Dataset and analyses of global reptile bioregions

Dataset and scripts used to run the analyses of global reptile bioregions and the comparison among regionalisations of different vertebrate grooups. The dataset contains the following files: - "Reptile distribution & phylogeny.Rdata": Rdata file containing four objects. 1) "comm": matrix of reptile species presence in 200 x 200 km cells across the globe; 2) "coo": coordinate of centroids of the 200 x 200 km cells; 3) "tree": phylogeny for the 9016 reptile species included in this study; 4) "coastline": global coastline used to refine the output of analyses of raster data. Species ranges were retreived from an updated version (1.5) of the "Global Assessment of Reptile Distributions" [Roll, U. et al. The global distribution of tetrapods reveals a need for targeted reptile conservation. Nat. Ecol. Evol. 1, 1677–1682 (2017)]. Phylogenetic data were retrieved from an inference-based phylogenetic tree [Tonini, J. F. R., Beard, K. H., Ferreira, R. B., Jetz, W. & Pyron, R. A. Fully-sampled phylogenies of squamates reveal evolutionary patterns in threat status. Biol. Conserv. 204, 23–31 (2016)]. - "Defining global reptile bioregions.R": script used to define global reptile bioregions. It includes a modified version of the "phylo.beta.pair()" function (R package "betapart"), that avoids the need of huge amount of RAM and allows a more efficient calculation of philogenetic beta diversity by identifying duplicate communities and running calculations in parallel. To run, this script needs "Reptile distribution & phylogeny.Rdata". - "Bioregions.zip": Bioregions of the different vertebrate groups compared in the current work (reptile, amphibians, birds, mammals) in shapefile format. For each group, we provide two shapefiles, showing realms and regions. - "Random regions example.R": Script of example to test the significance of V-measure values through null-models. The example is performed on shallow regions, but the same script can be applied to any regionalisation. To run, this script needs "Bioregions.zip" to be extracted in the working directory.