param_het: Parameters for Stochastic Network Model of HIV-1 Infection in...

In statnet/EpiModelHIVmsm: Network-Based Epidemic Modeling of HIV Transmission among MSM and Heterosexual Populations

Description

Sets the simulation parameters for the stochastic network model of HIV-1 Infection among Heterosexuals in Sub-Saharan Africa for the EpiModelHIV package.

Usage

param_het(time.unit = 7, acute.stage.mult = 5, aids.stage.mult = 1,
  vl.acute.topeak = 14, vl.acute.toset = 107, vl.acute.peak = 6.7,
  vl.setpoint = 4.5, vl.aidsmax = 7, cond.prob = 0.09,
  cond.eff = 0.78, act.rate.early = 0.362, act.rate.late = 0.197,
  act.rate.cd4 = 50, acts.rand = TRUE, circ.prob.birth = 0.9,
  circ.eff = 0.53, tx.elig.cd4 = 350, tx.init.cd4.mean = 120,
  tx.init.cd4.sd = 40, tx.adhere.full = 0.76, tx.adhere.part = 0.5,
  tx.vlsupp.time = 365/3, tx.vlsupp.level = 1.5,
  tx.cd4.recrat.feml = 11.6/30, tx.cd4.recrat.male = 9.75/30,
  tx.cd4.decrat.feml = 11.6/30, tx.cd4.decrat.male = 9.75/30,
  tx.coverage = 0.3, tx.prev.eff = 0.96, b.rate = 0.03/365,
  b.rate.method = "totpop", b.propmale = NULL, ds.exit.age = 55,
  ds.rate.mult = 1, di.cd4.aids = 50, di.cd4.rate = 2/365, ...)

Arguments

time.unit	Unit of time relative to one day.
acute.stage.mult	Acute stage multiplier for increased infectiousness above impact of heightened viral load.
aids.stage.mult	AIDS stage multiplier for increased infectiousness in AIDS above impact of heightened viral load.
vl.acute.topeak	Time in weeks to peak viremia during acute infection.
vl.acute.toset	Time in weeks to viral set point following peak viremia.
vl.acute.peak	Log 10 viral load at acute peak.
vl.setpoint	Log 10 viral load at set point.
vl.aidsmax	Maximum log 10 viral load during AIDS.
cond.prob	Probability of condoms per act with partners.
cond.eff	Efficacy of condoms per act in HIV prevention.
act.rate.early	Daily per-partnership act rate in early disease.
act.rate.late	Daily per-partnership act rate in late disease.
act.rate.cd4	CD4 count at which the act.rate.late applies.
acts.rand	If TRUE, will draw number of total and unprotected acts from a binomial distribution parameterized by the act.rate.
circ.prob.birth	Proportion of men circumcised at birth.
circ.eff	Efficacy of circumcision per act in HIV prevention.
tx.elig.cd4	CD4 count at which a person becomes eligible for treatment.
tx.init.cd4.mean	Mean CD4 count at which person presents for care.
tx.init.cd4.sd	SD of CD4 count at which person presents for care.
tx.adhere.full	Proportion of people who start treatment who are fully adherent.
tx.adhere.part	Of the not fully adherent proportion, the percent of time they are on medication.
tx.vlsupp.time	Time in weeks from treatment initiation to viral suppression.
tx.vlsupp.level	Log 10 viral load level at suppression.
tx.cd4.recrat.feml	Rate of CD4 recovery under treatment for males.
tx.cd4.recrat.male	Rate of CD4 recovery under treatment for females.
tx.cd4.decrat.feml	Rate of CD4 decline under periods of non-adherence for females.
tx.cd4.decrat.male	Rate of CD4 decline under periods of non-adherence for males.
tx.coverage	Proportion of treatment-eligible persons who have initiated treatment.
tx.prev.eff	Proportional amount by which treatment reduces infectivity of infected partner.
b.rate	General entry rate per day for males and females specified.
b.rate.method	Method for assigning birth rates, with options of "totpop" for births as a function of the total population size, "fpop" for births as a function of the female population size, and "stgrowth" for a constant stable growth rate.
b.propmale	Proportion of entries assigned as male. If NULL, then set adaptively based on the proportion at time 1.
ds.exit.age	Age at which the age-specific ds.rate is set to 1, with NA value indicating no censoring.
ds.rate.mult	Simple multiplier for background death rates.
di.cd4.aids	CD4 count at which late-stage AIDS occurs and the risk of mortality is governed by di.cd4.rate.
di.cd4.rate	Mortality in late-stage AIDS after hitting a nadir CD4 of di.cd4.aids.
...	additional arguments to be passed into model.

Details

This function sets the parameters for the models.

statnet/EpiModelHIVmsm documentation built on Aug. 28, 2020, 11:07 p.m.