LBSPR (version 0.1.6)

LBSPRopt: Optimisation Routine for fitting LBSPR

Description

A function that calculate the negative log-likelihood of the LBSPR model

Usage

LBSPRopt(
  trypars,
  yr = 1,
  LB_pars = NULL,
  LB_lengths = NULL,
  Control = list(),
  pen = TRUE
)

Arguments

trypars

a vector of exploitation parameters in log space

yr

index of the year column to fit the model to

LB_pars

an object of class 'LB_pars' that contains the life history information

LB_lengths

an object of class 'LB_lengths' that contains the length data

Control

a list of control options for the LBSPR model.

pen

apply a penalty if estimate of selectivity is very high?

Value

a NLL value

Details

The Control options are:

modtype

Model Type: either Growth-Type-Group Model (default: "GTG") or Age-Structured ("absel")

maxsd

Maximum number of standard deviations for length-at-age distribution (default is 2)

ngtg

Number of groups for the GTG model. Default is 13

P

Proportion of survival of initial cohort for maximum age for Age-Structured model. Default is 0.01

Nage

Number of pseudo-age classes in the Age Structured model. Default is 101

maxFM

Maximum value for F/M. Estimated values higher than this are trunctated to maxFM. Default is 4