5/28/2023 0 Comments Zotero bibtex![]() ![]() To make all this work, I use YAML front-matter that looks like this: -Īuthor: "Author One^1^, Corresponding Author^1,\\*^"ĭate: "^1^I co-opt the date field for affilitaions, and nobody has ever complained" Your RMarkdown source will look the same! This is great for copy-and-paste friendly writing. This is particularly true if you’ve ever submitted an article to a journal that requires numbered references. Embedding references in this way is a life-saver if you have an article that might get submitted to multiple journals (or be included in your thesis and submitted to a journal). In RMarkdown, the first sentence would look like this: This thing is totally true …and the second sentence would look like this: says this thing is totally true. The two forms I use are the classic “end of sentence” citation (“This thing is totally true (Dunnington 2018).”) and the “references are nouns” citation (“Dunnington (2018) says this thing is totally true.”). Second is referencing: using Pandoc’s reference format, you can embed plain-text references in your writing. You can use the same default styles template that I use and modify the styles to your (or your supervisor’s) liking. ![]() You will need a suitable “reference docx” to convert these to Word in a way that’s close to what you’ll have to submit. In Markdown, these translate really well: # Introduction The first is formatting! Pretty much every scientific article you will ever write is composed of first, second, and third-level headings. RMarkdown is a big topic, but there’s a few specific things about RMarkdown that make it really useful for articles. I’ve learned that if I don’t give every article a “tag” or drag it into a collection, than it’s unlikely that I’ll find it again later on… ![]() It’s not always 100% correct, but it’s always faster than entering all the information yourself! Zotero does lots of other organizing as well, but I almost always just hit the “import” button (which also downloads the PDF, if available) and move on. In particular, I use the browser plugin, which puts a little icon at the top right corner of a page and will automatically add the correct article metadata to your library whenever you’re on a page with reference information. The Zotero reference manager is at the heart of my workflow. Everybody has their own workflow for writing (the hard part!), and I thought I’d share the barebones pieces of mine for anybody interested in getting started. For all of these, I think there’s some degree of familiarity with programming or LaTeX that’s needed to get started. In particular, there’s some great guides from rOpenSci, packages with LaTeX templates for major publishers, and R packages to help with reproducible documents. I have to start with saying that there’s a lot of ways to write scientific articles with all of these tools. ![]()
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