PfSI.Setup: Initialize PfSI MODULE
In smitdave/MASH: MASH (Modular Analysis and Simulation for Human Health)

Description Usage Arguments Value Examples

Generate a list of parameters PfSI_PAR in Human and public methods in Human for PfSI infection model; also defines public methods in MicroMosquitoFemale for PfSI infection model.

PfSI.Setup(overwrite = TRUE, Pf_c = 0.15, Pf_b = 0.55, DurationPf = 200,
  LatentPf = 10, FeverPf = 0.3, mnFeverPf = 10, vrFeverPf = 0.1,
  TreatPf = 0.5, mnTreatPf = 1, mnChemoprophylaxisPf = 32,
  PEProtectPf = 0.99, peBlockPf = 1, mnPEPf = 270, vrPEPf = 50,
  GSProtectPf = 1, gsBlockPf = 0.9, mnGSPf = 180, vrGSPf = 20,
  rdtSensPf = 0.9, rdtSpecPf = 0.1, lmSensPf = 0.9, lmSpecPf = 0.1)

`overwrite`	overwrite existing methods and fields?
`Pf_c`	0.15; transmission efficiency: infected human to mosquito
`Pf_b`	0.55; transmission efficiency: infected mosquito to human
`DurationPf`	200; duration of infection (How many days does the infection last?)
`LatentPf`	10; latency (How many days after the infectious bite does the infection start?)
`FeverPf`	0.3; probability of fever
`mnFeverPf`	10; mean of Gaussian-distributed timing of fever incident (relative to start of the infection)
`vrFeverPf`	0.1; standard deviation of Gaussian-distributed timing of fever incident (relative to start of the infection)
`TreatPf`	0.5; probability of treatment
`mnTreatPf`	1; timing of treatment (relative to start of the fever)
`mnChemoprophylaxisPf`	32; Prophylaxis, time to susceptibility (duration of protection due to chemoprophylaxis)
`PEProtectPf`	0.99; proportion protected by PE vaccination (probability vaccination successful)
`peBlockPf`	1; proportion of infections blocked by PE vaccination
`mnPEPf`	270; mean duration of protection from PE vaccination
`vrPEPf`	50; standard deviation of protection from PE vaccination
`GSProtectPf`	1; proportion protected by GS vaccination (probability vaccination successful)
`gsBlockPf`	0.9; proportion of infections blocked by GS vaccination
`mnGSPf`	180; mean duration of protection from GS vaccination
`vrGSPf`	20; standard deviation of protection from GS vaccination
`rdtSensPf`	0.9; RDT sensitivity
`rdtSpecPf`	0.1; RDT specificity
`lmSensPf`	0.9; Light Microscopy sensitivity
`lmSpecPf`	0.1; Light Microscopy specificity