├── .Rbuildignore ├── .gitignore ├── .travis.yml ├── DESCRIPTION ├── LICENSE.md ├── NAMESPACE ├── R ├── EpiModelHIV-package.R ├── mod.acts.R ├── mod.aging.R ├── mod.arrival.R ├── mod.condoms.R ├── mod.departure.R ├── mod.hivcd4.R ├── mod.hivprogress.R ├── mod.hivtest.R ├── mod.hivtrans.R ├── mod.hivtx.R ├── mod.hivvl.R ├── mod.initialize.R ├── mod.position.R ├── mod.prep.R ├── mod.prevalence.R ├── mod.simnet.R ├── mod.stirecov.R ├── mod.stitrans.R ├── mod.stitx.R └── params.R ├── README.md ├── inst ├── het-test-script.R └── msm-test-script.R ├── man ├── EpiModelHIV-package.Rd ├── acts_msm.Rd ├── aging_msm.Rd ├── arrival_msm.Rd ├── cd4_het.Rd ├── condoms_msm.Rd ├── control_het.Rd ├── control_msm.Rd ├── departure_msm.Rd ├── edges_correct_msm.Rd ├── hivprogress_msm.Rd ├── hivtest_msm.Rd ├── hivtrans_msm.Rd ├── hivtx_msm.Rd ├── hivvl_msm.Rd ├── init_het.Rd ├── init_msm.Rd ├── init_status_msm.Rd ├── init_sti_msm.Rd ├── initialize_msm.Rd ├── param_het.Rd ├── param_msm.Rd ├── position_msm.Rd 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