This repository contains all the materials needed to reproduce Roth et. al (2017): Functional ecology and imperfect detection of species. Methods in Ecology and Evolution.

Farr, M.T., Green, D.S., Holekamp, K.E., Roloff, G.J., & Zipkin, E.F. 2019. Multi-species hierarchical modeling reveals variable responses of African carnivores to management alternatives. Ecological Applications 9(2): e01845.

Multispecies occupancy models to investigate seasonal co-occurrence of predator-prey pairs and changes withing these co-occurrences.

Single-species, dynamic occupancy models to investigate seasonal habitat-use patterns

DiRenzo, G. V., E. Zipkin, E. C. Grant, J. A. Royle, A. V. Longo, K. Z. Zamudio, and K. R. Lips. 2018. Eco-evolutionary rescue promotes host-pathogen coexistence. Ecological Applications 28: 1948-1962.

Machine learning based species occupancy-detection model for prediction problem

Davis, K. L., Silverman, E. D., Sussman, A. L., Wilson, R. R., Zipkin, E. F. (2022). Errors in aerial survey count data: Identifying pitfalls and solutions. Ecology and Evolution 12:e8733.

Farr, M.T., Green, D.S., Holekamp, K.E., Roloff, G.J., & Zipkin, E.F. 2019. Multi-species hierarchical modeling reveals variable responses of African carnivores to management alternatives. Ecological Applications 9(2): e01845.

Analysis of seasonal habitat-use patterns of Aldabra giant tortoises of Aldabra Atoll, Seychelles using temporary emigration models.

Contains data and code for Brusa et al. 2024. Correcting for measurement errors in a long-term aerial survey with auxiliary photographic data. Ecosphere DOI: 10.1002/ecs2.4961.