extractPop: Extract a sub-population of individuals involved in an...

In venelin/toyepidemic: Simulating epidemics with within-host strain mutation and between-host SIR dynamics

Description

Extract a sub-population of individuals involved in an epidemic

Usage

extractPop(epidemic, ids = NULL, sampledOnly = TRUE, activeOnly = FALSE,
  tMin = 0, tMax = Inf, firstN = Inf, lastN = Inf)

Arguments

epidemic	a list representing an epidemic (as returned by simulateEpidemic)
ids	integer vector or NULL, specifying the id of individuals in epidemic$gen to be extracted
sampledOnly	a logical indicating whether only recovered individuals should be extracted
activeOnly	a logical indicating whether only currently infected and alive individuals should be extracted
tMin, tMax	a numericals indicating the interval of observation times for extracted individuals. If sampledOnly is TRUE the observation time is the time of sampling (recovery), otherwise it is the time of infection. Default: tMin=0, tMax=Inf.
firstN	integer indicating whether to return only the first firstN observed individuals (default is Inf)
lastN	integer indicating whether to return only the most recently observed lastN individuals (default is Inf). This filter is applied after the previous filters.

Value

a data.table representing a subset of epidemic$gen after applying the filters

venelin/toyepidemic documentation built on May 29, 2019, 11:46 a.m.