CRAN

OutbreakTools 0.1-16

Basic Tools for the Analysis of Disease Outbreaks

Released Oct 5, 2017 by Thibaut Jombart

This package can be loaded by Renjin but 15 out 18 tests failed.

Dependencies

ape 5.0 reshape2 1.4.2 RCurl scales 0.5.0 RColorBrewer 1.1-2 ggmap 2.6.1 networkDynamic 0.9.0 rjson knitr 1.17 plyr 1.8.4 network 1.13.0 sna 2.4 ggplot2 2.2.1

Implements basic tools for storing, handling and visualizing disease outbreak data, as well as simple analysis tools. OutbreakTools defines the new formal class obkData which can be used to store any case-base outbreak data, and provides summaries for these objects, alongside a range of functions for subsetting and data manipulation. It implements a range of graphics for visualising timelines, maps, contact networks and genetic analyses. It also includes a simple case-base outbreak simulation tool.

Installation

Maven

This package can be included as a dependency from a Java or Scala project by including the following your project's pom.xml file. Read more about embedding Renjin in JVM-based projects.

<dependencies>
  <dependency>
    <groupId>org.renjin.cran</groupId>
    <artifactId>OutbreakTools</artifactId>
    <version>0.1-16-b4</version>
  </dependency>
</dependencies>
<repositories>
  <repository>
    <id>bedatadriven</id>
    <name>bedatadriven public repo</name>
    <url>https://nexus.bedatadriven.com/content/groups/public/</url>
  </repository>
</repositories>

View build log

Renjin CLI

If you're using Renjin from the command line, you load this library by invoking:

library('org.renjin.cran:OutbreakTools')

Test Results

This package was last tested against Renjin 0.8.2523 on Nov 12, 2017.

Source

R

View GitHub Mirror

Release History