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Spawning and early life stage function

Source: R/brood_func.R
nextgen_SRR_func.Rd

Calculates egg production from spawners arriving at spawning grounds, broodtake and in-river removals from escapement of marine fisheries. This function also applies en-route mortality.

Usage

nextgen_SRR_func(
  Brood_Calcs,
  fec,
  p_female,
  hatchery_args = list(),
  fitness_args = list(),
  zbar_brood,
  SRRpars,
  p_LHG
)

nextgen_habitat_func(
  Brood_Calcs,
  Habitat,
  fec,
  p_female,
  hatchery_args = list(),
  fitness_args = list(),
  zbar_brood,
  p_LHG
)

Arguments

Brood_Calcs

List, returned by brood_func()

fec

Vector [nage], fecundity at age of female fish

p_female

Vector [nage], proportion female by age class

hatchery_args

List of arguments created by define_hatchery_args()

fitness_args

List of arguments created by define_fitness_args()

Habitat

Habitat object, modified by ProjectSOM()

Value

Named list:

  • NOS Matrix [nage, n_g]

  • HOS Matrix [nage, n_r]

  • HOS_effective Matrix [nage, n_r]

  • HOS_stray Matrix [nage, n_r]

  • pHOSeff Numeric

  • pHOScensus Numeric

  • Egg_NOS [nage, n_g]

  • Egg_HOS [nage, n_r]

  • Smolt_RelOut Vector [n_r]

  • Fry_NOS Vector [n_g]

  • Fry_HOS Vector [n_g]

  • Smolt_NOS Vector [n_g]

  • Smolt_HOS Vector [n_g]