TLDR: library(consort) is a great package for creating CONSORT/patient flow diagrams in R. Thank you author Alim Dayim! Jump to example code. Documentation. Introduction The easiest way to make a one-off diagram is using something with a graphical interface, such as Power Point, Omnigraffle, or Lucidchart, just to name a few. If, however, you need something that updates automatically based on the underlying dataset changing, then a programmatical solution using R is possible.

Continue reading

What is Quarto? Prerequisites 1. Create a new Quarto website project Troubleshooting 2. Edit your Quarto website 3. Add a page to your website 4. Add R code to your website 5. Serve your website using Netlify Optional: If want to keep the site for longer than 1h 6. Update your website Optional advanced: automatic deploys via GitHub I’ve put together a quick ‘getting started with Quarto and Netlify and GitHub (optional) workshop’.

Continue reading

The HealthyR Advent Calendar 2022 was a series of 24 R tips I shared on Twitter last December It is based on “R for Health Data Science” by Harrison and Pius. Use JKL20 for 20% off, including free worldwide shipping. Here’s a selection of the most popular ones, all 24 can be fount at this website: https://healthyradvent.netlify.app/ More information about HealthyR, including the book and freely available resources can be found at: https://healthyr.

Continue reading

There are several different ways to make maps in R, and I always have to look it up and figure this out again from previous examples that I’ve used. Today I had another look at what’s currently possible and what’s an easy way of making a world map in ggplot2 that doesn’t require fetching data from various places. TLDR: Copy this code to plot a world map using the tidyverse:

Continue reading

There’s some explanation on what reshaping data in R means, why we do it, as well as the history, e.g., melt() vs gather() vs pivot_longer() in a previous post: New intuitive ways for reshaping data in R That post shows how to reshape a single variable that had been recorded/entered across multiple different columns. But if multiple different variables are recorded over multiple different columns, then this is what you might want to do:

Continue reading

I’ve just set up a single page website (= online business card) for myself and my husband: https://pius.cloud/ . This post summarises what I did. If you’re looking to get started with something super quickly, then only the first two steps are essential (Creating a website and Serving a website). Creating a website (using Nicepage) I’ve created websites using various tools such as straight up HTML, Wordpress, Hugo+blogdown (this site - riinu.

Continue reading

R: filtering with NA values

NA - Not Available/Not applicable is R’s way of denoting empty or missing values. When doing comparisons - such as equal to, greater than, etc. - extra care and thought needs to go into how missing values (NAs) are handled. More explanations about this can be found in the Chapter 2: R basics of our book that is freely available at the HealthyR website This post lists a couple of different ways of keeping or discarding rows based on how important the variables with missing values are to you.

Continue reading

Author's picture

Riinu Pius (Ots)

if it aint broke, you’re outdated

Senior Data Manager

Edinburgh, UK