DataTidyGelaDURT

The goal of DataTidyGelaDURT is to provide easy, documented access to the datasets analysed in Effects of BCG vaccination on donor unrestricted T cells in two prospective cohort studies (Gela, 2022). The companion project, ReportGelaDURT, analyses the data and produces the paper figures.

Due to privacy concerns, raw data are not publicly available. Please email Thomas Scriba at thomas.scriba@uct.ac.za should you require access.

Note that the package has been updated since the paper was published, and the version at the time of publication is available as a GitHub release.

Installation

To install the latest version of DataTidyGelaDURT from GitHub, run the following:

if (!requireNamespace("remotes", quietly = TRUE)) install.packages("remotes")
remotes::install_github("SATVILab/DataTidyGelaDURT")

To install the version of DataTidyGelaDURT as when submitted for final publication, run the following:

if (!requireNamespace("remotes", quietly = TRUE)) install.packages("remotes")
remotes::install_github("SATVILab/DataTidyGelaDURT@v1.0.0")

Data sets

The following datasets are available:

Dataset
data_tidy_clin_adult
data_tidy_clin_infant
data_tidy_freq
data_tidy_freq_ifng
data_tidy_hladr_adult
data_tidy_hladr_infant
data_tidy_mem

Use ?DataTidyGelaDURT::<dataset_name> to see documentation for each dataset.

CSV versions of the data are available inside inst/extdata/. Once installed, the following R code will give the path to the CSV files: system.file("extdata", package = "DataTidyGelaDURT").

Project structure

The data are processed using Rmd files inside data-raw/.