_quarto.yml

project:
  type: website

website:
  page-navigation: true
  title: "MetMiner Cookbook"
  site-url: "https://shawnwx2019.github.io/metminer-cookbook"
  repo-url: "https://github.com/ShawnWx2019/metminer-cookbook"
  repo-actions: [edit, source, issue]
  favicon: images/favicon.ico

  page-footer:
    right: "This page is built with [Quarto](https://quarto.org/)"
    left: "© CC-1.0"

  sidebar:
    background: "#D9E3E4"
    logo: "https://shawnmagic-1257599720.cos.ap-chengdu.myqcloud.com/picgologo_long.webp"
    favicon: images/favicon.ico
    pinned: true
    align: center
    tools:
      - icon: globe
        href: https://shawnwx2019.github.io/
        text: "Shawn learn bioinformatics"
      - icon: github
        href: https://github.com/ShawnWx2019
        text: "Shawn Wang"

    style: "docked"
    search: true
    collapse-level: 1
    contents:
      - href: index.qmd
        text: About
      - href: content/installation.qmd
        text: Installation
      - section: "Upstream data processing"
        contents:
        - href: content/Upstream_method.qmd
          text: Introduction
        - href: content/Project_init.qmd
          text: Project initiate
        - href: content/Import_data.qmd
          text: Data import
      - section: "Downstream data processing"
        contents:
        - href: content/feature_anno.qmd
          text: Feature annotation
        - href: content/feature_dedup.qmd
          text: Feature deduplication
        - href: content/feature_class.qmd
          text: Classification
        - href: content/enrich.qmd
          text: Enrichment analysis
        - href: content/dam.qmd
          text: DAM analysis
      - section: "Data mining"
        contents:
        - href: content/Datamining_method.qmd
          text: Introduction
        - href: content/iWGCNA.qmd
          text: iterative WGCNA
      - href: content/references.qmd
        text: References

format:
  html:
    theme:
      light: [cosmo, theme.scss]
      dark: [cosmo, theme-dark.scss]
    code-copy: true
    code-overflow: wrap
    toc: true


filters:
  - include-files.lua
  - quarto


bibliography: content/reference.bib