_quarto.yml

project:
  type: website
  output-dir: docs

# Copy all files under the contents/ directory to the final site
resources:
  - contents/**

website:
  title: "Culhane Lab"
  search: 
    location: navbar
    type: overlay
  reader-mode: true
  favicon: contents/logo/helix/favicon.ico
  site-url: https://componco.github.io/lab_website.github.io/

  navbar:
    background: dark
    logo: contents/logo/helix/DNA_scaled.png
    search: true
    right:
      - icon: twitter
        href: https://twitter.com/aedinculhane
        aria-label: Twitter
      - icon: github
        href: https://github.com/CompOnco/lab_website/
        aria-label: GitHub
      - icon: envelope
        href: mailto:Aedin.Culhane@ul.ie
        aria-label: Email

    left:
      - text: "Home"
        file: index.qmd
      - text: "Research"
        menu:
          - text: "Overview"
            file: projects.qmd
          - text: "eHealth Hub for Cancer"
            file: Projects/eHealthHub.qmd
          - text: "GDI - Genomic Data Infrastructure"
            file: Projects/GDI.qmd
          - text: "Single-Cell Methods"
            file: Projects/scMethods.qmd
          - text: "Bioconductor"
            file: Projects/bioconductor.qmd
          - text: "Kidney Cancer"
            file: Projects/kidneyCancer.qmd
      - text: "People"
        file: people.qmd
      - text: "Collaborate"
        file: Collaborate.qmd
      - text: "Publications & News"
        menu:
          - text: "Publications"
            file: publications.qmd
          - text: "Talks"
            file: talks.qmd
          - text: "News"
            file: news.qmd
      - text: "Software"
        file: software.qmd
      - text: "Join Us"
        file: positions.qmd

  sidebar:
    style: "docked"
    contents:
      - section: People
        contents: People
      - section: News
        contents: News
    tools:
      - icon: twitter
        href: https://twitter.com/aedinculhane
      - icon: github
        menu:
          - text: "Report a Bug"
            url: https://github.com/CompOnco/lab_website/issues

  page-footer:
    left:
      - text: "© 2023 Culhane Lab | University of Limerick"
    center: |
      ![](/contents/logo/LDCRC_Logo_fixed.jpg "Limerick Digital Cancer Research Center"){height="40"}
      ![](/contents/logo/bioconductor_logo_cmyk.png "Bioconductor"){height="40"}
      ![](/contents/logo/eHealthHub_logo.png "eHealthHub For Cancer"){height="40"}
      ![](/contents/logo/Elixir_logo-3927606181.png "ELIXIR"){height="40"}
      ![](/contents/logo/OHDSI.jpeg "OHDSI Real World Data"){height="40"}
    right: |
      [Privacy Policy](#) | [Terms of Use](#)

repo-url: https://github.com/CompOnco
repo-actions: [edit, issue]

twitter-card:
  creator: "@AedinCulhane"
  site: "@CulhaneLab"

open-graph: true

format:
  html:
    theme:
      light: [flatly, styles.css]
      dark: [darkly, styles.css]
    toc: true
    css: styles.css
    include-in-header:
      text: |
        <link href="https://fonts.googleapis.com/css2?family=Lato:wght@300;400;700&display=swap" rel="stylesheet">
        <script src="https://unpkg.com/@barba/core"></script>
        <script src="https://cdnjs.cloudflare.com/ajax/libs/gsap/3.11.5/gsap.min.js"></script>
        <script src="site.js" defer></script>

editor: visual