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. 2018 May 10:7:566.
doi: 10.12688/f1000research.14492.2. eCollection 2018.

epicontacts: Handling, visualisation and analysis of epidemiological contacts

V P Nagraj  1 , Nistara Randhawa  2 , Finlay Campbell  3 , Thomas Crellen  4 , Bertrand Sudre  5 , Thibaut Jombart  3
Affiliations

epicontacts: Handling, visualisation and analysis of epidemiological contacts

V P Nagraj et al. F1000Res. .

Abstract

Epidemiological outbreak data is often captured in line list and contact format to facilitate contact tracing for outbreak control. epicontacts is an R package that provides a unique data structure for combining these data into a single object in order to facilitate more efficient visualisation and analysis. The package incorporates interactive visualisation functionality as well as network analysis techniques. Originally developed as part of the Hackout3 event, it is now developed, maintained and featured as part of the R Epidemics Consortium (RECON). The package is available for download from the Comprehensive R Archive Network (CRAN) and GitHub.

Keywords: R; contact tracing; outbreaks.

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Conflict of interest statement

No competing interests were disclosed.

Figures

Figure 1.
Figure 1.. The generic plot() method for an epicontacts object will use the visNetwork method by default.
Figure 2.
Figure 2.. The vis_epicontacts() function explicitly calls visNetwork to make an interactive plot of the contact network.
Figure 3.
Figure 3.. The graph3D() function generates a three-dimensional network plot.
See this image and copyright information in PMC

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