Globally-Applicable Area Disaggregated General Ecosystem Toolbox V3

Documentation for package ‘gadget3’ version 0.12-1

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-- A --

ADREPORT	Gadget3 global environment
as.numeric	Gadget3 global environment
assert_msg	Gadget3 global environment
as_integer	Gadget3 global environment
avoid_zero	Gadget3 global environment
avoid_zero_vec	Gadget3 global environment

-- B --

bounded	Gadget3 global environment
bounded_vec	Gadget3 global environment

-- D --

debug_label	G3 stock_* transformation functions
debug_trace	G3 stock_* transformation functions

-- G --

g3a_age	Gadget3 age action
g3a_growmature	Gadget3 growth action
g3a_grow_impl_bbinom	Gadget3 growth action
g3a_grow_lengthvbsimple	Gadget3 growth action
g3a_grow_weightsimple	Gadget3 growth action
g3a_initialconditions	Gadget3 renewal actions
g3a_initialconditions_normalcv	Gadget3 renewal actions
g3a_initialconditions_normalparam	Gadget3 renewal actions
g3a_mature	Gadget3 maturity action
g3a_mature_constant	Gadget3 maturity action
g3a_mature_continuous	Gadget3 maturity action
g3a_migrate	Gadget3 migration action
g3a_migrate_normalize	Gadget3 migration action
g3a_naturalmortality	Gadget3 natural mortality action
g3a_naturalmortality_exp	Gadget3 natural mortality action
g3a_predate_catchability_effortfleet	Gadget3 predation actions
g3a_predate_catchability_linearfleet	Gadget3 predation actions
g3a_predate_catchability_numberfleet	Gadget3 predation actions
g3a_predate_catchability_quotafleet	Gadget3 predation actions
g3a_predate_catchability_totalfleet	Gadget3 predation actions
g3a_predate_fleet	Gadget3 predation actions
g3a_predate_tagrelease	Gadget3 tag-release action
g3a_predate_totalfleet	Gadget3 predation actions
g3a_renewal	Gadget3 renewal actions
g3a_renewal_initabund	Gadget3 renewal actions
g3a_renewal_normalcv	Gadget3 renewal actions
g3a_renewal_normalparam	Gadget3 renewal actions
g3a_renewal_vonb	Gadget3 renewal actions
g3a_renewal_vonb_recl	Gadget3 renewal actions
g3a_renewal_vonb_t0	Gadget3 renewal actions
g3a_report_detail	Gadget3 report actions
g3a_report_history	Gadget3 report actions
g3a_report_stock	Gadget3 report actions
g3a_spawn	Gadget3 spawning action
g3a_spawn_recruitment_bevertonholt	Gadget3 spawning action
g3a_spawn_recruitment_fecundity	Gadget3 spawning action
g3a_spawn_recruitment_hockeystick	Gadget3 spawning action
g3a_spawn_recruitment_ricker	Gadget3 spawning action
g3a_spawn_recruitment_simplessb	Gadget3 spawning action
g3a_tag_shedding	Gadget3 tag-release action
g3a_time	Gadget3 timekeeping actions
g3l_abundancedistribution	Gadget3 likelihood actions
g3l_bounds_penalty	Gadget3 likelihood bounds_penalty action
g3l_catchdistribution	Gadget3 likelihood actions
g3l_distribution_multinomial	Gadget3 likelihood actions
g3l_distribution_multivariate	Gadget3 likelihood actions
g3l_distribution_sumofsquaredlogratios	Gadget3 likelihood actions
g3l_distribution_sumofsquares	Gadget3 likelihood actions
g3l_distribution_surveyindices_linear	Gadget3 likelihood actions
g3l_distribution_surveyindices_log	Gadget3 likelihood actions
g3l_random_dnorm	Gadget3 random effects likelihood actions
g3l_random_walk	Gadget3 random effects likelihood actions
g3l_tagging_ckmr	Gadget3 CKMR likelihood
g3l_understocking	Gadget3 likelihood understocking action
g3s_age	Gadget3 stock age dimensions
g3s_agegroup	Gadget3 stock age dimensions
g3s_areagroup	Gadget3 stock area dimensions
g3s_clone	Gadget3 stock storage
g3s_livesonareas	Gadget3 stock area dimensions
g3s_tag	Gadget3 tag dimension
g3s_time	Gadget3 stock time dimensions
g3s_time_convert	Gadget3 stock time dimensions
g3_action_order	Standard gadget3 order of actions
g3_areas	Gadget3 stock area dimensions
g3_distribution_preview	Gadget3 likelihood actions
g3_env	Gadget3 global environment
g3_eval	Evaluate G3 forumulas
g3_fleet	Gadget3 stock storage
g3_formula	Gadget3 formula helpers
g3_global_formula	Gadget3 language utilities
g3_idx	G3 language extensions to R
g3_init_val	Gadget3 parameter value setter
g3_is_stock	Gadget3 stock storage
g3_matrix_vec	Gadget3 global environment
g3_native	Gadget3 language utilities
g3_param	G3 language extensions to R
g3_parameterized	Gadget3 parameter helpers
g3_param_table	G3 language extensions to R
g3_param_vector	G3 language extensions to R
g3_step	G3 stock_* transformation functions
g3_stock	Gadget3 stock storage
g3_stock_def	Gadget3 stock storage
g3_stock_instance	Gadget3 stock storage
g3_suitability_*	Gadget3 suitability formulae
g3_suitability_andersen	Gadget3 suitability formulae
g3_suitability_andersenfleet	Gadget3 suitability formulae
g3_suitability_constant	Gadget3 suitability formulae
g3_suitability_exponential	Gadget3 suitability formulae
g3_suitability_exponentiall50	Gadget3 suitability formulae
g3_suitability_gamma	Gadget3 suitability formulae
g3_suitability_richards	Gadget3 suitability formulae
g3_suitability_straightline	Gadget3 suitability formulae
g3_timeareadata	Gadget3 time-based data
g3_timevariable	Gadget3 time-based formulas
g3_tmb_adfun	Gadget3 actions into TMB code
g3_tmb_lower	Gadget3 actions into TMB code
g3_tmb_par	Gadget3 actions into TMB code
g3_tmb_parscale	Gadget3 actions into TMB code
g3_tmb_relist	Gadget3 actions into TMB code
g3_tmb_upper	Gadget3 actions into TMB code
g3_to_desc	Gadget3 actions into R code
g3_to_r	Gadget3 actions into R code
g3_to_tmb	Gadget3 actions into TMB code
g3_with	G3 language extensions to R

-- L --

lgamma_vec	Gadget3 global environment
logspace_add	Gadget3 global environment
logspace_add_vec	Gadget3 global environment

-- N --

normalize_vec	Gadget3 global environment
nvl	Gadget3 global environment

-- P --

pow_vec	Gadget3 global environment
print.g3_r	Gadget3 actions into R code
print_array	Gadget3 global environment

-- R --

ratio_add_vec	Gadget3 global environment
REPORT	Gadget3 global environment
REprintf	Gadget3 global environment
Rprintf	Gadget3 global environment

-- S --

stock_assert	G3 stock_* transformation functions
stock_interact	G3 stock_* transformation functions
stock_intersect	G3 stock_* transformation functions
stock_iterate	G3 stock_* transformation functions
stock_prepend	G3 stock_* transformation functions
stock_ss	G3 stock_* transformation functions
stock_ssinv	G3 stock_* transformation functions
stock_switch	G3 stock_* transformation functions
stock_with	G3 stock_* transformation functions