Package index • SpeciesPoolR

All functions

Clean_Taxa(): Clean taxa using Taxize and rgbif

Clean_Taxa_Taxize(): Clean taxa using Taxize

Clean_Taxa_rgbif(): Clean Taxa from GBIF

Convex_20(): Convex_20

Generate_Lookup(): Generate a Lookup Table for Species Land-Use Preferences

GetLandusePresences(): Get Landuse Presences

GetOccs(): Get occurrence data

ModelAndPredictFunc(): Model and Predict Habitat Suitability

ModelSpecies(): Fit a Species Distribution Model Based on Land-Use Data

Richness_PD: Species Richness and Phylogenetic Diversity Data

Richness_Rar: Species Richness and Rarity Data

SampleLanduse(): Sample Land-Use Data for Species Presences or Background Locations

calc_pd(): Calculate Phylogenetic Diversity

calc_rarity(): Calculate the Index of Relative Rarity for Species Assemblages

calc_rarity_weight(): Calculate Rarity Weights for Species

count_presences(): Count Presences of Species within a Specified Area

create_thresholds(): Create Prediction Thresholds for Species Distribution Models

export_final_presences(): Export Final Species Presences to CSV Files

export_pd(): Export Phylogenetic Diversity to Cloud-Optimized GeoTIFF

export_rarity(): Export Rarity to Cloud-Optimized GeoTIFF

export_richness(): Export Species Richness to Cloud-Optimized GeoTIFF

generate_landuse_table(): Generate a Land-Use Suitability Table

generate_long_landuse_table(): Generate and Transform a Land-Use Suitability Table

generate_tree(): Generate Phylogenetic Tree

get_data(): Read in Data from a CSV or XLSX File

get_presences(): Get Occurrence Data for a Given Species List

make_buffer_rasterized(): Generate a Rasterized Buffer Around Species Occurrences and Convert to Long Format

make_final_presences(): Filter Species Presences by Habitat Suitability

run_workflow(): Run the SpeciesPoolR Workflow

write_cog(): Write Cloud Optimized Geotiff (COG)