_toc.yml

format: jb-book
root: README

parts:
  - caption: Getting Started
    chapters:
    - file: "docs/install.md" # Installation instructions (also for extras and development)
    - file: "docs/datasets.md" # Information about the datasets that can be downloaded with mritk
  - caption: Command Line Interface
    chapters:
    - file: "docs/info.md" # About the mritk info command
    - file: "docs/show.md" # About the mritk show command
    - file: "docs/napari.md" # About the mritk napari command
    - file: "docs/looklocker.md" # About the mritk looklocker command
    - file: "docs/mixed.md" # About the mritk mixed command
    - file: "docs/r1.md" # About the mritk r1 command
    - file: "docs/hybrid.md" # About the mritk hybrid command
    - file: "docs/concentration.md" # About the mritk concentration command

  - caption: Examples
    chapters:
    - file: "docs/roi.md" # Example of how to extract a region of interest (ROI) from an image using mritk

  - caption: Community
    chapters:
      - file: "CONTRIBUTING.md" # Contributing guidelines
  - caption: Python API
    chapters:
    - file: "docs/api.rst" # API documentation (generated with sphinx)