_site.yml

# See http://rmarkdown.rstudio.com/rmarkdown_websites.html

# name: "UVA HSL Research & Data Courses"
# name: "BIMS 8382"
name: "Biological Data Science Workshops"
output_dir: "_site"
navbar:
  title: "BIODATASCI"
  icon: fa-home
  type: inverse
  left:
    - text: "Home"
      icon: fa-home
      href: index.html
    - text: "Setup"
      icon: fa-cog
      href: setup.html
    - text: "Data"
      icon: fa-download
      href: "data.html"
    - text: "Syllabus"
      icon: fa-graduation-cap
      href: "syllabus.html"

    - text: "Course Material"
      icon: fa-university
      menu:
        - text: "Syllabus"
          icon: fa-graduation-cap
          href: syllabus.html
        - text: "----"
        - text: "--- Lessons ---"
        - text: "R Basics"
          href: r-basics.html
        - text: "Data Frames"
          href: r-dataframes.html
        - text: "Data Manipulation"
          href: r-dplyr-yeast.html
        - text: "Tidying data"
          href: r-tidy.html
        - text: "Data Visualization"
          href: r-viz-gapminder.html
        - text: "Refresher: Tidy EDA"
          href: r-refresher-tidy-eda.html
        - text: "Reproducible Research & RMarkdown"
          href: r-rmarkdown.html
        - text: "Essential Statistics"
          href: r-stats.html
        - text: "Survival Analysis"
          href: r-survival.html
        - text: "Predictive Analytics & Forecasting Influenza"
          href: r-predictive-modeling.html
        - text: "Text Mining"
          href: r-textmining.html
        - text: "RNA-seq"
          href: r-rnaseq-airway.html
        - text: "Phylogenetic trees with R"
          href: r-ggtree.html
#        - text: "----"
        - text: "--- Homework ---"
        - text: "Data Manipulation"
          href: r-dplyr-homework.html
        - text: "Data Visualization"
          href: r-viz-homework.html
        - text: "Reproducible Research & RMarkdown"
          href: r-rmarkdown-homework.html
        - text: "Essential Statistics"
          href: r-stats-homework.html
        - text: "RNA-seq"
          href: r-rnaseq-homework.html

  right:
    - icon: fa-question fa-lg
      menu:
        - text: "People"
          href: people.html
        - text: "Further resources"
          href: help.html
        - text: "Source code for this site"
          href: https://github.com/stephenturner/workshops

output:
  html_document:
    theme: default
    toc: true
    toc_depth: 3
    toc_float:
      collapsed: false
    fig_align: center
    css:
      - https://maxcdn.bootstrapcdn.com/font-awesome/4.5.0/css/font-awesome.min.css
      - styles.css
    includes:
      in_header: _include/in_header.html
      after_body: _include/after_body.html

exclude: ["LICENSE", "README.markdown", "CONTRIBUTING.markdown", "*.Rproj", "*.key", "*.psd"]