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research-template

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GitHub template for reproducible research repos — two-layer Python 3.10+/uv monorepo splitting generic infrastructure from per-project code, with pytest coverage gates (60% infra, 90% projects), a 17-stage build pipeline, markdown-to-PDF rendering via pandoc/LaTeX, and 24 canonical exemplars.

  • Updated Sep 30, 2026
  • Python

Template for composing multi-track active inference manuscripts — closed-form analytics, pymdp simulations, Lean 4 proofs, GNN/ontology notation — bound to shared sections by a typed sheaf engine with six machine-checked composition laws and a symbol gluing certificate.

  • Updated Sep 7, 2026
  • Python

Systematic literature review pipeline: dispatches ten retrieval engines (arXiv, OpenAlex, Semantic Scholar, Crossref, PubMed) with graceful degradation, deduplicates by DOI/arXiv/OpenAlex ID or title hash, then runs TF-IDF embeddings, NMF topic models and citation networks into an auto-written bibliometric manuscript.

  • Updated Sep 7, 2026
  • TeX

Manuscript-refinement exemplar that models drafting as gold metallurgy: five stages (ore, smelting, assaying, cupellation, certification) monotonically raise a paper's measured purity from 37.5% to nine-nines via claim-support checks, citation audits, seeded SHA-256 token injection and 12 NetworkX/matplotlib figures.

  • Updated Sep 7, 2026
  • Python

Scaffold for publishing a dataset with a machine-readable data contract: JSON descriptors drive schema fingerprints, field-level constraint checks, SHA-256 file verification and quality gates, emitting data-dictionary and provenance-flow figures plus a FAIR release manifest with durable Zenodo identifiers.

  • Updated Sep 7, 2026
  • HTML

Evaluation harness scaffold for self-improvement agents (SIA) — runs a Meta to Target to Feedback loop across generations, scores runs on the mini_classify task with split public/private data to catch overfitting, and replays recorded_generations fixtures for deterministic reruns. Python, uv, pytest; swap your agent into src/loop.py.

  • Updated Sep 6, 2026
  • Python

Template that generates whole runnable child projects — src, tests, scripts, docs — from a combinatoric grammar over 5 domains and 8 kernel primitives, with SHA-256 byte-stable output, recompute verification of tree hashes, and meta-tests against green-by-construction test theater.

  • Updated Sep 6, 2026
  • Python

Scaffold for registered reports, preregistrations, and replications — freezes hypotheses, outcomes, exclusion rules, and the analysis plan into a hash-stamped ledger, logs every deviation, and audits claims so confirmatory and exploratory results stay separate. Emits hypothesis-outcome maps, analysis DAGs, deviation timelines, permutation tests.

  • Updated Aug 29, 2026
  • HTML

Research-infrastructure scaffold wiring three resource pools (fonds, rules, tools) into one self-validating Python pipeline: typed manifests with schema-versioned receipts, fail-closed jsonschema validation, soft vs strong rule checks, tool entrypoint discovery, and a generated manuscript with matplotlib figures.

  • Updated Aug 29, 2026
  • Python

Pitch decks as reproducible build artifacts: one YAML content source renders six deliverables — short/medium/long decks in PDF (ReportLab) and PPTX (python-pptx) — with byte-identical rebuilds, citation enforcement, a cliche linter, live token checks against repo test counts and DOIs, and per-slide QR deep links.

  • Updated Aug 29, 2026
  • Python

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