Datasets and R scripts

~~~~~Datasets

Dataset_S1.csv: Distribution of species diversity in plant and vertebrate clades. Total clade level diversity and species diversity in tropical moist forests (TMF) across the Neotropics, Indomalaya and Afrotropics. Pantropical clades are found in all three TMF regions with at least one-third of the clades’ total diversity spread throughout these regions. Pantropical diversity disparity (PDD) clades show lower diversity in TMF in the Afrotropics than in the Neotropics and Indomalaya.

Dataset_S2.csv: Environmental and species richness data across 110 km x 110 km grid cells in Neotropical, Indomalayan and Afrotropical moist forest sites. Variables include x and y coordinates in the Behrmann equal area coordinate reference system, potential evapotranspiration (PET), mean annual temperature (MAT), mean annual precipitation (MAP), amphibian, mammal, bird and squamate reptile species richness and biogeographic region, as well as the first two principal components of a principal component analysis on PET, MAT and MAP (PC1, PC2).

Dataset_S3.csv: Global reconstructed paleo-temperature estimates and spatial coordinates across 200 million years at 170,000 year intervals at 2 degree spatial resolution.

Dataset_S4.csv: Gen3sis model parameters and biodiversity summary statistics. Summary statistics include the number of extant species, the number of extinct species, the total number of species, the number of species within the tropical moist forest biome boundaries in the Neotropics, the Afrotropics and Indomalaya, the pantropical index, and the pantropical disparity index, as well as the running time-step and diversity of unfinished simulations.

Dataset_S5.csv: Net relatedness index (NRI) values for vertebrate clades showing an observed disparity in pantropical diversity in the Neotropical, Indomalayan and Afrotropical moist forest regions and associated P-values. Positive values indicate phylogenetic clustering, whereas negative values indicate phylogenetic overdispersion.

~~~~~Scripts

Script_1 - GLS.R. R script to replicate the linear modelling analyses.

Script_2 - Gen3sis_config_template.R. R script to generate the configurations files to run the simulation experiment.

Script_3 - Gen3sis_config_creator.R. R script to generate the configurations files to run the simulation experiment.