pf_outbreak_model: Run a single instance of the branching process model

In dachuwu/DTQbp: A package for modeling case detection, contact tracing and quarantine with branching processes

Description

Run a single instance of the branching process model

Usage

pf_outbreak_model(
  num.initial.cases = NULL,
  cap_gen = NULL,
  r0isolated = NULL,
  r0community = NULL,
  disp.iso = NULL,
  disp.com = NULL,
  prop.asym = NULL,
  relR.asym = NULL,
  prop.ascertain = NULL,
  detect_sen = NULL,
  prop.presym = NULL,
  si_omega = NULL,
  incu_shape = NULL,
  incu_scale = NULL,
  delay_shape = NULL,
  delay_scale = NULL,
  delay_off = 0,
  quarant.days = NULL,
  quarant.retro.days = NULL
)

Arguments

r0isolated	reproduction number for isolated cases (must be >0)
disp.iso	dispersion parameter for isolated cases (must be >0)
disp.com	dispersion parameter for non-isolated cases (must be >0)
prop.ascertain	proportion of infectious contacts ascertained by contact tracing (must be 0<=x<=1)
delay_shape	numeric shape parameter of delay distribution
delay_scale	numeric scale parameter of delay distribution

Value

data.table of cases by week, cumulative cases, and the effective reproduction number of the outreak

Author(s)

Joel Hellewell

dachuwu/DTQbp documentation built on Dec. 19, 2021, 8:01 p.m.