Distributions for Ecological Models in 'nimble'

Common ecological distributions for 'nimble' models in the form of nimbleFunction objects. Includes Cormack-Jolly-Seber, occupancy, dynamic occupancy, hidden Markov, dynamic hidden Markov, and N-mixture models. (Jolly (1965) , Seber (1965) , Turek et al. (2016) ).

Distributions for Ecological Models in 'nimble'

This repository provides user-defined distributions that can be used in NIMBLE models for common population ecology statistical models. These include distributions for:

• basic capture-recapture distributions (Cormack-Jolly-Seber),
• hidden Markov model distributions for multi-state and multi-event capture-recapture models,
• occupancy models,
• dynamic occupancy models, and
• N-mixture models.

Community contributions or suggestions for other needs are welcome.

Some of these models were used (in slightly different forms) in:

D. Turek, P. de Valpine, and C. J. Paciorek. 2016. Efficient Markov chain Monte Carlo sampling for hierarchical hidden Markov models. Environmental and Ecological Statistics 4:549-564.