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outbreaks: a compilation of disease outbreak data

This package compiles a series of disease outbreak data, to be shared during Hackout 3. 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:

data(package="outbreaks")
ItemTitle
ebola.kikwit.1995
ebola.sim.clean
ebola.sim
fluH7N9.china.2013
influenza.england.1978.school
measles.hagelloch.1861
mers.korea.2015
sars.canada.2003
smallpox.abakaliki.1967

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("reconhub/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 cases and dots 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)

Contributors (by alphabetic order):

Maintainer: Finlay Campbell (f.campbell15@imperial.ac.uk)

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Install

install.packages('outbreaks')

Monthly Downloads

1,363

Version

1.1.0

License

GPL (>= 2)

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Last Published

November 23rd, 2016

Functions in outbreaks (1.1.0)