https://github.com/ssi-dk/diseasy

https://github.com/ssi-dk/diseasy

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• Host: GitHub
• URL: https://github.com/ssi-dk/diseasy
• Owner: ssi-dk
• Created: 2023-06-12T13:32:15.000Z (over 1 year ago)
• Default Branch: main
• Last Pushed: 2024-04-11T09:22:44.000Z (7 months ago)
• Last Synced: 2024-04-11T10:34:34.970Z (7 months ago)
• Language: R
• Homepage: https://ssi-dk.github.io/diseasy/
• Size: 17.9 MB
• Stars: 2
• Watchers: 1
• Forks: 0
• Open Issues: 21
• Metadata Files:
  • Readme: README.Rmd

Awesome Lists containing this project

README

        
---

output:

  - github_document

  - md_document

---

```{r, echo = FALSE}

knitr::opts_chunk$set(

  collapse = TRUE,

  comment = "#>",

  fig.path = "man/figures/README-"

)

```

# diseasy 

[![CRAN status](https://www.r-pkg.org/badges/version/diseasy)](https://CRAN.R-project.org/package=diseasy)

[![CI tests](https://github.com/ssi-dk/diseasy/actions/workflows/all-workflows.yaml/badge.svg)](https://github.com/ssi-dk/diseasy/actions/workflows/all-workflows.yaml)

[![codecov](https://codecov.io/gh/ssi-dk/diseasy/branch/main/graph/badge.svg)](https://app.codecov.io/gh/ssi-dk/diseasy)

## 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 can be

automatically coupled and stratified within the `diseasystore` package.

Consult the Quick start vignette to see it in action

(`vignette("quick-start", package = "diseasystore")`).

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 one `diseasystores` the way.

The `diseasystore` package is designed to handled both individual-level

data (examples to come) and semi-aggregated (typically publicly

available) data.

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

```{r, eval = FALSE}

# Install diseasy from CRAN:

install.packages("diseasy")

# Alternatively, install the development version from github:

# install.packages("devtools")

devtools::install_github("ssi-dk/diseasy")

```

## Usage

For basic usage examples, see `vignette("quick-start")`.