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Build comprehensive documentation site #6

Description

@aalexmmaldonado

Description
Use Sphinx or MkDocs to generate a documentation site covering installation, core concepts, API reference, tutorials, and example galleries. Include automatic docstring extraction, cross‑references, and a search index. Integrate docs build into CI to catch errors early.

Key tasks:

  • Write a quickstart guide demonstrating end‑to‑end usage.
  • Author tutorial sections for schemas, storage, digestion, workflows, and export.
  • Configure intersphinx to link to external libraries (e.g., Pydantic, MDAnalysis).
  • Set up Read the Docs or GitHub Pages deployment.

Acceptance Criteria

  • Documentation site builds without warnings or errors.
  • Searchable API reference covering all public modules and classes.
  • Tutorial notebooks rendered and linked, with Binder badges for live execution.
  • CI pipeline fails if any broken links or missing docs are detected.

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