Posts

Hello world

In this post, I’ll describe a use of renv to manage a collection of environments for a training course, in a single Git repository. I will cover some caveats at the end of the post, so that you can decide whether this set up suits your own needs, but for now - before I give myself a chance to confuse you - I’ll just get straight into my process.

Motivation There are currently 6,096 packages on Bioconductor, broken down as follows: Repository Packages data-annotation 2,693 data-experiment 855 software 2,516 workflows 32 In an effort to motivate myself to keep an eye out for interesting packages - both new and old - I have used the BiocPkgTools package to develop a website updated daily and feature packages selected randomly from each repository.

Overview I have added an interactive world map to my COVID-19 website using the leaflet package. Using my existing data preprocessing setup, it was incredibly easy to set up the interactive map!

Overview The recent introduction of GitHub Actions makes a lot of our Travis CI build configurations redundant. In particular, the examples actions include: R-CMD-check using rcmdcheck::rcmdcheck() to check the package.

Wow! I have taken the time to write my CV using pagedown. And… WOW does it look beautiful! A single .Rmd file can simultaneously generate both an HTML and a PDF version.

Overview This post refers to code available online as a GitHub repository. Create a new RStudio project Open the RStudio “New Project…” menu -> New Directory -> Simple R Markdown Website -> Type a folder name.

I was recently told about datapasta, a jewel of a package that provides RStudio addins and functions to freely copy-paste data in and out of a source editor, formatted for immediate use.

The iSEE package will be presented as a workshop at the Bioconductor 2019 conference in New York City! What to expect Charlotte Soneson and I will be conducting a workshop that demonstrates the many features and usages of the iSEE package.