Aerial survey likelihood — get_aerial_survey

Computes the likelihood contribution from an aerial index of abundance survey using a multivariate normal distribution.

Usage

get_aerial_survey_like(
  aerial_switch = 1,
  aerial_survey,
  aerial_cov,
  first_yr,
  par_log_aerial_tau,
  par_log_aerial_sel,
  number_ysa,
  weight_fya
)

Arguments

aerial_switch: Integer selectivity type: 0-4.
aerial_survey: A data.frame of aerial survey observations with columns Year and Index.
aerial_cov: A matrix of covariance for aerial survey observations.
first_yr: Integer first model year.
par_log_aerial_tau: Numeric log-scale observation error SD.
par_log_aerial_sel: Numeric log-scale selectivity parameters for ages 2 and 4 (used when aerial_switch=1).
number_ysa: A 3D array of numbers-at-age with dimensions year by season by age.
weight_fya: A 3D array of weights-at-age with dimensions fishery by year by age.

Value

A list containing:

lp_aerial_tau: Log-determinant component of the likelihood.
lp: Negative log-likelihood value.