demo_data: Demo datasets

In TGuillerme/dispRity: Measuring Disparity

Demo datasets

Description

A set six trait spaces with different groups and different dimensions.

Details

The content of these datasets and the pipeline to build them is described in details in Guillerme et al 2020.

• beck A palaeobiology study of mammals. The data is a 105 dimensions ordination (PCO) of the distances between 106 mammals based on discrete morphological characters.

• wright A palaeobiology study of crinoids. The data is a 41 dimensions ordination (PCO) of the distances between 42 crinoids based on discrete morphological characters.

• marcy A geometric morphometric study of gophers (rodents). The data is a 134 dimensions ordination (PCA) the Procrustes superimposition of landmarks from 454 gopher skulls.

• hopkins A geometric morphometric study of trilobites. The data is a 134 dimensions ordination (PCA) the Procrustes superimposition of landmarks from 46 trilobites cephala.

• jones An ecological landscape study. The data is a 47 dimensions ordination (PCO) of the Jaccard distances between 48 field sites based on species composition.

• healy A life history analysis of the pace of life in animals. The data is a 6 dimensions ordination (PCA) of 6 life history traits from 285 animal species.

Source

\Sexpr[results=rd]{tools:::Rd_expr_doi("https://doi.org/10.1002/ece3.6452")}

References

Guillerme T, Puttick MN, Marcy AE, Weisbecker V. 2020 Shifting spaces: Which disparity or dissimilarity measurement best summarize occupancy in multidimensional spaces?. Ecol Evol. 2020;00:1-16. (doi:10.1002/ece3.6452)

Beck, R. M., & Lee, M. S. (2014). Ancient dates or accelerated rates? Morphological clocks and the antiquity of placental mammals. Proceedings of the Royal Society B: Biological Sciences, 281(1793), 20141278.

Wright, D. F. (2017). Bayesian estimation of fossil phylogenies and the evolution of early to middle Paleozoic crinoids (Echinodermata). Journal of Paleontology, 91(4), 799-814.

Marcy, A. E., Hadly, E. A., Sherratt, E., Garland, K., & Weisbecker, V. (2016). Getting a head in hard soils: convergent skull evolution and divergent allometric patterns explain shape variation in a highly diverse genus of pocket gophers (Thomomys). BMC evolutionary biology, 16(1), 207.

Hopkins, M.J. and Pearson, J.K., 2016. Non-linear ontogenetic shape change in Cryptolithus tesselatus (Trilobita) using three-dimensional geometric morphometrics. Palaeontologia Electronica, 19(3), pp.1-54.

Jones, N. T., Germain, R. M., Grainger, T. N., Hall, A. M., Baldwin, L., & Gilbert, B. (2015). Dispersal mode mediates the effect of patch size and patch connectivity on metacommunity diversity. Journal of Ecology, 103(4), 935-944.

Healy, K., Ezard, T.H., Jones, O.R., Salguero-Gomez, R. and Buckley, Y.M., 2019. Animal life history is shaped by the pace of life and the distribution of age-specific mortality and reproduction. Nature ecology & evolution, p.1.

Examples

data(demo_data)

## Loading the Beck and Lee 2014 demo data
demo_data$beck

## Loading the Wright 2017 demo data
demo_data$wright

## Loading the Marcy et al. 2015 demo data
demo_data$marcy

## Loading the Hopkins and Pearson 2016 demo data
demo_data$hopkins

## Loading the Jones et al. 2015 demo data
demo_data$jones

## Loading the Healy et al. 2019 demo data
demo_data$healy

TGuillerme/dispRity documentation built on Dec. 21, 2024, 4:05 a.m.