tests/testthat/_snaps/simulate.md

In epichains: Simulating and Analysing Transmission Chain Statistics Using Branching Process Models

simulate_chain_stats is numerically correct

Code
  sim_summary_small_pop
Output
  `epichains_summary` object

   [1] 1 1 1 1 1 2 1 1 1 1

   Simulated lengths:

  Max: 2
  Min: 1

simulate_chains produces expected snapshots

Code
  sim_chains_finite_pop
Output
  `<epichains>` object

  < epichains head (from first known infector) >

     chain infector infectee generation      time
  11     1        1        2          2 1.1279394
  12     2        1        2          2 0.3217817
  13     2        1        3          2 7.8785290
  14     2        1        4          2 3.1584048
  15     3        1        2          2 5.7529635
  16     3        1        3          2 7.1951323


  Number of chains: 10
  Number of infectors (known): 6
  Number of generations: 5
  Use `as.data.frame(<object_name>)` to view the full output in the console.

Code
  sim_chains_inf_susc
Output
  `<epichains>` object

  < epichains head (from first known infector) >

     chain infector infectee generation      time
  11     1        1        2          2  1.169061
  12     1        1        3          2 14.980844
  13     1        1        4          2  1.417131
  14     2        1        2          2  1.932143
  15     2        1        3          2  6.667853
  16     2        1        4          2  1.127939


  Number of chains: 10
  Number of infectors (known): 98
  Number of generations: 12
  Use `as.data.frame(<object_name>)` to view the full output in the console.

Code
  sim_chains_small_pop
Output
  `<epichains>` object

  < epichains head (from first known infector) >

     chain infector infectee generation
  11     6        1        2          2


  Number of chains: 10
  Number of infectors (known): 2
  Number of generations: 2
  Use `as.data.frame(<object_name>)` to view the full output in the console.

epichains documentation built on Oct. 14, 2024, 5:10 p.m.