R

Auto-building drat with gh actions

Combining GitHub actions and {drat.builder} makes it easy to create an auto-building drat repository for your R packages

The dating game

Dates are not so sweet It is known: parsing dates entered by humans is a huge pain: Source: https://xkcd.com/1179/ ISO 8601 nerds: a crack has developed in the old way. The new year has wounded both the m/d/yy and the d/m/yy factions. The time is ripe for a new global order. TONIGHT (2020-01-01) WE RIDE https://t.co/1YTL1SWDm2 — Brooke Watson Madubuonwu (@brookLYNevery1) January 1, 2020 Dates are a never-ending source of fresh hell.

Advancing data analytics for field epidemiologists using R: the R4epis innovation project

A presentation at UseR! 2019 in Toulouse, France.

nice selection

I started writing in R before the tidyverse became a thing and I never really had to think about non-standard evaluation when writing functions. Those days are long past and I’ve recently struggled with the challenge when writing functions for the R4EPIs project, which would stick out like ugly little trolls along side tidyverse functions. One of my biggest struggles was trying to figure out how, excactly to select a varaible from a user as either a character string or a bare variable.

R4EPIs

A collaboration with [MSF](https://msf.org) and [RECON](https://www.repidemicsconsortium.org) to provide tools to train field epidemiologists in creating standardized and automated situation reports.

poppr

R package for population genetic analysis of clonal/sexual organisms

Splitting Hairs: *poppr* version 2.7

Positive Contact This version of poppr is a direct result of feedback that was prompted by my own feedback. I’m always grateful for eagle-eyed users of poppr who report when things are going awry. Recently, I had noticed that poppr was cited in a recent review on the analysis of polyploid genetic data (Meirmans, Liu, and Tienderen 2018) that highlighted some limitations with established methods, including Bruvo’s distance (Bruvo et al.

I C Bugs

Using lldb to track down a bug in C

Poppr 2.6.0: Better Network Plotting

Poppr version 2.6.0 has officially been released on CRAN and should be built for all operating systems within the next few days 🎉. You can check out the NEWS for full details. This release features a new function called boot.ia() to assess how the Index of Association responds to repeat observations (clones). Perhaps the biggest feature is the change in how minimum spanning networks are plotted. Minimum spanning networks were originally implemented in poppr by Javier Tabima and I, and since then they’ve gone through some tweaking, eventually including features like reticulation of equivalent paths and a GUI to help construct these networks.

Using a custom library in R

I’ve been using a custom library for R since 2012 and I’ve never looked back. I’ve not seen many tutorials for people do do this through R, so I figured I’d write a quick one. Where does your R package library live? You can usually find this out by typing .libPaths() in your R console. If you have an out-of-the-box installation, it will generally be somewhere like: C:/Program Files/R/R-3.4.2/library or