Replace integers in outbreaker2 output with unique identifiers
Arguments
- out
A data frame of class
outbreaker_chains.- ids
A vector of IDs from the original linelist (see
outbreaker2::outbreaker_data()).
Examples
identify(out, id = linelist$name)
#>
#>
#> ///// outbreaker results ///
#>
#> class: outbreaker_chains data.frame
#> dimensions 201 rows, 98 columns
#> ancestries not shown: alpha_Natashia - alpha_Rabi
#> infection dates not shown: t_inf_Natashia - t_inf_Rabi
#> intermediate generations not shown: kappa_Natashia - kappa_Rabi
#>
#> /// head //
#> step post like prior mu pi eps
#> 1 1 -1198.0669 -1199.4211 1.354240 0.0001000000 0.9000000 0.5000000
#> 2 50 -576.3898 -578.4358 2.046006 0.0001322360 0.9719080 0.6238018
#> 3 100 -579.1822 -580.9235 1.741283 0.0001218749 0.9395509 0.5810956
#> lambda
#> 1 0.05000000
#> 2 0.06582716
#> 3 0.10193745
#>
#> ...
#> /// tail //
#> step post like prior mu pi eps
#> 199 9900 -563.6538 -565.2708 1.616983 0.0001236515 0.9266639 0.7634021
#> 200 9950 -567.0488 -569.0806 2.031785 0.0001179255 0.9703719 0.7057554
#> 201 10000 -564.4037 -565.6457 1.242090 0.0001456115 0.8888590 0.6301657
#> lambda
#> 199 0.07471296
#> 200 0.07418330
#> 201 0.08802858