fb4package-package	fb4package-package
%||%	op-null-default
accumulate_validations	accumulate_validations
add_confidence_bands	add_confidence_bands
add_plot_annotations	add_plot_annotations
add_strategy_metadata	add_strategy_metadata
analysis-core	analysis-core
analysis-extraction	analysis-extraction
analysis-nutritional	analysis-nutritional
analysis-sensitivity	analysis-sensitivity
analyze_composition_by_size	analyze_composition_by_size
analyze_composition_changes	analyze_composition_changes
analyze_energy_budget	analyze_energy_budget
analyze_feeding_performance	analyze_feeding_performance
analyze_growth_patterns	analyze_growth_patterns
analyze_growth_temperature_sensitivity	analyze_growth_temperature_sensitivity
analyze_population_variation	analyze_population_variation
assess_diet_quality	assess_diet_quality
assign_energy_components	assign_energy_components
basic-validators	basic-validators
binary_search_p_value	binary_search_p_value
Bioenergetic	Bioenergetic
bioenergetic-classes	bioenergetic-classes
bioenergetic-methods	bioenergetic-methods
body-composition	body-composition
bootstrap_p_values	bootstrap_p_values
bootstrap_single_iteration	bootstrap_single_iteration
build_composition_df	build_composition_df
build_fb4_result_unified	build_fb4_result_unified
build_individual_uncertainty	build_individual_uncertainty
build_population_uncertainty	build_population_uncertainty
build_tmb_uncertainty	build_tmb_uncertainty
calculate_activity_factor_respiration	calculate_activity_factor_respiration
calculate_body_composition	calculate_body_composition
calculate_combined_survival	calculate_combined_survival
calculate_component_from_water	calculate_component_from_water
calculate_confidence_intervals	calculate_confidence_intervals
calculate_consumption	calculate_consumption
calculate_consumption_params_eq2	calculate_consumption_params_eq2
calculate_consumption_params_eq3	calculate_consumption_params_eq3
calculate_contaminant_accumulation	calculate_contaminant_accumulation
calculate_daily_consumption	calculate_daily_consumption
calculate_daily_metabolism	calculate_daily_metabolism
calculate_daily_spawn_energy	calculate_daily_spawn_energy
calculate_daily_weight_change	calculate_daily_weight_change
calculate_dissolved_fraction	calculate_dissolved_fraction
calculate_egestion	calculate_egestion
calculate_energy_density	calculate_energy_density
calculate_excretion	calculate_excretion
calculate_fat_by_subtraction	calculate_fat_by_subtraction
calculate_final_weight_fb4	calculate_final_weight_fb4
calculate_fish_water_partition	calculate_fish_water_partition
calculate_gill_efficiency	calculate_gill_efficiency
calculate_growth_metrics	calculate_growth_metrics
calculate_mortality_reproduction	calculate_mortality_reproduction
calculate_np_ratios	calculate_np_ratios
calculate_nutrient_allocation	calculate_nutrient_allocation
calculate_nutrient_balance	calculate_nutrient_balance
calculate_nutrient_efficiencies	calculate_nutrient_efficiencies
calculate_predator_energy_density	calculate_predator_energy_density
calculate_progress_interval	calculate_progress_interval
calculate_reproductive_loss	calculate_reproductive_loss
calculate_respiration	calculate_respiration
calculate_respiration_params_eq2	calculate_respiration_params_eq2
calculate_sda	calculate_sda
calculate_spawn_energy	calculate_spawn_energy
calculate_stoichiometric_balance	calculate_stoichiometric_balance
calculate_temperature_dependent_mortality	calculate_temperature_dependent_mortality
calculate_temperature_factor_consumption	calculate_temperature_factor_consumption
calculate_temperature_factor_respiration	calculate_temperature_factor_respiration
calculate_weight_dependent_mortality	calculate_weight_dependent_mortality
check_bioenergetic_readiness	check_bioenergetic_readiness
check_numeric_value	check_numeric_value
check_target_achievement	check_target_achievement
check_tmb_compilation	check_tmb_compilation
check_weight_outliers	check_weight_outliers
clamp	clamp
close_save_device	close_save_device
compare_individuals	compare_individuals
compare_scenarios	compare_scenarios
compare_with_redfield	compare_with_redfield
comprehensive_nutritional_analysis	comprehensive_nutritional_analysis
compute_likelihood_profile	compute_likelihood_profile
consumption-functions	consumption-functions
consumption_temp_eq1	consumption_temp_eq1
consumption_temp_eq2	consumption_temp_eq2
consumption_temp_eq3	consumption_temp_eq3
consumption_temp_eq4	consumption_temp_eq4
contaminant-accumulation	contaminant-accumulation
contaminant_model_1	contaminant_model_1
contaminant_model_2	contaminant_model_2
contaminant_model_3	contaminant_model_3
convert_daily_results_to_dataframe	convert_daily_results_to_dataframe
convert_respiration_to_energy	convert_respiration_to_energy
convert_to_individual_data	convert_to_individual_data
core-validators	core-validators
create_binary_search_strategy	create_binary_search_strategy
create_bootstrap_strategy	create_bootstrap_strategy
create_direct_strategy	create_direct_strategy
create_empty_composition	create_empty_composition
create_error_result	create_error_result
create_execution_plan	create_execution_plan
create_execution_summary	create_execution_summary
create_fb4_strategy	create_fb4_strategy
create_hierarchical_strategy	create_hierarchical_strategy
create_individual_rankings	create_individual_rankings
create_individual_summary	create_individual_summary
create_method_specific_data	create_method_specific_data
create_mle_strategy	create_mle_strategy
create_optim_strategy	create_optim_strategy
create_result_summary	create_result_summary
create_unified_fit_info	create_unified_fit_info
create_unified_summary	create_unified_summary
data-processing	data-processing
data-validators	data-validators
detect_method	detect_method
detect_result_type	detect_result_type
egestion-excretion	egestion-excretion
egestion_model_1	egestion_model_1
egestion_model_2	egestion_model_2
egestion_model_3	egestion_model_3
egestion_model_4	egestion_model_4
EQUATION_REQUIREMENTS	EQUATION_REQUIREMENTS
excretion_model_1	excretion_model_1
excretion_model_2	excretion_model_2
excretion_model_3	excretion_model_3
excretion_model_4	excretion_model_4
execute_daily_simulation	execute_daily_simulation
execute_hierarchical_tmb	execute_hierarchical_tmb
execute_mle_tmb	execute_mle_tmb
execute_simulation_with_method	execute_simulation_with_method
extract_adreport_values	extract_adreport_values
extract_basic_parameters	extract_basic_parameters
extract_data_sources	extract_data_sources
extract_hierarchical_parameters	extract_hierarchical_parameters
extract_species_name	extract_species_name
extract_strategy_parameters	extract_strategy_parameters
extract_tmb_results	extract_tmb_results
fb4-analysis-plots	fb4-analysis-plots
fb4-bioenergetic-plots	fb4-bioenergetic-plots
fb4-daily-plots	fb4-daily-plots
fb4-plot-core	fb4-plot-core
fb4-plots	fb4-plots
FB4-TMB-Shared	FB4-TMB-Shared
fb4package	fb4package-package
FB4Strategy	FB4Strategy
fish4_parameters	fish4_parameters
fish4_parameters_metadata	fish4_parameters_metadata
fit_fb4_binary_search	fit_fb4_binary_search
fit_fb4_bootstrap	fit_fb4_bootstrap
fit_fb4_mle	fit_fb4_mle
fit_fb4_optim	fit_fb4_optim
format_statistics_text	format_statistics_text
generate_reproduction_pattern	generate_reproduction_pattern
get_available_plot_types	get_available_plot_types
get_color_scheme	get_color_scheme
get_consumption_uncertainty	get_consumption_uncertainty
get_efficiency_uncertainty	get_efficiency_uncertainty
get_energy_budget_uncertainty	get_energy_budget_uncertainty
get_individual_results	get_individual_results
get_parameter_value	get_parameter_value
get_population_results	get_population_results
has_uncertainty	has_uncertainty
identify_best_scenarios	identify_best_scenarios
interpolate_time_series	interpolate_time_series
is.Bioenergetic	is.Bioenergetic
is.fb4_result	is.fb4_result
log_execution_plan	log_execution_plan
main-validators	main-validators
mle_estimate_p_value_lognormal	mle_estimate_p_value_lognormal
mortality-reproduction	mortality-reproduction
neg_log_likelihood_lognormal	neg_log_likelihood_lognormal
normalize_diet_proportions	normalize_diet_proportions
nutrient-regeneration	nutrient-regeneration
nutrient_efficiency_block	nutrient_efficiency_block
op-null-default	op-null-default
optim_search_p_value	optim_search_p_value
parameter-processing	parameter-processing
parameter-validators	parameter-validators
perform_scenario_tests	perform_scenario_tests
plot.Bioenergetic	plot.Bioenergetic
plot.fb4_result	plot.fb4_result
plot_bio_dashboard	plot_bio_dashboard
plot_bio_diet	plot_bio_diet
plot_bio_energy	plot_bio_energy
plot_bio_temperature	plot_bio_temperature
plot_bootstrap_distributions	plot_bootstrap_distributions
plot_bootstrap_uncertainty	plot_bootstrap_uncertainty
plot_consumption	plot_consumption
plot_dashboard	plot_dashboard
plot_distributions.fb4_result	plot_distributions.fb4_result
plot_energy	plot_energy
plot_estimate_panel	plot_estimate_panel
plot_growth	plot_growth
plot_growth_temperature_sensitivity	plot_growth_temperature_sensitivity
plot_growth_vs_temperature	plot_growth_vs_temperature
plot_hierarchical_distributions	plot_hierarchical_distributions
plot_hierarchical_uncertainty	plot_hierarchical_uncertainty
plot_mle_uncertainty	plot_mle_uncertainty
plot_sensitivity.fb4_result	plot_sensitivity.fb4_result
plot_temperature	plot_temperature
plot_uncertainty.fb4_result	plot_uncertainty.fb4_result
predator-energy-density	predator-energy-density
predator_energy_eq1	predator_energy_eq1
predator_energy_eq2	predator_energy_eq2
predator_energy_eq3	predator_energy_eq3
predict_consumption_bootstrap	predict_consumption_bootstrap
predict_consumption_delta	predict_consumption_delta
prepare_simulation_data	prepare_simulation_data
print.Bioenergetic	print.Bioenergetic
print.fb4_result	print.fb4_result
process_bioenergetic_data	process_bioenergetic_data
process_composition_params	process_composition_params
process_consumption_params	process_consumption_params
process_contaminant_data	process_contaminant_data
process_contaminant_params	process_contaminant_params
process_egestion_params	process_egestion_params
process_excretion_params	process_excretion_params
process_mortality_params	process_mortality_params
process_nutrient_data	process_nutrient_data
process_nutrient_params	process_nutrient_params
process_predator_energy_data	process_predator_energy_data
process_predator_params	process_predator_params
process_reproduction_data	process_reproduction_data
process_reproduction_pattern	process_reproduction_pattern
process_respiration_params	process_respiration_params
process_simulation_settings	process_simulation_settings
process_species_parameters	process_species_parameters
process_temperature	process_temperature
report_simulation_progress	report_simulation_progress
report_simulation_summary	report_simulation_summary
respiration-functions	respiration-functions
respiration_temp_eq1	respiration_temp_eq1
respiration_temp_eq2	respiration_temp_eq2
result-builders-unified	result-builders-unified
run-fb4-orchestrator	run-fb4-orchestrator
run_fb4	run_fb4
run_fb4.Bioenergetic	run_fb4.Bioenergetic
run_fb4.default	run_fb4
run_fb4_direct_method	run_fb4_direct_method
run_fb4_simulation	run_fb4_simulation
run_final_simulation	run_final_simulation
run_robust_optimization	run_robust_optimization
run_single_optimization	run_single_optimization
safe_exp	safe_exp
safe_extract_param	safe_extract_param
safe_sqrt	safe_sqrt
sdr_assign_scalars	sdr_assign_scalars
sdr_pull_est	sdr_pull_est
sdr_pull_se	sdr_pull_se
sdr_pull_vec	sdr_pull_vec
setup_plot_layout	setup_plot_layout
setup_save_device	setup_save_device
set_diet	set_diet
set_environment	set_environment
set_parameter_value	set_parameter_value
set_simulation_settings	set_simulation_settings
should_mark_as_fitted	should_mark_as_fitted
simulation-engine	simulation-engine
solve_weight_iterative	solve_weight_iterative
solve_weight_linear_segments	solve_weight_linear_segments
solve_weight_power_function	solve_weight_power_function
strategy-binary-search	strategy-binary-search
strategy-bootstrap	strategy-bootstrap
strategy-commons	strategy-commons
strategy-direct	strategy-direct
strategy-hierarchical	strategy-hierarchical
strategy-interface	strategy-interface
strategy-mle	strategy-mle
strategy-optim	strategy-optim
summary.Bioenergetic	summary.Bioenergetic
summary.fb4_result	summary.fb4_result
test_metric_differences	test_metric_differences
transform_to_tmb_basic	transform_to_tmb_basic
transform_to_tmb_hierarchical	transform_to_tmb_hierarchical
uncertainty-prediction	uncertainty-prediction
update_body_composition	update_body_composition
utils	utils
validate_backend_compatibility	validate_backend_compatibility
validate_basic_params	validate_basic_params
validate_bioenergetic_for_simulation	validate_bioenergetic_for_simulation
validate_body_composition	validate_body_composition
validate_category_equation	validate_category_equation
validate_common_strategy_inputs	validate_common_strategy_inputs
validate_complete_simulation_data	validate_complete_simulation_data
validate_contaminant_params	validate_contaminant_params
validate_data_consistency	validate_data_consistency
validate_diet_consistency	validate_diet_consistency
validate_equation_params	validate_equation_params
validate_fb4_inputs	validate_fb4_inputs
validate_fb4_result	validate_fb4_result
validate_fb4_system	validate_fb4_system
validate_fitting_settings	validate_fitting_settings
validate_fit_to_strategy_concordance	validate_fit_to_strategy_concordance
validate_fraction	validate_fraction
validate_individual_data	validate_individual_data
validate_numeric_core	validate_numeric_core
validate_nutrient_concentrations	validate_nutrient_concentrations
validate_parameter_ranges	validate_parameter_ranges
validate_plot_data	validate_plot_data
validate_positive	validate_positive
validate_predator_energy_params	validate_predator_energy_params
validate_predator_requirements	validate_predator_requirements
validate_range_core	validate_range_core
validate_respiration_requirements	validate_respiration_requirements
validate_species_equations	validate_species_equations
validate_statistical_method_inputs	validate_statistical_method_inputs
validate_structure_core	validate_structure_core
validate_temperature	validate_temperature
validate_temporal_data	validate_temporal_data
validate_time_series_data	validate_time_series_data
validate_tmb_objective	validate_tmb_objective
validation_result	validation_result
