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Insert Basic Transformations of Model Variables

Source: R/tmb_model_editors.R
mp_tmb_insert_trans.Rd

Insert Basic Transformations of Model Variables

Usage

mp_tmb_insert_trans(model, variables = character(), transformation = mp_log)

mp_tmb_implicit_trans(model, variables = character())

Arguments

model

TMB model spec object produced using mp_tmb_library or mp_tmb_model_spec.

variables

Character vector of variables to transform.

transformation

A transformation object such as mp_log, which is the default. See the help page for mp_log for available options.

Value

A new model specification object with expressions for the transformed variables at the end of the simulation loop. The transformed variables are identified with a prefixed name (e.g., log_incidence if incidence is log transformed).

Functions

  • mp_tmb_implicit_trans(): Insert variable transformations implicitly by pre-pending the name of the transformations in front of the names of the variables that you ask for (e.g., "log_case_reports") even if this variable is not in the model as long as the base name (e.g., "case_reports") is.

See also

mp_tmb_insert_backtrans()

Examples

("starter_models"
  |> mp_tmb_library("si", package = "macpan2")
  |> mp_tmb_insert_trans("infection", mp_log)
  |> mp_simulator(time_steps = 5L, outputs = "log_infection")
  |> mp_trajectory()
)
#>          matrix time row col     value
#> 1 log_infection    1   0   0 -1.619488
#> 2 log_infection    2   0   0 -1.440837
#> 3 log_infection    3   0   0 -1.262913
#> 4 log_infection    4   0   0 -1.085859
#> 5 log_infection    5   0   0 -0.909845