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Fit models to data from unmarked animals using Stan. Uses a similar interface to the R package 'unmarked', while providing the advantages of Bayesian inference and allowing estimation of random effects.
Zylstra, E. R., D. E. Swann, B. R. Hossack, E. Muths, and R. J. Steidl. 2019. Drought-mediated extinction of an arid-land amphibian: insights from a spatially explicit dynamic occupancy model. Ecological Applications 29:e01859
Wright, A.D., Grant, E.H.C., & Zipkin, E.F. 2020. A hierarchical analysis of habitat area, connectivity, and quality on amphibian diversity across spatial scales.
Zipkin E.F., Rossman S., Yackulic C., Wiens J.D., Thorson J.T., Davis R.J., and Grant E.H.C. 2017. Integrating count and detection-nondetection data to model population dynamics. Ecology. 98: 1640-1650.
Hostetter NJ, D Ryan, D Grosshuesch, T Catton, S Malick-Wahls, TA Smith, and B Gardner. Quantifying spatiotemporal occupancy dynamics and multi-year core use areas at a species range boundary. Diversity and Distributions. Accepted.
Rossman R., Yackulic C., Saunders S.P., Reid J., Davis R., and Zipkin E.F. 2016. Dynamic N-occupancy models: estimating demographic rates and local abundances from detection-nondetection data. Ecology. 97: 3300-3307.