retro: Run retrospective analysis

In timjmiller/wham: Woods Hole Assessment Model (WHAM)

Run retrospective analysis

Description

Internal function called by fit_wham. Calls fit_peel to fit the model peeling off 1, 2, ..., n.peels years of data.

Usage

retro(
  model,
  n.peels = 7,
  ran = "log_NAA",
  do.sdrep = FALSE,
  n.newton = 0,
  MakeADFun.silent = FALSE,
  retro.silent = FALSE,
  save.input = FALSE
)

Arguments

model	Optimized TMB model, output from fit_tmb.
n.peels	Integer, number of peels to use in retrospective analysis. Default = 7.
ran	Character, specifies which parameters to treat as random effects. Default = "log_NAA".
do.sdrep	T/F, calculate standard deviations of model parameters for each peel? Default = FALSE.
n.newton	integer, number of additional Newton steps after optimization for each peel. Default = 0.
MakeADFun.silent	T/F, Passed to silent argument of TMB::MakeADFun. Default = FALSE.
retro.silent	T/F, Passed to argument of internal fit_peel function. Determines whether peel number is printed to screen. Default = FALSE.
save.input	T/F, should modified input list be saved for every peel? Necessary to project from a peel but increases model object size. Default = FALSE.

Value

peels, a list of length n.peels, where entry i is a model fit by peeling off i years of data.

See Also

fit_wham, fit_peel

timjmiller/wham documentation built on Nov. 23, 2023, 2:46 a.m.