Repository to model PMTCT.
The following packages need to be installed:
tergm_3.1.1.tar.gz
ergm_3.1-0.tar.gz
network_1.9.0.tar.gz
networkDynamic_0.4.1.tar.gz
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Contains the engine
/common.functions_fieldingmortality_d9.R
/update.vital.dynamics_newinfected_entryage18_d13a.R
/assign.pregnancy_d8d1.R
/update.treatment_d11.R
/compute.cd4.count_d3.R
/compute.viral.load_d7_d3.R
/assign.infectivity_d4.R
/transmission_d10.R
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Contains files with country-specific parameters
- Uganda:
/params_uganda_d3.R
- South Africa:
/params_za_d2.R
- Uganda:
- Estimation file
- Burnin file
- Output RData file: contains network data
- Example of intervention (Option A, Current coverage)
- Estimation file
- Burnin file
- Output RData file: contains network data
- Example of intervention (Option A, Current coverage)
Instructions to run burnin and simulation models are here.
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Output:
plot_pdfs.zip
Incidence:hiv_incidence_plot.pdf
Prevalence:hiv_prevalence_plot.pdf
Incidence and Viral Suppression vs Coverage:coverage_scenarios_plot.pdf
Per cent Virally Suppressed:viral_suppression_plot.pdf
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Data:
data.zip
Incidence:hiv_prevalence.RData
Prevalence:hiv_incidence.RData
Viral Suppression:viral_suppression.RData
Incidence and Viral Suppression vs Coverage:coverage_scenarios_data.RData
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Code:
plotfiles.zip
Incidence:hiv_prevalence.RData
Prevalence:hiv_prevalence_plot.R
Viral Suppression:viral_suppression_plot.R
Incidence and Viral Suppression vs Coverage:coverage_scenarios_plot.R