mkdocs.yml

site_name: dadi-cli
site_url: "https://dadi-cli.readthedocs.io"
repo_url: "https://github.com/xin-huang/dadi-cli/tree/readme-update"
edit_uri: ""
docs_dir: 'docs'
theme:
        name: "material"
        palette:
                primary: black
                accent: black
plugins:
  - search
  - mkdocstrings:
      default_handler: python
      handlers:
        python:
          rendering:
            show_source: true
      watch:
        - dadi-cli
markdown_extensions:
  - extra
  - tables
  - fenced_code
  - admonition
  - codehilite
extra_javascript:
  - 'https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS_HTML'
nav:
- Home: 'index.md'
- User Guide:
        - Generating allele frequency spectra: 'userguide/fs.md'
        - Demographic inference: 'userguide/demog.md'
        - DFE inference: 'userguide/dfe.md'
        - Joint DFE inference: 'userguide/jdfe.md'
        - LowPass sequence coverage correction: 'userguide/lowpass.md'
        - Statistical testing: 'userguide/stat.md'
        - Cloud computing: 'userguide/cloud.md'
        - Simulation: 'userguide/simulation.md'
        - Models: 'userguide/models.md'
        - Plotting: 'userguide/plot.md'
- Publication Resources:
        - Data Preperation: 'paper-resources/data-preperation.md'
- References: 'references.md'