diseasystore

Overview

The diseasystore package provides feature stores implemented in R specifically designed for serve disease data for epidemic preparedness.

What makes a diseasystore special, is that features are time-versioned via {SCDB} and can be automatically coupled and stratified within the diseasystore package. This allows for a high degree of flexibility and reproducibility in the handling of disease data.

The package forms the data-backbone of the {diseasy} package.

Handling of diverse data sources

Different data sources are handled by individual diseasystores which each facilitate access to the relevant disease data for the given data source.

Data for different diseases will typically be structured in different ways. The diseasystore package currently implements the Google Health COVID-19 Open Repository with more diseasystores on the way.

The diseasystore package is designed to handle both individual-level data (typically protected) and semi-aggregated data (typically publicly available).

If the data is at the individual-level, the feature store is fully dynamic and can adapt to (virtually) any stratification that the user specifies. If the data conversely is semi-aggregated, the data can only be stratified at the levels of the semi-aggregation (or at higher levels).

Installation

# Install diseasystore from CRAN:
install.packages("diseasystore")

# Alternatively, install the development version from github:
# install.packages("devtools")
devtools::install_github("ssi-dk/diseasystore")

Usage

For basic usage examples, see vignette("diseasystore").