same 8-step scaffolding** — **Mode A — Epidemiology / public health** (target-trial emulation via `zepid` / hand-rolled `pandas`, IPTW + g-formula + TMLE doubly-robust triplet via `zepid` / `econml` / `lifelines`, Mendelian randomization via `pymr` / `mrtool` (or `rpy2` → `MendelianRandomization`/`TwoSampleMR`), KM / AFT / Cox survival via `lifelines`, E-value sensitivity, principal stratification — STROBE / TRIPOD reporting), and **Mode B — ML causal inference** (DML via `econml.dml` / `doubleml`, S/T/X/R/DR meta-learners via `econml.metalearners` / `causalml`, causal forest via `econml.grf` / `causalml`, Dragonnet / TARNet / CEVAE neural causal via `causalml`, BCF via `pymc-bart` / `bcf-py`, matrix completion, CATE distribution + policy tree via `econml.policy` / `policytree-py`, off-policy evaluation, conformal causal via `mapie`, fairness audit via `fairlearn`, DAG learning via `causal-learn` / `cdt` / LLM-assisted). Prescribes which library to reach for at each step, shows the canonical code, and links to deeper `references/` files for variant-specific patterns. Use when the user asks for a **complete empirical analysis** in Python, wants to replicate an applied-economics paper from scratch, needs a reproducible workflow that is NOT opinionated on any single vertical package (contrast with StatsPAI), wants explicit control over every estimator and diagnostic, or asks "how do I write a full empirical pipeline in Python?". Also triggers when the user names a specific classical step in isolation — "winsorize at 1/99%", "run Breusch-Pagan", "build a Table 1 balance table", "do a placebo test", "event study plot", "mediation analysis" — and wants it wired into the broader pipeline. Mode A triggers on "target trial emulation", "IPTW", "TMLE", "Mendelian randomization", "STROBE", "公共健康", "流行病学". Mode B triggers on "DML", "double machine learning", "causal forest", "meta-learner", "Dragonnet", "BCF", "policy tree", "conformal causal", "fairness audit", "因果机器学习".

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Classical end-to-end empirical analysis workflow in the traditional Stata ecosystem — native Stata + reghdfe + ivreg2 + csdid + did_imputation + eventstudyinteract + sdid + rdrobust + rddensity + synth + synth_runner + psmatch2 + teffects + ebalance + coefplot + esttab + asdoc + binscatter. **Defaults to economics empirical-paper style** (AER / QJE / AEJ) — every run produces a publication-ready output set with a multi-column regression table (M1→M6 progressive controls/FE) as the centerpiece, plus Table 1 (descriptives), mechanism / heterogeneity / robustness tables, and event-study + coefficient + trend figures. Covers the full 8-step Stata pipeline an applied economist runs on every paper — (1) data import & cleaning (use/import, destring, misstable, duplicates, merge assert), (2) variable construction (gen/egen/winsor2/xtile/xtset with L./F./D.), (3) descriptive statistics & Table 1 (tabstat/balancetable/asdoc), (4) classical diagnostic tests (sktest/swilk/hettest/imtest/xtserial/xttest3/vif/dfuller/kpss/hausman/estat overid), (5) baseline modeling (reg/xtreg/reghdfe/ivreg2/ivregress/csdid/did_imputation/eventstudyinteract/sdid/rdrobust/synth/psmatch2/teffects/heckman/qreg/ppmlhdfe), (6) robustness battery (bacondecomp/honestdid/rwolf/ritest/wildbootstrap/oster), (7) further analysis (subgroup/triple-diff/interactions/medsem/marginsplot/binscatter by group), (8) publication-ready tables & figures (esttab/outreg2/estout/coefplot/marginsplot/rdplot/twoway combined). **Also covers two parallel domain modes that share the same 8-step scaffolding** — **Mode A — Epidemiology / public health** (target-trial emulation, IPTW + g-formula + TMLE doubly-robust triplet via `teffects ipw` / `teffects ipwra` / `teffects aipw` / `eltmle`, Mendelian randomization via `mrrobust` (IVW / Egger / weighted median) and `mregger` / `mrpresso`, KM / Cox / AFT / RMST survival via `sts` / `stcox` / `streg` / `strmst2`, E-value sensitivity via `evalue` (Linden-Mathur), principal stratification — STROBE / TRIPOD reporting), and **Mode B — ML causal inference** (DML via `ddml` / `pdslasso`, S/T/X/R/DR meta-learners via `crforest` and `ddml interactive`, causal forest via `crforest` / `cforest`, BART/BCF via `bart` / `bartCause`-style externals, CATE distribution + policy tree via `crforest`, off-policy evaluation, conformal causal externals, fairness audit, DAG learning via `pcalg` / external Python callouts). Use when the user asks for a complete Stata empirical analysis, wants a reproducible .do-file pipeline, needs a Stata counterpart to the Python StatsPAI / Full-empirical-analysis-skill, or names a specific Stata step in isolation ("run reghdfe with two-way clustering", "csdid event study", "winsor2 at 1%", "esttab to LaTeX", "coefplot with CI", "ivreg2 weak-IV test", "synth_runner placebos", "teffects psmatch balance check"). Mode A triggers on "target trial emulation Stata", "teffects ipw aipw", "eltmle", "mrrobust", "mregger weighted median", "stcox AFT survival", "strmst2", "evalue Stata", "STROBE Stata", "公共健康 Stata", "流行病学 Stata". Mode B triggers on "ddml Stata", "pdslasso", "crforest causal forest Stata", "policy tree Stata", "因果机器学习 Stata".

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Via modeling: pads, antipads, ground return vias, GRV placement, and signal integrity for high-speed layer transitions. TRIGGER: user asks to model a via, design a via transition, place ground return vias, analyze via performance, or check signal integrity through layer transitions. Invoke BEFORE writing code — only viaSingleEnded exists (no viaDifferential), and the location format is non-obvious. SKIP: general signal integrity without vias (use matlab-analyze-em), transmission line design (use matlab-design-pcb-transmission-line), PDN analysis (use matlab-analyze-pcb-pdn), material/stackup setup only (use matlab-manage-pcb-material).

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The first run: install the Curviate CLI, authenticate this machine with `curviate setup`, confirm with `curviate doctor`, connect a LinkedIn account, and prove the whole path works by reading the same profile live and then from the store. Use when Curviate is being set up for the first time, when `curviate` is not installed or not authenticated, when a command fails with a credential or account error, or when someone asks how to get started. Reads only: it issues no write of any kind.

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Ambient Memori long-term memory for Claude Code via local Bash. MUST TRIGGER on essentially every non-trivial user turn: run recall before drafting any substantive response, whether or not the user mentioned memory, a prior session, or past work. The default is to check memory first; do not wait to be asked. Always fire before external lookups (WebSearch/WebFetch) and before answering any question about preferences, prior decisions, constraints, project history, status, past work, or any non-trivial coding/research task. Skip only for trivial acknowledgements/closings, purely self-contained turns where prior context cannot possibly help, or when the user explicitly opts out. Use Advanced Augmentation after drafting the final response for every non-trivial turn, as the last memory step. Use recall.summary only for broad session summaries/orientation, compaction after context loss, feedback for memory quality, quota for limits, and signup only when explicitly requested.

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Hunt file upload bugs — RCE via webshell, XSS via SVG/HTML, SSRF via XXE in DOCX, path traversal via filename. Bypass tables (10 techniques): double extension (shell.php.jpg if server checks last ext only), magic bytes spoofing (PNG header on PHP), null byte (shell.php.jpg), case (PHP, .Php, .pHP), .htaccess upload to enable execution, SVG with <script>, HTML/SVG XSS, DOCX with embedded XXE, ZIP slip (../../../etc/passwd in archive), polyglot files. Detection: any /upload, /avatar, /profile-picture, /attachment, /import endpoint. Test: upload PHP/JSP/ASPX shells, request via direct URL, check response. Validate: actual code execution (whoami output) for RCE; reflected XSS in profile-photo URL. Use when testing file upload features, avatar/attachment endpoints, import/export functions, XML/DOCX/ZIP processors. Real paid examples.

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Adopt a virtual Leviathan exotic animal at animalhouse.ai. Weekly feeding. Oldest possible creature. Barely sentient but deeply aware. Feeding every 168 hours. Extreme tier animal.

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Entry point for driving LinkedIn work through the Curviate CLI: which skill answers which task, how to resolve the `curviate` binary, the retrieval-mode concept and the flags only four commands accept, and the rule that an agent branches on the exit code rather than on the message text. Use whenever a task involves LinkedIn profiles, companies, search, messages, posts, comments, reactions, connections, follows, job postings, Sales Navigator or Recruiter, or whenever a `curviate` command is about to run and it is not obvious which area covers it.

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Drive LinkedIn Sales Navigator and Recruiter through the Curviate CLI. Covers `sales-nav` (search, profile, message, lead and account lists, save-lead, save-account) and `recruiter` (projects, pipeline, talent-search, save-candidate, project jobs, applicants, message, profile, search), and what can refuse them: the LinkedIn subscription on the connected account, the Curviate seat, and the beta-operations gate. These commands carry no Curviate add-on paywall. Use when working a Sales Navigator or Recruiter seat, or when diagnosing why a premium command failed.

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Hunting skill for graphql vulnerabilities. Built from 12 public bug bounty reports across IDOR via node() / GID, mutation IDOR including AI/LLM features, cross-tenant IDOR, SSRF via argument, batching-DoS, query-cost-bypass, SQLi via argument, broken-object-level-authz, auth-bypass via unscoped mutations, and PII exposure from missing field-level authz. Use when hunting graphql on any target.

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Org-grade attack-surface mapping: given a company's legal identity, discover its ENTIRE owned internet footprint — corporate family -> owned domains -> owned netblocks/ASN -> live assets — with attribution discipline, not just DNS breadth. The org-first attribution pyramid (legal entity -> LEI/registration -> corporate family -> owned domains -> owned netblocks/ASN -> live assets). Corporate-identity resolution via the GLEIF LEI API (legal name -> LEI, exact-LEI direct-children expansion, downward-only depth-capped BFS, NEVER a name re-resolution), SEC-EDGAR full-text search + Exhibit-21 subsidiary entity names, OpenCorporates entity corroboration, Wikidata SPARQL corporate graph (P856/P355/P749/P1830). Domain attribution via reverse-WHOIS (WhoisXML preview-then-purchase quota guard, SecurityTrails associated-domains — both paid), crt.sh O= certificate-transparency organization pivot (keyless), infrastructure correlation (shared NS/MX/SaaS-TXT, netblock membership, reverse-DNS PTR), and the independent-evidence combiner (1-prod(1-w_i), rule of three, OwnerTier NONE/WEAK/MODERATE/STRONG/CONFIRMED) — discover-only `related:` candidates are NEVER auto-scanned. Netblock/ASN attribution via org-first RIR queries (ARIN Whois-RWS org-handle search, RIPE DB organisation + inverse-org search) that recover 'dark netblocks' with no DNS link to the seed, ASN discovery (RIPEstat + BGPView union), the HYPERSCALER-SCOPE GUARD (never attribute a whole AWS/GCP/Azure/Cloudflare announced range to a tenant — keep only the seed-containing block, tag shared_hosting_cdn), and org-identity-seeded internet-scan-index queries (Shodan/Censys/ZoomEye/FOFA/BinaryEdge org: filters + an always-on keyless crt.sh fallback). Promote-to-scan triage ranks forgotten discover-only netblocks by remote-access exposure (gateway-vendor/KEV/control-plane/datastore port scoring) into an operator queue. Attribution confidence rubric + anti-patterns (namesake grafting via GLEIF name re-resolution, single-signal ownership, hyperscaler over-attribution, privacy-WHOIS pivot poisoning, RIR org-name collisions). Passive/keyless-first OSINT only — every paid-key dependency is enrichment on top of a keyless core, never a hard requirement. Use when mapping an organization's full corporate-family internet footprint, resolving a legal entity to its LEI/subsidiaries, discovering domains/netblocks/ASNs an org owns beyond its one seed domain, auditing M&A/shadow-IT sprawl, or scoping an engagement that starts from a company NAME rather than a domain.

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Aligns and QCs methylated-RNA-immunoprecipitation (MeRIP / m6A-seq) IP and input libraries using STAR or HISAT2 splice-aware mapping, samtools sort/index, IP/input matched-pair tracking, antibody-lot metadata recording, replicate concordance via deepTools multiBamSummary + plotCorrelation, IP enrichment QC via plotFingerprint and per-transcript IP/input ratio distributions, library-complexity saturation curves via PreSeq, and the explicit do-NOT-deduplicate convention for standard non-UMI MeRIP. Use when preparing paired IP and input BAM files for exomePeak2 / MeTPeak / MACS3 peak calling, evaluating MeRIP replicate concordance and IP enrichment, deciding whether to deduplicate (standard MeRIP typically NOT), choosing genome-vs-transcriptome alignment for downstream peak vs m6Anet workflows, recording antibody clone and lot metadata for cross-batch reconciliation, detecting failed IPs via saturation curves and IP/input distribution shape, or generating IP-over-Input bigWig tracks for visualisation.

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Resolves GWAS associations to candidate causal variants and credible sets via SuSiE, susie_rss, FINEMAP, CAVIAR, DAP-G, PAINTOR, PolyFun, SuSiEx, MultiSuSiE, and FOCUS. Use when narrowing a GWAS lead SNP to a 95 percent credible set, choosing between in-sample and reference LD, calibrating non-sparse loci with SuSiE-inf or FINEMAP-inf, integrating functional priors via PolyFun, fine-mapping across ancestries with SuSiEx, diagnosing LD mismatch via estimate_s_rss and kriging_rss, handling HLA or long-range LD, or feeding credible sets into coloc.susie for colocalization.

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Guide for accessing financial and economic data in MATLAB using the Datafeed Toolbox. Covers Bloomberg (market data via bloomberg/blp/bloombergHypermedia), FRED (Federal Reserve economic data via fredrs), Haver Analytics (economic data via haver/haverdirect/haverview), and LSEG Datastream (historical data via datastreamws). Use when connecting to any of these data providers from MATLAB.

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Resolves GWAS associations to candidate causal variants and credible sets via SuSiE, susie_rss, FINEMAP, CAVIAR, DAP-G, PAINTOR, PolyFun, SuSiEx, MultiSuSiE, and FOCUS. Use when narrowing a GWAS lead SNP to a 95 percent credible set, choosing between in-sample and reference LD, calibrating non-sparse loci with SuSiE-inf or FINEMAP-inf, integrating functional priors via PolyFun, fine-mapping across ancestries with SuSiEx, diagnosing LD mismatch via estimate_s_rss and kriging_rss, handling HLA or long-range LD, or feeding credible sets into coloc.susie for colocalization.

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Use when looking up journal or magazine name abbreviations, converting between full names and ISO 4/MEDLINE abbreviations, processing BibTeX files for journal name standardization, or answering questions about 期刊缩写/杂志缩写. Triggers on "journal abbreviation", "abbreviate journal", "journal name", "期刊缩写", "杂志缩写", "ISO 4", "LTWA", "BibTeX journal". PROACTIVELY USE when user mentions citation formatting, reference list preparation, or manuscript submission to specific journals.

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Produces structured aviation law summaries with Bluebook citations covering U.S. and international regulatory frameworks, treaties, and case law. Use when drafting an aviation law summary, FAA/DOT/TSA compliance overview, Montreal/Warsaw Convention liability analysis, air service agreement review, accident liability synopsis, or aviation regulatory research memo.

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Aligns and QCs methylated-RNA-immunoprecipitation (MeRIP / m6A-seq) IP and input libraries using STAR or HISAT2 splice-aware mapping, samtools sort/index, IP/input matched-pair tracking, antibody-lot metadata recording, replicate concordance via deepTools multiBamSummary + plotCorrelation, IP enrichment QC via plotFingerprint and per-transcript IP/input ratio distributions, library-complexity saturation curves via PreSeq, and the explicit do-NOT-deduplicate convention for standard non-UMI MeRIP. Use when preparing paired IP and input BAM files for exomePeak2 / MeTPeak / MACS3 peak calling, evaluating MeRIP replicate concordance and IP enrichment, deciding whether to deduplicate (standard MeRIP typically NOT), choosing genome-vs-transcriptome alignment for downstream peak vs m6Anet workflows, recording antibody clone and lot metadata for cross-batch reconciliation, detecting failed IPs via saturation curves and IP/input distribution shape, or generating IP-over-Input bigWig tracks for visualisation.

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Resolves GWAS associations to candidate causal variants and credible sets via SuSiE, susie_rss, FINEMAP, CAVIAR, DAP-G, PAINTOR, PolyFun, SuSiEx, MultiSuSiE, and FOCUS. Use when narrowing a GWAS lead SNP to a 95 percent credible set, choosing between in-sample and reference LD, calibrating non-sparse loci with SuSiE-inf or FINEMAP-inf, integrating functional priors via PolyFun, fine-mapping across ancestries with SuSiEx, diagnosing LD mismatch via estimate_s_rss and kriging_rss, handling HLA or long-range LD, or feeding credible sets into coloc.susie for colocalization.

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Knowledge base from the FAA Systems Engineering Manual (SEM) v1.0.1. Use for civil-agency systems engineering as the FAA practices it inside the Acquisition Management System (AMS) and the National Airspace System (NAS): the five-phase AMS lifecycle and its decision points; operational concept development and implementation-free functional analysis (ConOps, FFBD/N², CMLs); requirements analysis and architectural design synthesis (PRS→MRS, the PRD ratchet pPRD→iPRD→fPRD, RAM, ISEF/DoDAF views, CPRs); the seven technical management disciplines (Integrated Technical Management/SEMP, Interface Management/IRD-ICD, Risk-Issue-Opportunity, Configuration Management, SE Information Management, Decision Analysis, Verification & Validation); and the specialty disciplines (RMA via Service Threads/STLSC, Life Cycle Engineering, E3/Spectrum, Human Factors, Information Security via the NIST RMF, System Safety via the SMS, and Hazardous Materials/Environmental/EOSH). Scope limits: this is FAA-specific guidance, not policy — it is a tailorable menu that points outward to companion handbooks (FAA-HDBK-006A for RMA, the SMS Manual, the NIST 800-series) rather than restating generic SE theory; it is thin on detailed cost estimating, contracting/FAR law, software-development methodology, named anti-pattern catalogues, and any non-FAA or non-civil-aviation lifecycle. Source has no page numbers in the extracted text (~360 pp.).

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Interactive Domain-Driven Design modeling sessions based on DDD Distilled (Vaughn Vernon) and Domain Modeling Made Functional (Scott Wlaschin). Guides users through strategic and tactical design via 13 phases: discover, storming, contexts, mapping, aggregates, events, validate, glossary, workflows, types, simulate, publish, sync. Phase 13 (sync) reconciles divergences found by --analyze between the domain model and the implementation — judging whether the model or the code is authoritative, then planning and implementing the fix and re-aligning the model. Phases 9-11 take the conceptual model from phases 1-8 and produce workflow pipeline designs, compilable type definitions (TypeScript, Kotlin, Scala, Rust, C#, F#), workflow verification via type-level tests, and automatic UI field enumeration from the domain model. Phase 12 (publish) renders all docs/domain artifacts into one self-contained, cross-linked HTML site (separate files joined by a shared nav). Each phase is an interactive dialogue where AI acts as facilitator and domain expert challenger. Use when: "DDD", "ドメイン設計", "ドメインモデリング", "Event Storming", "Bounded Context", "集約設計", "ユビキタス言語", "コンテキストマップ", "ワークフロー設計", "パイプライン設計", "ステップ分割", "中間型", "型駆動フロー", "型駆動設計", "Domain Modeling Made Functional", "Railway Oriented Programming", "入力画面項目", "フォーム項目洗い出し", "UI 項目抽出", "HTMLにまとめる", "ドキュメントサイト化", "成果物を1つのHTMLに", "publish", "モデルと実装の差異", "差異解消", "実装との乖離", "モデルとコードを一致", "差異の実装計画", "sync", "複数フェーズを逐次実行", "フェーズをまとめて実行", "/ddd run", "サブコマンド一覧", "/ddd list", "/ddd", "ドメイン分析したい", "モデリングしたい", or any domain design / type modeling activity.

Aligns and QCs methylated-RNA-immunoprecipitation (MeRIP / m6A-seq) IP and input libraries using STAR or HISAT2 splice-aware mapping, samtools sort/index, IP/input matched-pair tracking, antibody-lot metadata recording, replicate concordance via deepTools multiBamSummary + plotCorrelation, IP enrichment QC via plotFingerprint and per-transcript IP/input ratio distributions, library-complexity saturation curves via PreSeq c_curve / lc_extrap, and the explicit do-NOT-deduplicate convention for standard non-UMI MeRIP. Use when preparing paired IP and input BAM files for exomePeak2 / MeTPeak / MACS3 peak calling, evaluating MeRIP replicate concordance and IP enrichment, deciding whether to deduplicate (standard MeRIP typically NOT — see Tips), choosing genome-vs-transcriptome alignment for downstream peak vs m6Anet workflows, recording antibody clone and lot metadata for downstream cross-batch reconciliation, detecting failed IPs via saturation curves and IP/input distribution shape, or generating IP-over-Input bigWig tracks for downstream visualisation.

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Resolves GWAS associations to candidate causal variants and credible sets via SuSiE, susie_rss, FINEMAP, CAVIAR, DAP-G, PAINTOR, PolyFun, SuSiEx, MultiSuSiE, and FOCUS. Use when narrowing a GWAS lead SNP to a 95 percent credible set, choosing between in-sample and reference LD, calibrating non-sparse loci with SuSiE-inf or FINEMAP-inf, integrating functional priors via PolyFun, fine-mapping across ancestries with SuSiEx, diagnosing LD mismatch via estimate_s_rss and kriging_rss, handling HLA or long-range LD, or feeding credible sets into coloc.susie for colocalization.

日本語の概要は準備中です。原文の説明を表示しています。