snakemake_tutorial/mkdocs.yml at main · NevadaINBRE/snakemake_tutorial · GitHub

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site_name: Nevada Bioinformatics Center - Snakemake Workshop
site_url: https://nevadainbre.github.io/snakemake_tutorial/

repo_name: NevadaINBRE/snakemake_tutorial
repo_url: https://github.com/NevadaINBRE/snakemake_tutorial
edit_uri: edit/main/docs/

theme:
  name: material
  logo: images/university-logo.svg
  favicon: images/university-logo.svg
  palette:
    primary: custom
    accent: blue
  features:
    - content.code.copy
    - content.code.annotate
    - navigation.top
    - navigation.footer

copyright: Copyright &copy; 2026 University of Nevada, Reno

extra_css:
  - stylesheets/custom.css

markdown_extensions:
  - admonition
  - pymdownx.details
  - pymdownx.superfences
  - pymdownx.tabbed:
      alternate_style: true
  - pymdownx.highlight:
      anchor_linenums: true

extra:
  version:
    provider: mike

nav:
  - Welcome: index.md
  - Prerequisites: prerequisites.md
  - Software Installation: installation.md
  - Data Setup: data-setup.md
  - Workshop:
    - "1. Snakemake Fundamentals": fundamentals.md
    - "2. Wildcards & Generalization": wildcards.md
    - "3. Resource Management": resources.md
    - "4. HPC Integration": hpc.md
    - "5. Reproducibility": reproducibility.md
    - "6. Config Files": config.md
    - "7. Docker Containers": docker.md
  - Workshop Wrap-up: wrapup.md