```{include} ../README.md

```

```{toctree}
:maxdepth: 1
:caption: "Contents:"
```

```{toctree}
:caption: Getting started
:name: getting_started
:hidden:
:maxdepth: 1

getting_started/installation
```

```{toctree}
:caption: Usage
:name: usage
:hidden:
:maxdepth: 1

usage/cli
usage/run
```

```{toctree}
:caption: Workflow
:name: workflow
:hidden:
:maxdepth: 1

workflow/workflow
```

```{toctree}
:caption: Outputs
:name: outputs
:hidden:
:maxdepth: 1

outputs/output_files
```

```{toctree}
:caption: Contributing
:name: contributing
:hidden:
:maxdepth: 2
contributing/contributing
```