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BMC Bioinformatics. 2012 May 4;13:76. doi: 10.1186/1471-2105-13-76.

EpiFire: An open source C++ library and application for contact network epidemiology.

Author information

1
Section of Integrative Biology, University of Texas at Austin, 78712, USA. tjhladish@utexas.edu

Abstract

BACKGROUND:

Contact network models have become increasingly common in epidemiology, but we lack a flexible programming framework for the generation and analysis of epidemiological contact networks and for the simulation of disease transmission through such networks.

RESULTS:

Here we present EpiFire, an applications programming interface and graphical user interface implemented in C++, which includes a fast and efficient library for generating, analyzing and manipulating networks. Network-based percolation and chain-binomial simulations of susceptible-infected-recovered disease transmission, as well as traditional non-network mass-action simulations, can be performed using EpiFire.

CONCLUSIONS:

EpiFire provides an open-source programming interface for the rapid development of network models with a focus in contact network epidemiology. EpiFire also provides a point-and-click interface for generating networks, conducting epidemic simulations, and creating figures. This interface is particularly useful as a pedagogical tool.

PMID:
22559915
PMCID:
PMC3496579
DOI:
10.1186/1471-2105-13-76
[Indexed for MEDLINE]
Free PMC Article
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