tests/testthat/_snaps/probability_contain.md

In superspreading: Understand Individual-Level Variation in Infectious Disease Transmission

probability_contain works as expected for deterministic

Code
  probability_contain(R = 1.5, k = 0.5, num_init_infect = 1)
Output
  [1] 0.7675919

probability_contain works as expected for simulate

{
  "type": "double",
  "attributes": {},
  "value": [0.7694]
}

probability_contain works as expected for population control

Code
  probability_contain(R = 1.5, k = 0.5, num_init_infect = 1, pop_control = 0.1)
Output
  [1] 0.8213172

probability_contain works as expected for individual control

Code
  probability_contain(R = 1.5, k = 0.5, num_init_infect = 1, ind_control = 0.1)
Output
  [1] 0.8391855

probability_contain works as expected for simulate pop control

{
  "type": "double",
  "attributes": {},
  "value": [0.81833]
}

probability_contain works as expected for both controls

Code
  probability_contain(R = 1.5, k = 0.5, num_init_infect = 1, ind_control = 0.1,
    pop_control = 0.1)
Output
  [1] 0.8915076

probability_contain works as expected for ind control multi init

Code
  probability_contain(R = 1.5, k = 0.5, num_init_infect = 5, ind_control = 0.1)
Output
  [1] 0.4161882

probability_contain works as expected for pop control multi init

Code
  probability_contain(R = 1.5, k = 0.5, num_init_infect = 5, pop_control = 0.1, )
Output
  [1] 0.3737271

probability_contain works as expected for different threshold

{
  "type": "double",
  "attributes": {},
  "value": [0.76148]
}

probability_contain works as when using dots

{
  "type": "double",
  "attributes": {},
  "value": [0.09957]
}

probability_contain works with

Code
  probability_contain(num_init_infect = 1, pop_control = 0.1, offspring_dist = od)
Output
  [1] 0.9037105

Code
  probability_contain(num_init_infect = 1, ind_control = 0.1, offspring_dist = od)
Output
  [1] 0.9133394

Code
  probability_contain(num_init_infect = 5, ind_control = 0.1, pop_control = 0.1,
    offspring_dist = od)
Output
  [1] 0.7168911

probability_contain works with generation_time

{
  "type": "double",
  "attributes": {},
  "value": [0.76712]
}

probability_contain works for outbreak_time & num_init_infect > 1

{
  "type": "double",
  "attributes": {},
  "value": [0.27099]
}

superspreading documentation built on April 4, 2025, 3:18 a.m.