├── .Rprofile ├── .github └── workflows │ ├── build-book.yaml │ └── execute-build-book.yaml ├── .gitignore ├── .vscode └── settings.json ├── DESCRIPTION ├── README.md ├── _examples ├── look-under-hood │ ├── .gitignore │ ├── html-python.html.md │ ├── html-python.qmd │ ├── html-r.html.md │ ├── html-r.pdf │ ├── html-r.pdf.md │ ├── html-r.qmd │ ├── pdf-r.pdf │ ├── pdf-r.pdf.md │ ├── pdf-r.qmd │ └── pdf-r.tex └── websites │ ├── about │ ├── .gitignore │ ├── _brand.yml │ ├── _quarto.yml │ ├── blog.qmd │ ├── d-lab.svg │ ├── index.qmd │ ├── people.qmd │ ├── profile.jpg │ └── projects.qmd │ ├── brand-code │ ├── .gitignore │ ├── _brand.yml │ ├── _quarto.yml │ └── index.qmd │ ├── brand-dark-theme │ ├── .gitignore │ ├── _brand-light.yml │ ├── _brand.yml │ ├── _quarto-layer.yml │ ├── _quarto.yml │ └── index.qmd │ ├── brand-dark │ ├── .gitignore │ ├── _brand-light.yml │ ├── _brand.yml │ ├── _quarto.yml │ └── index.qmd │ ├── brand-fonts │ ├── .gitignore │ ├── _brand.yml │ ├── _quarto.yml │ └── index.qmd │ ├── brand-links │ ├── .gitignore │ ├── _brand-link-only.yml │ ├── _brand-with-headings.yml │ ├── _brand.yml │ ├── _quarto-layer-headings.yml │ ├── _quarto-layer.yml │ ├── _quarto.yml │ └── index.qmd │ ├── brand │ ├── .gitignore │ ├── _brand.yml │ ├── _quarto.yml │ └── index.qmd │ ├── css │ ├── .gitignore │ ├── _brand.yml │ ├── _quarto-css.yml │ ├── _quarto.yml │ ├── index.qmd │ └── styles.css │ ├── hybrid │ ├── .gitignore │ ├── _quarto.yml │ ├── course-1.qmd │ ├── course-2.qmd │ ├── course-3.qmd │ ├── index.qmd │ ├── project-1.qmd │ ├── project-2.qmd │ ├── research.qmd │ └── teaching.qmd │ ├── listings │ ├── .gitignore │ ├── _brand.yml │ ├── _publish.yml │ ├── _quarto.yml │ ├── blog.qmd │ ├── d-lab.svg │ ├── images │ │ ├── chen.svg │ │ ├── drake.svg │ │ └── wong.svg │ ├── index.qmd │ ├── people.qmd │ ├── people.yml │ ├── posts │ │ ├── bioscience-image-library-by-fayette-reynolds-FovBvnvVS_k-unsplash.jpg │ │ ├── bioscience-image-library-by-fayette-reynolds-UddW4jFHmN4-unsplash.jpg │ │ ├── bioscience-image-library-by-fayette-reynolds-_GajiPiqv9s-unsplash-2.jpg │ │ ├── first-post.qmd │ │ ├── second-post.qmd │ │ └── third-post.qmd │ ├── profile copy.jpg │ ├── profile.jpg │ ├── publications.qmd │ ├── publications.yml │ └── test.qmd │ ├── minimal │ ├── .gitignore │ ├── _quarto.yml │ └── index.qmd │ ├── nav │ ├── .gitignore │ ├── _quarto-navbar-intro.yml │ ├── _quarto-navbar-nested.yml │ ├── _quarto-navbar-simple.yml │ ├── _quarto-sidebar-deeply-nested.yml │ ├── _quarto-sidebar-intro.yml │ ├── _quarto-sidebar-nested.yml │ ├── _quarto-sidebar-simple.yml │ ├── _quarto.yml │ ├── about.qmd │ ├── air-quality.qmd │ ├── blog.qmd │ ├── current.qmd │ ├── d-lab-dark.svg │ ├── d-lab.svg │ ├── faculty.qmd │ ├── index.qmd │ ├── past.qmd │ ├── people.qmd │ ├── projects.qmd │ ├── students.qmd │ └── wastewater.qmd │ ├── scss │ ├── .gitignore │ ├── _brand-defaults.yml │ ├── _brand.yml │ ├── _quarto-scss-defaults.yml │ ├── _quarto-scss-rules.yml │ ├── _quarto-scss.yml │ ├── _quarto.yml │ ├── defaults.scss │ ├── index.qmd │ ├── rules.scss │ └── styles.scss │ ├── sidebar-array │ ├── .gitignore │ ├── _quarto-sidebar.yml │ ├── _quarto.yml │ ├── about.qmd │ ├── course-1.qmd │ ├── course-2.qmd │ ├── course-3.qmd │ ├── index.qmd │ ├── project-1.qmd │ └── project-2.qmd │ ├── sidebar-auto │ ├── .gitignore │ ├── _quarto.yml │ ├── about.qmd │ ├── blog.qmd │ ├── index.qmd │ ├── people │ │ ├── faculty.qmd │ │ └── students.qmd │ └── projects │ │ ├── current │ │ ├── air-quality.qmd │ │ └── wastewater.qmd │ │ └── past │ │ └── index.qmd │ └── theme │ ├── .gitignore │ ├── _quarto-dark.yml │ ├── _quarto-theme.yml │ ├── _quarto.yml │ └── index.qmd ├── _freeze ├── notebooks │ ├── authoring-python │ │ ├── execute-results │ │ │ └── ipynb.json │ │ ├── figure-html │ │ │ ├── plot-1-output-1.png │ │ │ └── plot-output-1.png │ │ ├── figure-ipynb │ │ │ └── plot-output-1.png │ │ └── libs │ │ │ ├── bootstrap │ │ │ ├── bootstrap-icons.css │ │ │ ├── bootstrap-icons.woff │ │ │ ├── bootstrap.min.css │ │ │ └── bootstrap.min.js │ │ │ ├── clipboard │ │ │ └── clipboard.min.js │ │ │ └── quarto-html │ │ │ ├── anchor.min.js │ │ │ ├── popper.min.js │ │ │ ├── quarto-syntax-highlighting.css │ │ │ ├── quarto.js │ │ │ ├── tippy.css │ │ │ └── tippy.umd.min.js │ └── authoring-r │ │ ├── execute-results │ │ └── ipynb.json │ │ ├── figure-html │ │ └── plot-1.png │ │ ├── figure-ipynb │ │ └── plot-1.png │ │ └── libs │ │ ├── bootstrap │ │ ├── bootstrap-icons.css │ │ ├── bootstrap-icons.woff │ │ ├── bootstrap.min.css │ │ └── bootstrap.min.js │ │ ├── clipboard │ │ └── clipboard.min.js │ │ └── quarto-html │ │ ├── anchor.min.js │ │ ├── popper.min.js │ │ ├── quarto-syntax-highlighting.css │ │ ├── quarto.js │ │ ├── tippy.css │ │ └── tippy.umd.min.js ├── projects │ └── execute-results │ │ └── html.json ├── python │ ├── execute-results │ │ └── html.json │ └── figure-html │ │ └── cell-3-output-1.png ├── r │ └── execute-results │ │ └── html.json └── site_libs │ └── clipboard │ └── clipboard.min.js ├── _quarto.yml ├── authoring.qmd ├── books.qmd ├── computation.qmd ├── computations.qmd ├── cover.png ├── dashboards.qmd ├── deps.R ├── dig-under-hood.qmd ├── documents.qmd ├── extensions.qmd ├── figure-table.qmd ├── formats.qmd ├── freeze-cache.qmd ├── images ├── clipboard-2945463692.png ├── look-under-hood-pdf.png ├── look-under-hood-r-html.png ├── look-under-hood-render-html-python.jpg ├── look-under-hood-render-html-r.jpg ├── look-under-hood-render-multiformat.jpg ├── look-under-hood-render-pdf-r.jpg ├── projects-rstudio-build.png ├── projects-rstudio-new.png ├── publishing-process.jpg ├── publishing-quartopub.png ├── rstudio-render.png ├── website-about.png ├── website-back-to-top.jpeg ├── website-brand-code.png ├── website-brand-layer-headings.png ├── website-brand-layer.png ├── website-breadcrumbs.jpeg ├── website-code-links.jpeg ├── website-footer.jpeg ├── website-github-links.png ├── website-hybrid-guide.png ├── website-hybrid-reference.png ├── website-listing-default.png ├── website-listing-grid.png ├── website-listing-table.png ├── website-navbar-highlight.png ├── website-navbar-nested.png ├── website-navbar-simple.png ├── website-navbar.png ├── website-other-formats.jpeg ├── website-other-links.jpeg ├── website-page-navigation.jpeg ├── website-publish.jpg ├── website-scss-defaults.png ├── website-scss-rules.png ├── website-search.jpeg ├── website-sidebar-auto.png ├── website-sidebar-deeply-nested.png ├── website-sidebar-highlight.png ├── website-sidebar-nested.png ├── website-sidebar-simple.png ├── website-sidebar.png ├── website-social-card.png ├── website-theme-brand.png ├── website-theme-dark.png ├── website-theme-fonts.png ├── website-theme-light.png ├── website-theme-link-only.png ├── website-toc-highlight.png ├── yaml-block-folded.png └── yaml-block-literal.png ├── index.qmd ├── julia.qmd ├── look-under-hood.qmd ├── manuscripts.qmd ├── more.qmd ├── notebooks ├── authoring-python.embed.ipynb ├── authoring-python.qmd ├── authoring-python_files │ ├── figure-html │ │ ├── plot-1-output-1.png │ │ └── plot-output-1.png │ └── libs │ │ ├── bootstrap │ │ ├── bootstrap-icons.css │ │ ├── bootstrap-icons.woff │ │ ├── bootstrap.min.css │ │ └── bootstrap.min.js │ │ ├── clipboard │ │ └── clipboard.min.js │ │ └── quarto-html │ │ ├── anchor.min.js │ │ ├── popper.min.js │ │ ├── quarto-syntax-highlighting.css │ │ ├── quarto.js │ │ ├── tippy.css │ │ └── tippy.umd.min.js ├── authoring-r.embed.ipynb ├── authoring-r.qmd └── authoring-r_files │ ├── figure-html │ └── plot-1.png │ └── libs │ ├── bootstrap │ ├── bootstrap-icons.css │ ├── bootstrap-icons.woff │ ├── bootstrap.min.css │ └── bootstrap.min.js │ ├── clipboard │ └── clipboard.min.js │ └── quarto-html │ ├── anchor.min.js │ ├── popper.min.js │ ├── quarto-syntax-highlighting.css │ ├── quarto.js │ ├── tippy.css │ └── tippy.umd.min.js ├── overview.qmd ├── presentations.qmd ├── projects.qmd ├── publishing.qmd ├── python.qmd ├── quarto-tdg.scss ├── quarto.qmd ├── r.qmd ├── renv.lock ├── renv ├── .gitignore ├── activate.R └── settings.json ├── requirements.txt ├── templates.qmd ├── tools.qmd ├── websites.qmd └── yaml.qmd /.Rprofile: -------------------------------------------------------------------------------- 1 | source("renv/activate.R") 2 | -------------------------------------------------------------------------------- /.github/workflows/build-book.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mine-cetinkaya-rundel/quarto-tdg/HEAD/.github/workflows/build-book.yaml -------------------------------------------------------------------------------- /.github/workflows/execute-build-book.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/mine-cetinkaya-rundel/quarto-tdg/HEAD/.github/workflows/execute-build-book.yaml 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