An R package for simulating HIV transmission dynamics among men who have sex with men and heterosexual populations, developed as an extension to our general network-based epidemic modeling platform, EpiModel.
EpiModel and EpiModelHIV use the statistical framework of temporal exponential-family random graph models to fit and simulate models of dynamic networks. These statistical methods have been developed and implemented as open-source software, building on the extensive efforts of the Statnet research group to build software tools for the representation, analysis, and visualization of complex network data.
These packages combine these Statnet methods with an agent-based epidemic modeling engine to simulate HIV transmission over networks, allowing for complex dependencies between the network, epidemiological, and demographic changes in the simulated populations. Readers new to these methods are recommended to consult our EpiModel resources, including our main Vignette describe the theory and implementation.
You can install EpiModelHIV in R using devtools:
install.packages("EpiModel", dependencies = TRUE)
devtools::install_github("statnet/tergmLite")
devtools::install_github("statnet/EpiModelHPC")
devtools::install_github("statnet/EpiModelHIV")
Documentation on using this software package is forthcoming, although limited function documentation is provided within the package and available with the help(package = "EpiModelHIV") command.
| Author | Department | Institution |
|---|---|---|
| Samuel M. Jenness | Department of Epidemiology | Emory University |
| Steven M. Goodreau | Department of Anthropology | University of Washington |
| Kevin M. Weiss | Department of Epidemiology | Emory University |
EpiModelHIV has been used in the following scientific articles:
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Jenness SM, Goodreau SM, Morris M, Cassels S. Effectiveness of Combination Packages for HIV-1 Prevention in Sub-Saharan Africa Depends on Partnership Network Structure. Sexually Transmitted Infections. 2016; 92(8): 619-624. LINK
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Jenness SM, Goodreau SM, Rosenberg E, Beylerian EN, Hoover KW, Smith DK, Sullivan P. Impact of CDC’s HIV Preexposure Prophylaxis Guidelines among MSM in the United States. Journal of Infectious Diseases. 2016; 214(12): 1800-1807. LINK
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Jenness SM, Sharma A, Goodreau SM, Rosenberg ES, Weiss KM, Hoover KW, Smith DK, Sullivan P. Individual HIV Risk versus Population Impact of Risk Compensation after HIV Preexposure Prophylaxis Initiation among Men Who Have Sex with Men. PLoS One. 2017; 12(1): e0169484. LINK
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Goodreau SM, Rosenberg ES, Jenness SM, Luisi N, Stansfield SE, Millett G, Sullivan P. Sources of Racial Disparities in HIV Prevalence among Men Who Have Sex with Men in Atlanta, GA: A Modeling Study. Lancet HIV. 2017; 4(7):e311-e320. LINK
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Jenness SM, Weiss KM, Goodreau SM, Rosenberg E, Gift T, Chesson H, Hoover KW, Smith DK, Liu AY, Sullivan P. Incidence of Gonorrhea and Chlamydia Following HIV Preexposure Prophylaxis among Men Who Have Sex with Men: A Modeling Study. Clinical Infectious Diseases. 2017; 65(5): 712-718. LINK