Globally-Applicable Area Disaggregated General Ecosystem Toolbox V3

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Documentation for package ‘gadget3’ version 0.9-0

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A B D G L N P R S

-- 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_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_normalparam Gadget3 renewal actions
g3a_renewal_vonb 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_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_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_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_report_all 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_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_param G3 stock_* transformation functions
stock_param_table 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