Uses
Tools, languages, and setup
A uses page — the tools I reach for. A starting point, and perpetually out of date.
Languages
- Python for almost everything — analysis, libraries, this site’s generator.
- R when the statistics ask for it; C when speed does.
Writing & research
- Plain Markdown, converted with Pandoc — the same engine that builds this site.
- BibTeX for citations, rendered with
--citeproc. - BEAST2 / MrBayes for phylogenetics (with all the reservations of Before the Priors).
This site
- A hand-written Python + Pandoc + Jinja2 static generator — see the colophon.
- Set in ET Book; interface furniture in Lato.
- Hosted on GitHub Pages, deployed by GitHub Actions.
Working anywhere
- A fair amount of real work happens over SSH from a phone, waiting for a bus. It is a surprisingly good discipline: it makes you value tools that start fast and get out of the way.