Reorganization of seagrass communities in a changing climate

Reorganization of Seagrass Communities in a Changing Climate Authors: Barnabas H. Daru and Brianna M. Rock This repository contains the data and code for the research paper on Reorganization of Seagrass Communities in a Changing Climate by Daru and Rock. The folder is structured into two subfolders as follows: `DATA/INPUT`: Contains all the input data files, links to raw data download, and data table documentation for the project. `DATA/SCRIPTS`: Contains all the R scripts that were generated and used in this project. The full folder structure is as follows: \---DATA +---INPUT | +---1_phylogeny | | \---seagrass_tree.tre | +---2_seagrasses_polygons | | \---seagrasses.gpkg | +---3_vector_polygons | | \---worldmap | +---4_WDPA (world database of protected areas) | | \---WDPA_protected_areas.csv +---SCRIPTS | +---01_Geographic_map_name_resolution.R | +---02_plotting_species_range_change.R | +---02_resolving_phylogenetic_names.R | +---03_Calibration_area.R | +---04_SDM_present.R | +---05_SDM_future.R | +---06_PRESAB_change.R | +---07_Change_range size.R | +---08_plotting_species_phylo.R | +---09_geochange_alpha.R | +---10_geochange_beta.R | +---11_geochange_phylobeta.R | +---12_plotting_geochange_SR.R | +---13_plotting_geochange_WE.R | +---14_plotting_geochange_PD.R | +---15_plotting_geochange_PE.R | +---16_plotting_geochange_beta_SIM.R | +---17_plotting_geochange_phylobeta_SIM.R | +---18_phylosignal_seagrasses.R | +---19_Spatial_correlation_alpha.R | +---20_Spatial_correlation_beta.R | +---21_Percentage_change_range size.R | +---21_Spatial_correlation_phylobeta.R | +---22_plotting_violin_PD.R | +---22_plotting_violin_SR.R | +---23_plotting_violin_PE.R | +---24_plotting_violin_WE.R | +---25_plotting_violin_beta.R | +---26_plotting_violin_phylobeta.R | +---27_potential_hotspots_alpha.R | +---28_MPA_sr.R | +---29_Plotting_hotspot_coverage.R | +---30_MPA_pd.R | +---31_MPA_we.R | +---32_MPA_pe.R | +---33_MPA_beta.R | +---33_MPA_phylobeta.R | +---33_Plotting_hotspot_coverage_PD.R | +---33_Plotting_hotspot_coverage_SR.R | +---34_Plotting_hotspot_coverage_WE.R | +---35_Plotting_hotspot_coverage_PE.R | +---36_Plotting_hotspot_coverage_beta_differentiation.R | +---37_Plotting_hotspot_coverage_phylobeta_differentiation.R | +---38_MEOW_violin_beta.R | +---39_MEOW_violin_phylobeta.R | +---40_Priority_hotspots_SR.R | +---41_Priority_hotspots_PD.R | +---42_Priority_hotspots_WE.R | +---43_Priority_hotspots_PE.R | +---44_Priority_hotspots_beta.R | +---45_Priority_hotspots_phylobeta.R