This approach involves utilizing the R script that contains the render() command(s) to pre-process objects that feed into the R markdown. Valid themes include default, bootstrap, cerulean, cosmo, darkly, flatly, journal, lumen, paper, readable, sandstone, simplex, spacelab, united, and yeti. For tabsets created in an HTML document by rmarkdown, tabs are by default displayed horizontally, like so: However, with a little bit of tweaking of the HTML, you can turn the tabset into a dropdown menu: Instead of having to tweak the HTML after Pandoc produces the HTML file, would it be possible to use rmarkdown to specify a dropdown layout? Hover over them to see what they do. In essence, it provides a factory from which you can run the R Markdown reports, get automatically date- and time-stamped folders for the outputs, and have light version control. Highlight: Configuring this changes the look of highlighted text (e.g.code within chunks that are shown). The first option is fixed: there is only one method for creating R Markdown formatted tables. \quad Highlighting lines of code requires the use of this unique syntax: Creating presenter notes (slides that can only be shown by pressing p) requires wrapping the content by some HTML: By manipulating the YAML header, we can add a timer to the footer: Here is a set of Slidy slides produced with and without custom .css styles: Here is the default Beamer VS one with custom styles: Including custom styles is achieved in two steps: These few commands (written in your LaTeX file) will allow you to make a few changes to your slides: fig.width and fig.height can only take numeric arguments, and one or both can be specified. The image can easily be centred with the centre tag. As mentioned above, as alternative to pressing the Knit button to produce the output is to execute the render() function from a separate script. # or sys.source("your-script.R", envir = knitr::knit_global()), # This is a R script that is separate from the R Markdown, "output/Report_{hospitals[i]}_{Sys.Date()}.docx", https://rmarkdown.rstudio.com/authoring_quick_tour.html, https://rmarkdown.rstudio.com/articles_intro.html, https://stackoverflow.com/questions/40563479/relationship-between-r-markdown-knitr-pandoc-and-bookdown. Some notes about the contents of the curly brackets { }: Read more extensively about the knitr options here. Then you can define CSS rules for this class.11 This can be useful when you want to highlight a certain code chunk or its text output. How to add a browser tab icon (favicon) for a website? By clicking Post Your Answer, you agree to our terms of service, privacy policy and cookie policy. Note that smart is enabled by default. However we can also change this to say powerpoint_presentation or word_document or even pdf_document. render() can accept arguments including: As one example, to improve version control, the following command will save the output file within an outputs sub-folder, with the current date in the file name. into a single directory shared by multiple documents. As with knit, the default settings will save the Rmd output to the same folder as the Rmd script, with the same file name (aside from the file extension). See The letter i represents the index position (1 through 4) of the hospital currently being used in that iteration, such that hospital_list[1] would be Central Hospital. In some cases, it may be appropriate to exclude code entirely (echo = FALSE) but in other cases you might want the code to be available but not visible by default. If you want to specify a set of default options to be shared by multiple documents within a directory, you can include a file named _output.yml within the directory. How can I set the default value for an HTML