get_energy_budget_uncertainty: Get energy budget components with uncertainty

In fb4package: 'Fish Bioenergetics 4.0' Model Implementation with High-Performance 'TMB' Backend

Get energy budget components with uncertainty

Description

Extracts energy budget components from FB4 simulations with uncertainty propagation when available.

Usage

get_energy_budget_uncertainty(
  result,
  individual_id = NULL,
  confidence_level = 0.95
)

Arguments

result	FB4 result object
individual_id	Individual ID for hierarchical models (NULL for population mean)
confidence_level	Confidence level for intervals (default 0.95)

Value

A named list with ten elements: six energy-component sub-lists (consumption_energy, respiration_energy, egestion_energy, excretion_energy, sda_energy, net_energy), each containing estimate, se, ci_lower, and ci_upper (all numeric, NA when unavailable); plus method (character), backend (character), has_uncertainty (logical), and individual_id (as supplied).

Examples

data(fish4_parameters)
sp   <- fish4_parameters[["Oncorhynchus tshawytscha"]]$life_stages$adult
info <- fish4_parameters[["Oncorhynchus tshawytscha"]]$species_info
bio  <- Bioenergetic(
  species_params     = sp,
  species_info       = info,
  environmental_data = list(
    temperature = data.frame(Day = 1:30, Temperature = rep(12, 30))
  ),
  diet_data = list(
    proportions = data.frame(Day = 1:30, Prey1 = 1.0),
    energies    = data.frame(Day = 1:30, Prey1 = 5000),
    prey_names  = "Prey1"
  ),
  simulation_settings = list(initial_weight = 100, duration = 30)
)
bio$species_params$predator$ED_ini <- 5000
bio$species_params$predator$ED_end <- 5500
result <- run_fb4(bio, strategy = "direct", p_value = 0.5, verbose = FALSE)
budget <- get_energy_budget_uncertainty(result)

fb4package documentation built on May 8, 2026, 1:07 a.m.