Flexible Occupancy Estimation with Stan

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Documentation for package ‘flocker’ version 1.0-0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

example_flocker_model_single	Example single-season flocker model
fitted_flocker	Posterior predictive distributions for modeled probabilities
flock	Fit an occupancy model
flocker_stancode	Generate stan code for an occupancy model
flocker_standata	Generate stan data for an occupancy model
get_flocker_prior	Get prior for occupancy model
get_Z	Get posterior distribution of the Z matrix
log1m_inv_logit	Numerically stable log one-minus inverse logit
log_inv_logit	Numerically stable log inverse logit
log_lik_flocker	Compute unit-wise or series-wise log-likelihood matrix for a flocker_fit object
loo_compare_flocker	LOO comparisons for flocker models.
loo_flocker	Compute loo for flocker_fit objects
make_flocker_data	Format data for occupancy model with 'flock()'.
make_flocker_data_augmented	#' Format data for data-augmented occupancy model, to be passed to 'flock()'.
make_flocker_data_dynamic	Format data for dynamic (multi-season) occupancy model, to be passed to 'flock()'.
make_flocker_data_static	Format data for single-season occupancy model, to be passed to 'flock()'.
predict_flocker	Get posterior predictions from a flocker model
simulate_flocker_data	Simulate data for use with 'make_flocker_data()' and downstream functions.