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House rules and craft for LaTeX Beamer decks (storyboarding, slide prose, frame budgets, layout, XeLaTeX and Korean fonts, color, figures, Overleaf hygiene, build QA). Use to write, edit, review, or build a Beamer deck.
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Consult an independent, read-only GPT-6 Astra advisor before committing to a substantive interpretation, approach, or final result. Not for routine work, implementation, or file edits. Uses gpt-6-astra at an effort matched to the question.
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Draft a referee report on someone else's manuscript for a journal editor, using five adversarial finders, a Blue Team error filter, a Chief Reviewer synthesis, and a Tone Guard legal pass. Use when the user has been asked to referee a manuscript; self-audits go to paper-review-lite or presubmit, author responses to referee-response.
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End-stage QA for a finished figure and table set (callouts, numbering, cross-references, text-to-exhibit consistency, captions and notes, accessibility, SI and replication linkage). Use when preparing a submission.
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Scaffold or audit a research-project repository organized around its source library (PDFs, Markdown conversions, bibliography, intake pipeline) plus the analysis, manuscript, and review folders it needs. Use when starting or auditing a research repo. Not for one-PDF intake or publication replication packages.
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Start-of-session report on where a repository stands. Reads the project's own handoff and log files, checks live git state, and reports objective, verified baseline, open tasks, blockers, and next actions. Use when resuming work. Twin of finished.
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Design and format publication-quality figures. Use for chart choice, color, scales, legends, captions, accessibility, and reproducible figure workflows.
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OCR scanned or image-only corpora with vision-language models in four phases: `triage` inventories the scans, identifies script and language, and shortlists models by script, hardware, and data constraints; `evaluate` picks a system by measured CER/WER against ground truth, using born-digital twins, a second reader, and decision rules set in advance; `run` builds the production pipeline; and `clean` removes model artifacts, audits what every cleaning rule deletes, corrects with rule-based and LLM passes, and records provenance. Born-digital documents with a text layer go to $doc-to-markdown; runs on Leiden's ALICE cluster add $vlm-ocr-alice.
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Designs conjoint and factorial-vignette experiments: attributes and restrictions, effective-N power, estimand choice among AMCE, marginal means, and AMIE, forced choice versus rating, and PAP tiers. Use when planning a conjoint, critiquing an attribute table, sizing respondents and tasks, or testing interactions.
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Read or convert documents (PDF, Office, OpenDocument, RTF, EPUB, CSV) in a research workflow: read directly or convert, pick the converter from document structure, and decide whether the Markdown is tracked or scratch. Use when a document must be read, quoted, summarized, searched, extracted, or added to a source library; scans go to $vlm-ocr.
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Writes or reviews a pre-analysis plan before data collection: registry choice (OSF, AEA, AsPredicted, registered reports), locked models and decision rules, code run on simulated data, contingencies, and deviation records. Use when drafting or auditing a pre-registration or PAP, choosing a registry, or handling a deviation.
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Opens a talk, module, paper, chapter, or referee report as a multi-session deliverable. Interviews the author, then scaffolds deliverable.yml, HANDOFF.md, the planning/ wiki, inbox/, and checks/. Use for deadline-driven work spanning sessions.
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Generates 3-5 conceptually distinct approaches labeled Novel, Surprising, Diverse, or Conventional, and holds for the user's selection before implementing. The --codex mode runs the brainstorm on GPT-6 Astra via codex exec, then has Codex implement the selected approach. Use before committing to an approach when a creative, architectural, or analytical task has more than one non-obvious solution; use --codex when another model family should widen the range.
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Fact-check manuscript claims against their cited sources in a per-source Markdown knowledge base. Use to audit claim support, overclaiming, direction, scope, and misattribution after source intake is complete.
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Consults Fable as an independent, read-only reviewer at an effort the caller matches to the question. The calling session (usually Opus, or Haiku) holds the task and escalates one decision point. Use before committing to an interpretation or a substantial piece of writing or analysis, when stuck or not converging, when changing approach, or as a final check on a finished task. Fallback for when the native advisor tool is unavailable. Not for a session already running Fable.
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Design and format publication-quality tables. Use for column order, row grouping, notes, statistical precision, accessibility, and reproducibility.
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Audit fielded survey response data for registered elements, data quality, bot and AI-automation screening, and sample integrity, and emit an appendix-ready quality report. Use at soft launch or after fielding, before outcomes are analyzed.
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Plans a research project as a durable decision map, resolving one design decision per session until the design is defensible and pre-registerable. Use at project start, when a design has more open decisions than one conversation holds, or when planning keeps restarting. Not for running analyses or writing the paper.
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Interviews a researcher in rounds (idea, design, or defend stage) until no decision in a research idea, design, or draft is left assumed, recommending an answer to each question and writing settled decisions to a file. Use for 'grill me', stress-testing a design, or an idea not yet a design; --plan for software or process plans.
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Scaffold or audit a social-science replication package, and audit the manuscript and archived research objects against FAIR. Use when setting up or repairing a package, checking one before submission, or drafting data, code, and materials availability statements. Adapted from Yusaku Horiuchi's replication-package-guide.
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End-of-session closure. Records what changed into the project's own handoff and log files, separating verified from attempted work, and reports what is uncommitted. Use when wrapping up a session. Twin of sitrep.
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Turns a theory into falsifiable, pre-registerable hypotheses: DGP and DAG, identification, estimands, SESOIs, test choice among NHST, equivalence, and minimum-effect tests, scope conditions, and hypothesis tiers. Use when converting a research question into testable predictions or predicting a null.
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Advises on setting up and validating LLM text classification: codebook, learning regime and model choice, prompts, validation against human coding (kappa, F1), hybrid review, measurement error, and reporting, plus a short resumable batch pattern with a rule-based baseline. Use to classify, code, or label text at scale; category discovery goes to topic-modeling.
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Operate or audit a live Qualtrics survey via the v3 APIs without breaking fielding: publish gating, quotas, flow routing, embedded data, panel-vendor redirects, read-back verification, and a read-only pre-fielding audit. Use when publishing or patching a fielding instrument, when a quota counts but never blocks, or before launch.
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