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Documentation

Start here if you are new to the repository:

../README.md — installation, quick start, public API, and repository map.
tutorials/ — short runnable examples.
api.md — public Python and CLI contracts.
pipeline.md — configuration, output tree, and validation.

Concepts and design

theory.md — the discrete Active Inference loop and matrix conventions.
architecture.md — module boundaries and data flow.
design-contract.md — scope, constraints, and release gates.
glossary.md — recurring terms and symbols.
migration-v1.md — compatibility and upgrade boundaries.

Working in the repository

development.md — locked development and verification commands.
contributing.md — contribution flow and issue reporting.
../configs/README.md — configuration examples and schema notes.
../notebooks/README.md — executable notebook examples.

Publication source

manuscript/ — the ordered publication source, formal definitions, numbered equations, figures, bibliography, and reproducible build commands.

The software verdicts described throughout these documents certify software and artefact integrity only; they do not establish empirical adequacy of a scientific hypothesis.