![]() In the interest of full reproducibility and transparency, I make R Markdown websites for each of my projects. I use R and RStudio for most of my statistical computing, and I’m a dedicated devotee of the tidyverse.I post almost everything I write or develop on GitHub.Before that, I used Evernote, but I abandoned it in September 2018 after 9 years of heavy use, given their ongoing privacy controversies and mass layoffs. Before switching to Obsidian I used Bear, which was great but didn’t support fancier things like math or syntax highlighting. I read and annotate all my PDFs with Skim (and iAnnotate on iOS), since both export annotations as clean plain text.I store all my bibliographic references, books, and articles in Zotero ( see here for why).I use my own variation of Kieran Healy’s Plain Text Social Science workflow to convert Markdown to HTML, PDF (through LaTeX), and Word (through LibreOffice). The key to my writing workflow is the magical pandoc, which converts Markdown files into basically anything else.Typora is my favorite standalone Markdown editor I’ve found so far because it inherently supports pandoc-flavored Markdown. I use Typora to edit standalone Markdown files, since Ulysses uses its own syntax when using fancy things like footnotes.Ulysses has decent HTML previewing powers, but when I need more editorial tools, I use Marked.At first I chafed at the fact that it stores everything in its own internal folder structure, since I store most of my writing in git repositories, but exporting a compiled Markdown file from a bunch of Ulysses sheets is trivial (and still easily trackable in version control). I do all my writing in pandoc-flavored Markdown (including e-mails and paper-and-pencil writing)-it’s incredibly intuitive, imminently readable, flexible, future proof, and lets me ignore formatting and focus on content. I permanently ditched Word as a writing environment in 2008 after starting grad school.As of Octothis is what I’m using: Writing ![]() ![]() I try to keep this updated fairly regularly. In truth, my workflow tends to look like this or this, but here’s a more detailed list of all the interconnected programs I use. People often ask me what programs I use for my writing and design. ![]()
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