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Update concentration with desired value

update_concentration.Rd

Update the min, max and distribution law of the concentration in the simulated configuration according to a value defined by the user

Usage

update_concentration(scenario, concentration)

Arguments

scenario

data.frame

concentration

data.frame of pathogenName, min, max and distribution law to simulate

Value

scenario_updated

Examples

scenario_test <- create_scenario(
  system.file("input_1culture_2pop.xlsx", package = "ambre")
)

pathogenName <- c("Norovirus", "Rotavirus")
concentration_custom <- data.frame(PathogenName = pathogenName,
                                   min = c(1, 1),
                                   max = c(2,2),
                                   type = c("uniform", "uniform"))

scenario_updated_patho <- update_pathogen(scenario = scenario_test, pathoName = pathogenName)
result <- update_concentration(scenario = scenario_updated_patho ,
                     concentration = concentration_custom)

dplyr::filter(result$config[[1]]$inflow, PathogenName == "Norovirus")
#> # A tibble: 1 × 13
#>   PathogenID PathogenName PathogenGroup simulate value mode  mean  sd    meanlog
#>        <dbl> <chr>        <chr>            <dbl> <lgl> <lgl> <lgl> <lgl> <lgl>  
#> 1         25 Norovirus    Viruses              1 NA    NA    NA    NA    NA     
#> # ℹ 4 more variables: sdlog <lgl>, min <dbl>, max <dbl>, type <chr>