brycewang-stanford
@brycewang-stanford
Public Skills
auto-empirical-research-skills
by brycewang-stanford
Route empirical-research requests through the Auto-Empirical Research Skills catalog when this whole repository is installed as one skill in Codex, CodeBuddy, Claude Code, or another IDE. Use to choose and load the right vendored AERS skill for causal inference, econometrics, replication, data acquisition, manuscript writing, peer review and referee responses, citation checking, de-AIGC editing, or full empirical-paper workflows without reading the entire repository at once.
markitdown
by brycewang-stanford
Convert various file formats (PDF, Office documents, images, audio, web content, structured data) to Markdown optimized for LLM processing. Use when converting documents to markdown, extracting text from PDFs/Office files, transcribing audio, performing OCR on images, extracting YouTube transcripts, or processing batches of files. Supports 20+ formats including DOCX, XLSX, PPTX, PDF, HTML, EPUB, CSV, JSON, images with OCR, and audio with transcription.
game-theory-paper-writer
by brycewang-stanford
Generate, continue, revise, polish, and stress-test game theory research papers. Use when the user provides a game theory topic, phenomenon, draft, outline, model idea, literature anchor, reviewer comments, or asks for 博弈论论文生成, 选题建模, 文献迁移, 模型修正, 均衡分析, 数值模拟, 论文润色, 改稿打磨, or R&R response work.
academic-plotting
by brycewang-stanford
Generates publication-quality figures for ML papers from research context. Given a paper section or description, extracts system components and relationships to generate architecture diagrams via Gemini. Given experiment results or data, auto-selects chart type and generates data-driven figures via matplotlib/seaborn. Use when creating any figure for a conference paper.
bayesian-workflow
by brycewang-stanford
Opinionated Bayesian modeling workflow with PyMC and ArviZ. Contains critical guardrails (nutpie sampler, prior/posterior predictive checks, LOO-PIT calibration, prior sensitivity checks, 94% HDI, non-centered parameterizations, reproducible seeds) that agents won't apply unprompted — always consult before writing Bayesian model code. Trigger on: building probabilistic/Bayesian models, prior elicitation, MCMC inference, convergence diagnostics (divergences, R-hat, ESS), model comparison (LOO-CV, ELPD, stacking weights), hierarchical/multilevel models, count regressions, logistic regression with uncertainty, prior sensitivity analysis, reporting Bayesian results, or mentions of PyMC, ArviZ, InferenceData, credible intervals, posterior distributions, shrinkage, uncertainty quantification. Also trigger for model comparison, diagnosing sampling problems, choosing priors, or presenting stats to non-technical audiences.
econ-audit
by brycewang-stanford
Audit economic analysis outputs (fiscal briefings, macro briefings, market research, longlists, and other quantitative economic documents) against methodology standards, academic literature, and common errors. Runs structured checks across core categories including counterfactual, additionality, discounting, double counting, distributional analysis, Aqua Book RIGOUR, and Flyvbjerg-style strategic misrepresentation detection. Returns a RAG scorecard with issues ranked by severity.
StatsPAI_skill
by brycewang-stanford
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".
Full-empirical-analysis-skill-Stata
by brycewang-stanford
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".
Full-empirical-analysis-skill
by brycewang-stanford
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".
hypothesis-generation
by brycewang-stanford
"Generate testable hypotheses. Formulate from observations, design experiments, explore competing explanations, develop predictions, propose mechanisms, for scientific inquiry across domains."
Evaluating Paper Relevance
by brycewang-stanford
Two-stage paper screening - abstract scoring then deep dive for specific data extraction
medical-imaging-review
by brycewang-stanford
Write comprehensive literature reviews for medical imaging AI research. Use when writing survey papers, systematic reviews, or literature analyses on topics like segmentation, detection, classification in CT, MRI, X-ray, ultrasound, or pathology imaging. Triggers on requests for "review paper", "survey", "literature review", "综述", "systematic review", or mentions of writing academic reviews on deep learning for medical imaging.
peer-review
by brycewang-stanford
"Systematic peer review toolkit. Evaluate methodology, statistics, design, reproducibility, ethics, figure integrity, reporting standards, for manuscript and grant review across disciplines."
hypothesis-generation
by brycewang-stanford
Structured hypothesis formulation from observations. Use when you have experimental observations or data and need to formulate testable hypotheses with predictions, propose mechanisms, and design experiments to test them. Follows scientific method framework. For open-ended ideation use scientific-brainstorming; for automated LLM-driven hypothesis testing on datasets use hypogenic.
autoresearch
by brycewang-stanford
Orchestrates end-to-end autonomous AI research projects using a two-loop architecture. The inner loop runs rapid experiment iterations with clear optimization targets. The outer loop synthesizes results, identifies patterns, and steers research direction. Routes to domain-specific skills for execution, supports continuous agent operation via Claude Code /loop and OpenClaw heartbeat, and produces research presentations and papers. Use when starting a research project, running autonomous experiments, or managing a multi-hypothesis research effort.
Traversing Citation Networks
by brycewang-stanford
Smart backward and forward citation following via Semantic Scholar, with relevance filtering and deduplication
scientific-critical-thinking
by brycewang-stanford
"Evaluate research rigor. Assess methodology, experimental design, statistical validity, biases, confounding, evidence quality (GRADE, Cochrane ROB), for critical analysis of scientific claims."
research-grants
by brycewang-stanford
"Write competitive research proposals for NSF, NIH, DOE, and DARPA. Agency-specific formatting, review criteria, budget preparation, broader impacts, significance statements, innovation narratives, and compliance with submission requirements."
Subagent-Driven Literature Review
by brycewang-stanford
Use parallel subagents for large-scale paper screening and deep dive analysis
research-proposal
by brycewang-stanford
Generate academic research proposals for PhD applications. Use when user asks to "write a research proposal", "create PhD proposal", "generate research plan", "撰写研究计划", "写博士申请", "doctoral proposal", or mentions specific research topics for PhD application. Supports STEM, humanities, and social sciences with field-specific adaptations. Follows Nature Reviews-style academic writing conventions. Supports both English and Chinese output based on user preference.
scientific-writing
by brycewang-stanford
Core skill for the deep research and writing tool. Write scientific manuscripts in full paragraphs (never bullet points). Use two-stage process with (1) section outlines with key points using research-lookup then (2) convert to flowing prose. IMRAD structure, citations (APA/AMA/Vancouver), figures/tables, reporting guidelines (CONSORT/STROBE/PRISMA), for research papers and journal submissions.
stat-writing
by brycewang-stanford
End-to-end statistical writing assistant for LaTeX - draft title/abstract/keywords, expand outlines into sections, audit manuscripts, write reviewer reports and response letters, and scaffold book manuscripts.
Answering Research Questions
by brycewang-stanford
Main orchestration workflow for systematic literature research - search, evaluate, traverse, synthesize
paper-slide-deck
by brycewang-stanford
Generate professional slide deck images from academic papers and content. Creates comprehensive outlines with style instructions, auto-detects figures from PDFs, then generates individual slide images. Use when user asks to "create slides", "make a presentation", "generate deck", or "slide deck" for papers.