The r package divDyn for quantifying diversity dynamics using fossil sampling data

Journal article


Publication Details

Author(s): Kocsis Á, Reddin CJ, Alroy J, Kießling W
Journal: Methods in Ecology and Evolution
Publication year: 2019
ISSN: 2041-210X


Abstract

Unbiased time series of diversity dynamics are vital for quantifying the grand history of life. Applications include identifying ancient mass extinctions and inferring both biotic and abiotic controls on diversification rates. We introduce divDyn, a new r package that facilitates the calculation of taxonomic richness, extinction and origination rates from time-binned fossil data. State-of-the-art counting protocols, and sampling standardization functions permit the reconstruction of biologically meaningful time series. Additional functions permit the partitioning of turnover rates by environmental affinity. Using divDyn, we display Phanerozoic-scale diversity dynamics of marine invertebrates. With the help of the core function and standard subsampling options, we revisit the hypothesis of declining taxonomic rates over time, mass extinctions and equilibrial diversity dynamics and assess their methodological dependency. Our results suggest that rates declined only over the early Phanerozoic, only three mass extinctions stand out clearly, and evidence of equilibrial dynamics is dependent on the used methods. The modular and fast implementation of published methods ensures traceability, reproducibility and comparability of future studies.


FAU Authors / FAU Editors

Kießling, Wolfgang Prof. Dr.
Lehrstuhl für Paläoumwelt
Kocsis, Ádám Dr.
Lehrstuhl für Paläoumwelt
Reddin, Carl James
Lehrstuhl für Paläoumwelt


External institutions with authors

Macquarie University


How to cite

APA:
Kocsis, Á., Reddin, C.J., Alroy, J., & Kießling, W. (2019). The r package divDyn for quantifying diversity dynamics using fossil sampling data. Methods in Ecology and Evolution. https://dx.doi.org/10.1111/2041-210X.13161

MLA:
Kocsis, Ádám, et al. "The r package divDyn for quantifying diversity dynamics using fossil sampling data." Methods in Ecology and Evolution (2019).

BibTeX: 

Last updated on 2019-13-05 at 09:17