set_epi_outputs: Parameterise age grouped output rendering

In mrc-ide/malariasimulation: An individual based model for malaria

Parameterise age grouped output rendering

Description

Parameterise age grouped output rendering

Usage

set_epi_outputs(
  parameters,
  age_group = NULL,
  incidence = NULL,
  clinical_incidence = NULL,
  severe_incidence = NULL,
  prevalence = NULL,
  ica = NULL,
  icm = NULL,
  iva = NULL,
  ivm = NULL,
  id = NULL,
  ib = NULL
)

Arguments

parameters	the model parameters
age_group	age breaks for population size outputs; default = NULL
incidence	age breaks for incidence outputs (D+Tr+A); default = NULL
clinical_incidence	age breaks for clinical incidence outputs (symptomatic); default = c(0, 1825)
severe_incidence	age breaks for severe incidence outputs; default = NULL
prevalence	age breaks for clinical prevalence outputs (pcr and lm detectable infections); default = c(730, 3650)
ica	age breaks for average acquired clinical immunity; default = NULL
icm	age breaks for average maternal clinical immunity; default = NULL
iva	age breaks for average acquired severe immunity; default = NULL
ivm	age breaks for average maternal severe immunity; default = NULL
id	age breaks for average immunity to detectability; default = NULL
ib	age breaks for average blood immunity; default = NULL

Details

this function produces contiguous age groups, inclusive of the lower age limit and exclusive of the upper age limit: e.g., c(0, 10, 100) will produce two age groups: 0-9 and 10-99 in days.

mrc-ide/malariasimulation documentation built on Oct. 14, 2024, 7:33 p.m.