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For the HTML version of the document we do not want a table of contents as we set toc: no. We specifed a CSS theme called Flatly for our HTML document using theme: "flatly". As of this writing, rmarkdown has a built-in ability to use a range of themes from Bootswatch (https://bootswatch.com/). Alternatively, you can link to a custom CSS fle with the css option. Use html_document to see other options. Notice that we can use no and yes instead of false and true, respectively. We linked to two BibTeX fles with the bibliography option. Using Pandoc syntax, the references will apply to both the PDF and HTML documents. If you want to also enable the creation of a Microsoft Word document, include output: word_document in the header.
Reproducible Research With R and RStudio
Christopher Gandrud
the gert package can find and return Git’s preferences via gert::git_config_global()
Persistent Config and Data for R Packages - R-Hub Blog
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The results of an analysis are shown and discussed in a markup fle that is used to create a PDF document. Researchers often do not explicitly document the relationships between fles that they used in their research. For example, the results of an analysis–a table or fgure–may be copied and pasted into a presentation document. It can be very diÿcult for future researchers to trace the table or fgure back to a particular statistical model and a particular data set without clear documentation. Therefore, it is important to make the links between your fles explicit.
Reproducible Research With R and RStudio
Christopher Gandrud
...catch up on these, and many more highlights
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