In Hackout3/outbreaks: A Collection of Disease Outbreak Data

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.align = "center",
  fig.path = "man/figures/README-",
  echo = TRUE,
  fig.width = 8,
  fig.height = 6
)

outbreaks: a compilation of disease outbreak data

This package compiles a series of publicly available disease outbreak data. Data can be provided as R objects (loaded automatically when loading the package), text files distributed alongside the package, or functions generating a dataset.

The following R datasets are currently available:

if(!require(printr)) warning("printr is not installed; displaying the content of 'data(...)' may not work")

data(package="outbreaks")

Installing the package

To install the current stable, CRAN version of the package, type:

install.packages("outbreaks")

To benefit from the latest features and bug fixes, install the development, github version of the package using:

devtools::install_github("reconverse/outbreaks")

Note that this requires the package devtools installed.

Add your own data!

How to add data?

We will try to create a better repository and data submission system at a later stage. The purpose of the current package is only to share examplar datasets during the hackathon. Acceptable forms are: - as a .RData files in the data/ folder (recommended) - as a text file in the inst/ folder - as a function loading/assembling/simulating a dataset

Naming Conventions

We use the lower case throughout, and snake_case (using underscores) to separate words for the files and dataset names, so that for a RData object, a new dataset woud look like: `my_new_data_RData'. Try using informative names, typically using the disease first. Whenever available, order fields as: 1. disease: mandatory 2. location: optional 3. year: optional 4. sim: mandatory if this is a simulated dataset; otherwise data is assume to be an actual outbreak 5. other: (any other relevant information)