ukbwranglr

Overview

The goal of ukbwranglr is to facilitate analysing UK Biobank data, including:

1. Reading a selection of UK Biobank variables into R.
2. Summarising repeated continuous variable measurements.¹
3. Extracting phenotypic outcomes of interest from clinical events data.²

Installation

You can install the development version of ukbwranglr with:

# install.packages("devtools")
devtools::install_github("rmgpanw/ukbwranglr")

Basic workflow

The basic workflow is as follows:

1. Create a data dictionary for your main UK Biobank dataset with make_data_dict().
2. Read selected variables into R with read_ukb().
3. Summarise continuous variables with summarise_numerical_variables().
4. Tidy clinical events data with tidy_clinical_events() or make_clinical_events_db(), and extract outcomes of interest with extract_phenotypes().
5. Analyse.

Please see vignette('ukbwranglr') for further details.

Footnotes

1. For example, calculating a mean/minimum/maximum body mass index (BMI) from repeated BMI measurements. ↩

2. For example, identifying participants with a diagnosis of hypertension from linked primary and secondary health care records. ↩