Make parameters for SIPmav3_xde human model, with defaults

Make parameters for SIPmav3_xde human model, with defaults

make_Xpar_SIPmav3(
  nStrata,
  Xopts = list(),
  mod_b = "b",
  b_opts = list(b = 0.55),
  mod_c = "c",
  c_opts = list(c = 0.15),
  mod_r = "r",
  r_opts = list(r = 1/180),
  mod_lm = "d",
  lm_opts = list(d = 0.7),
  mod_pcr = "d",
  pcr_opts = list(d = 0.9),
  mod_rdt = "d",
  rdt_opts = list(d = 0.7),
  mod_severe_h = "p",
  severe_h_opts = list(p = 1/500),
  mod_severe_x = "rate",
  severe_x_opts = list(rate = 1/365/5),
  mod_moderate_h = "p",
  moderate_h_opts = list(p = 1/50),
  mod_moderate_x = "rate",
  moderate_x_opts = list(rate = 1/730),
  mod_mild_h = "p",
  mild_h_opts = list(p = 1/10),
  mod_mild_x = "rate",
  mild_x_opts = list(rate = 1/50),
  mod_treat = "p3",
  treat_opts = list(p_sev = 0.95, p_mod = 0.1, p_mild = 0.01),
  mod_xi = "val",
  xi_opts = list(scale = 0),
  mod_seek_care = "val",
  care_seeking_opts = list(val = 0),
  mod_other_fever = "val",
  other_fever_opts = list(val = 0),
  mod_mda = "val",
  mda_opts = list(val = 0),
  mod_msat = "val",
  msat_opts = list(val = 0),
  eta = 1/25
)

Arguments

nStrata

the number of population strata

Xopts

a list that could overwrite defaults

mod_b

a string, the S3 class name for F_infect

b_opts

a list: options for setup_F_infect

mod_c

a string, the S3 class name for F_transmit

c_opts

a list: options for setup_F_transmit

mod_r

a string, the S3 class name for F_clear

r_opts

a list: options for setup_F_clear

mod_lm

a string, the S3 class name for F_detect for light microscopy

lm_opts

a list: options for setup_F_detect

mod_pcr

a string, the S3 class name for F_detect for PCR

pcr_opts

a list: options for setup_F_detect

mod_rdt

a string, the S3 class name for F_detect for RDT

rdt_opts

a list: options for setup_F_detect

mod_severe_h

a string, the S3 class name for F_incidence_h for severe malaria

severe_h_opts

a list: options for setup_F_incidence_h

mod_severe_x

a string, the S3 class name for F_incidence_x for severe malaria

severe_x_opts

a list: options for setup_F_incidence_x

mod_moderate_h

a string, the S3 class name for F_incidence_h for moderate malaria

moderate_h_opts

a list: options for setup_F_incidence_h

mod_moderate_x

a string, the S3 class name for F_incidence_x for moderate malaria

moderate_x_opts

a list: options for setup_F_incidence_x

mod_mild_h

a string, the S3 class name for F_incidence_h for mild malaria

mild_h_opts

a list: options for setup_F_incidence_h

mod_mild_x

a string, the S3 class name for F_incidence_x for mild malaria

mild_x_opts

a list: options for setup_F_incidence_x

mod_treat

a string, the S3 class name for treating malaria

treat_opts

a list: options for treating malaria

mod_xi

a string, the S3 class name for background drug taking

xi_opts

a list: options for setup_F_incidence_x

mod_seek_care

a string, the S3 class name for care seeking

care_seeking_opts

a list: options to set up care seeking

mod_other_fever

a string, the S3 class name for other fever

other_fever_opts

a list: options to set up other fever

mod_mda

a string, the S3 class name for mass drug administration

mda_opts

a list: options to set up mass drug administration

mod_msat

a string, the S3 class name for mass screen and treat

msat_opts

a list: options to set up mass screen and treat

eta

rate of loss of chemo-protection

Value

a list