The goal of DAISIEmainland is to simulate data to test whether the DAISIE model (Dynamic Assembly of Island biota through Speciation Immigration and Extinction) initially developed in Valente et al. (2015) and used in Valente et al. (2017a, 2017b, 2019, 2020) and Hauffe et al. (2020) can reliably estimate macroevolutionary parameters (cladogenesis, extinction, carrying capacity, immigration and anagenesis) when the assumption of a static mainland pool of species is violated, as is the case in nature.
See long-form documentation for details of package functionality.
To report a bug please open an issue or email at [email protected].
The DAISIE team always welcomes contributions to any of its packages. If you would like to contribute to this package please follow the contributing guidelines
Please note that the DAISIEmainland project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.
citation("DAISIEmainland")Etienne R. S., Valente, L., Phillimore, A. B., Haegeman, B., Lambert, J. W., Neves, P., Xie, S., Bilderbeek, R. J. C. & Hildenbrant H. (2022). DAISIE: Dynamical Assembly of Islands by Speciation, Immigration and Extinction. R package version 4.1.1. https://github.com/rsetienne/DAISIE
Valente, L., Phillimore, A.B., & Etienne, R.S. (2015). Equilibrium and non-equilibrium dynamics simultaneously operate in the Galápagos islands. Ecology Letters, 18(8), 844–852. http://doi.org/10.1111/ele.12461
Valente, L., Etienne, R.S., & Dávalos, L.M. (2017). Recent extinctions disturb path to equilibrium diversity in Caribbean bats. Nature Ecology & Evolution, 1(2), 0026. http://doi.org/10.1038/s41559-016-0026
Valente, L., Illera, J.C., Havenstein, K., Pallien, T., Etienne, R.S., & Tiedemann, R. (2017). Equilibrium Bird Species Diversity in Atlantic Islands. Current Biology, 27(11), 1660-1666. https://doi.org/10.1016/j.cub.2017.04.053
Valente, L., Phillimore, A.B., & Etienne, R.S. (2018). Using molecular phylogenies in island biogeography: It’s about time. Ecography, 1–3. http://doi.org/10.1111/ecog.03503
Valente, L., Etienne, R.S., & Garcia-R., J.C. (2019). “Deep Macroevolutionary Impact of Humans on New Zealand’s Unique Avifauna.” Current Biology 29 (15): 2563-2569.e4. https://doi.org/10.1016/j.cub.2019.06.058
Valente, L., Phillimore, A.B., Melo, M., Warren, B.H., Clegg, S.M., Havenstein, K., Tiedemann, R., Illera, J.C.,, Thebaud, C., Aschenbach, T. & Etienne, R.S. (2020). “A Simple Dynamic Model Explains the Diversity of Island Birds Worldwide.” Nature 579 (7797): 92–96. https://doi.org/10.1038/s41586-020-2022-5
Hauffe, T., Delicado, D., Etienne, R.S., & Valente, L. (2020). Lake expansion elevates equilibrium diversity via increasing colonization. Journal of Biogeography 47: 1849–1860. https://doi.org/10.1111/jbi.13914