Format data for dynamic (multi-season) occupancy model, to be passed to flock().

Format data for dynamic (multi-season) occupancy model, to be passed to flock().

make_flocker_data_dynamic(
  obs,
  unit_covs = NULL,
  event_covs = NULL,
  quiet = FALSE,
  newdata_checks = FALSE
)

Arguments

obs

An I x J x K array where closure is assumed across rows, columns are repeated sampling events, and slices along the third dimension are seasons. Allowable values are 1 (detection), 0 (no detection), and NA (no sampling event). The data must be formatted so that all NAs are trailing within their rows across repeat visits, but not necessarily across seasons.

unit_covs

A list of dataframes (one per season) of covariates for each closure-unit that are constant across repeated sampling events within units. All dataframes must have identical column names and types, and all dataframes must have I rows.

event_covs

A named list of I x J x K arrays, each one corresponding to a covariate that varies across repeated sampling events within closure-units

quiet

Hide progress bars and informational messages?

newdata_checks

If TRUE, turn off checks that must pass in order to use the data for model fitting, but not in other contexts (e.g. making predictions or assessing log-likelihoods over new data).

Value

A flocker_data list that can be passed as data to flock().