Genetic tagging likelihood

Computes binomial likelihood of recapture events from genetic tagging data.

Usage

get_GT_like(
  gt_switch,
  gt_nrec,
  gt_nscan,
  gt_obs,
  number_ysa,
  gt_q = 1,
  gt_od = 1
)

Arguments

gt_switch

Integer switch to activate likelihood.

gt_nrec

Matrix of GT data year_rel, age_rel, year_rec, nrel, nscan, nrec.

gt_nscan

Matrix of GT data year_rel, age_rel, year_rec, nrel, nscan, nrec.

gt_obs

Matrix of GT data year_rel, age_rel, year_rec, nrel, nscan, nrec.

number_ysa

3D array year, season, age of numbers-at-age.

gt_q

GT catchability coeffiecient. This parameter represents the proportion of fish that went through the GAB.

gt_od

GT overdispersion parameter

Value

Negative log-likelihood vector per observation.