「omics」の検索結果

This skill should be used when the user asks to "search for academic papers", "find working papers on SSRN", "look up a DOI", "download paper PDF", "check open access availability", "search NBER papers", "find arXiv preprints", or "search CrossRef". Provides unified search, metadata retrieval, and PDF download across arXiv, NBER, SSRN, CrossRef, OpenAlex, Unpaywall, and Semantic Scholar. Covers economics, finance, social science, CS/AI, and all academic disciplines.

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Generate academic referee reports for economics/finance papers, followed by a 150-word letter to the editor with recommendation (Reject / Major Revision) and Kai Wu signature. Two modes (normal / high-level), configurable number of comments; recommendation choice drives evaluation tone (Reject → negative, Major Revision → neutral). Trigger when user says "referee report" / "write referee report" / "审稿报告" / "写审稿意见" / "generate referee report" / "review this paper".

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This skill covers causal machine learning methods in applied economics and quantitative social science. Use when implementing or choosing between modern ML-based causal estimators — including double machine learning, DML, partially linear models, interactive regression models, cross-fitting, Neyman orthogonality, debiased ML, causal forests, generalized random forest, GRF, honest causal trees, AIPW with machine learning, doubly robust with machine learning, DR-Learner, T-Learner, S-Learner, X-Learner, meta-learners, heterogeneous treatment effects, conditional average treatment effect, CATE, HTE, high-dimensional controls, LASSO controls, post-LASSO, post-double selection, Belloni-Chernozhukov-Hansen, Riesz representer, Chernozhukov, sample splitting, econml, DoubleML package, or any combination of machine learning and causal inference.

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Checklist of empirical robustness tests for finance/economics papers

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Econometrics skill for generating publication-quality figures for top economics journals. Activates when the user asks about: "econometric figure", "publication figure", "journal figure", "AER figure", "QJE figure", "event study plot", "coefficient plot", "coefplot", "binned scatter", "binscatter", "RDD plot", "parallel trends plot", "kernel density", "distribution plot", "time series plot", "map", "figure formatting", "academic plot", "论文图表", "学术图", "系数图", "事件研究图", "散点图", "分布图", "趋势图", "回归可视化"

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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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Use when the user asks to run a full empirical / causal analysis in Python — by default in the style of an applied economics paper (AER / QJE / JPE / ReStud / AEJ) with DID / RD / IV / SCM / DML / matching, written-out estimating equation + identifying assumption, Table 1 / Table 2 / event-study figure / robustness gauntlet — OR in epidemiology / public health style (target-trial emulation, IPTW + g-formula + TMLE triplet, Mendelian randomization, KM/AFT survival, E-value sensitivity, STROBE/TRIPOD reporting) — OR in ML causal inference style (DML, S/T/X/R/DR meta-learners, causal forest, Dragonnet/TARNet/CEVAE, BCF, CATE distribution, policy learning, conformal causal, fairness audit, causal discovery) — OR in distributional / gap-decomposition style (Oaxaca–Blinder `sp.oaxaca`, Kitagawa `sp.kitagawa_decompose`, DiNardo–Fortin–Lemieux `sp.dfl_decompose`, Gelbach `sp.gelbach`, Fairlie `sp.fairlie`, RIF / FFL `sp.rif_decomposition`, all reachable through the `sp.decompose` dispatcher). Also covers exporting multi-column regression tables to Word / Excel / LaTeX (Stata outreg2 / esttab / R modelsummary equivalent) and bundling an entire replication appendix into one .docx / .xlsx / .tex file. Triggers on keywords "StatsPAI", "statspai", "AER empirical analysis", "applied micro pipeline", "Table 1 balance", "event study", "first-stage F", "Oster bound", "honest_did", "spec_curve", "callaway_santanna", "dragonnet", "text as treatment", "outreg2 in Python", "regression table to Word/Excel", "sp.regtable", "sp.collect", "sp.paper_tables", "sp.feols", "summary_col", "modelsummary", "AER style table", "QJE style table", "epidemiology pipeline", "target trial emulation", "g-formula", "IPTW", "TMLE", "Mendelian randomization", "STROBE", "TRIPOD", "公共健康", "流行病学", "DML", "double machine learning", "causal forest", "meta-learner", "CATE", "conformal causal", "policy learning", "因果机器学习", "ML causal", "decomposition", "Oaxaca-Blinder", "Kitagawa", "DiNardo-Fortin-Lemieux", "DFL", "Gelbach", "RIF decomposition", "wage gap decomposition", "sp.decompose", "sp.oaxaca".

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中英双语学术降 AIGC / bilingual academic de-AIGC skill. Removes AI-generated writing signatures from empirical papers in economics, management, and the social sciences — in both English and Chinese. Covers Turnitin AI, GPTZero, Originality.ai on the English side and 知网 AMLC, 万方, 维普 on the Chinese side. Uses a six-step loop (intake → audit → claim-evidence check → differentiated rewrite → five-dimension self-score → cold-reader recheck) with two pattern libraries (22 English + 17 Chinese patterns), section-by-section strategies for empirical papers, and hard protections that keep every number, coefficient, and citation intact. Since 2026-08 it also carries a provenance layer (去水印): deterministic, CJK-safe cleaning of invisible-character carriers and file metadata (docx / png / jpg / svg / pdf, incl. C2PA), an honest account of Claude's statistical text watermark, and an author "ownership pass" — it never claims a text is watermark-free.

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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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Efficient storage and retrieval of genomic variant data using TileDB. Scalable VCF/BCF ingestion, incremental sample addition, compressed storage, parallel queries, and export capabilities for population genomics.

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Computational pathology toolkit for analyzing whole-slide images (WSI) and multiparametric imaging data. Use this skill when working with histopathology slides, H&E stained images, multiplex immunofluorescence (CODEX, Vectra), spatial proteomics, nucleus detection/segmentation, tissue graph construction, or training ML models on pathology data. Supports 160+ slide formats including Aperio SVS, NDPI, DICOM, OME-TIFF for digital pathology workflows.

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Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NCBI taxonomy, visualization (PDF/SVG), for phylogenomics.

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Lightweight WSI tile extraction and preprocessing. Use for basic slide processing tissue detection, tile extraction, stain normalization for H&E images. Best for simple pipelines, dataset preparation, quick tile-based analysis. For advanced spatial proteomics, multiplexed imaging, or deep learning pipelines use pathml.

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High-performance toolkit for genomic interval analysis in Rust with Python bindings. Use when working with genomic regions, BED files, coverage tracks, overlap detection, tokenization for ML models, or fragment analysis in computational genomics and machine learning applications.

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Access European Nucleotide Archive via API/FTP. Retrieve DNA/RNA sequences, raw reads (FASTQ), genome assemblies by accession, for genomics and bioinformatics pipelines. Supports multiple formats.

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Access ClinPGx pharmacogenomics data (successor to PharmGKB). Query gene-drug interactions, CPIC guidelines, allele functions, for precision medicine and genotype-guided dosing decisions.

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Use this skill when the user is doing hands-on DOCA UROM library work from the host side — wiring doca-urom under an HPC / UCX / MPI stack to OFFLOAD remote memory operations (puts, gets, atomics, collectives) onto a BlueField DPU, creating a UROM Service context (doca_urom_service_*) and Worker contexts (doca_urom_worker_*) that run plugins on the DPU, discovering plugins via doca_urom_service_get_plugins_list, progressing completions, or debugging DOCA_ERROR_* from a doca_urom_* call. Trigger even without "DOCA UROM": "MPI all-reduce burning host CPU", "push UCX traffic onto the BlueField", "first doca_urom call returns NOT_PERMITTED", or "host library and DPU service look out of sync". Route elsewhere for UROM Service deployment on the DPU side, MPI / UCX collective algorithm design, and RDMA / RoCE / IB substrate bring-up.

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Operate the DOCA UROM Service container on BlueField Arm for remote memory operations (puts, gets, atomics, collectives) enqueued by a paired host using `doca-urom`: pull the NGC image, choose the UCX component, size queues, configure Comch pairing, and align host and service versions. SECURITY: the service has no standalone access control; Comch pairing and RDMA permissions are the boundary. Pair only intended hosts, expose least-privilege memory regions, and verify both views before start. Trigger for slow UCX collectives, unexpected NOT_PERMITTED, or missing completions. Do not use for host application code, MPI/UCX integration design, or DOCA install.

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Golang concurrency design — goroutine lifecycle and leak prevention, channels and `select`, channel ownership and direction, `sync.Mutex`/`RWMutex`/`sync.Map`/`sync.Once`/atomics, `errgroup`, `singleflight`, worker pools, and fan-out/fan-in pipelines. Use when writing or reviewing concurrent Go code, when choosing between channels and mutexes, when protecting a shared map or counter, or when a goroutine has no clear exit. Not for defensive coding unrelated to concurrency such as nil panics, slice aliasing, or numeric overflow (→ See `samber/cc-skills-golang@golang-safety` skill), and not for debugging a specific hung, crashing, or racing program after the fact (→ See `samber/cc-skills-golang@golang-troubleshooting` skill).

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Analyze a startup from three perspectives — VC investor, job applicant, and CEO/founder — covering market, traction, unit economics, team, defensibility, runway, equity value, culture, and competitive position, with a verdict for each. Use this skill whenever the user wants to evaluate a startup or private tech company: due diligence, whether to invest in it or join it, weighing a startup job offer, company health, outlook, or competitive position, or open-ended asks such as "what do you think of [company]" or "research [company] for me".

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Query Open Targets Platform for target-disease associations, drug target discovery, tractability/safety data, genetics/omics evidence, known drugs, for therapeutic target identification.

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Use when choosing or evaluating a startup revenue model, pricing/value metric, packaging/tier design, or calculating unit economics (LTV, CAC, payback, gross margin, NRR), including usage-based/credit/AI pricing and variable compute/COGS constraints.

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Protein quantification from mass spectrometry data including label-free (LFQ, intensity-based), isobaric labeling (TMT, iTRAQ), and metabolic labeling (SILAC) approaches. Use when extracting protein abundances from MS data for differential analysis.

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Peptide-spectrum matching and protein identification from MS/MS data. Use when identifying peptides from tandem mass spectra. Covers database searching, spectral library matching, and FDR estimation using target-decoy approaches.

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