Package index • phylospatial

Data

phylospatial(): Create a spatial phylogenetic object

ps_simulate(): Simulate a toy spatial phylogenetic data set

moss(): Load California moss spatial phylogenetic data

Alpha diversity

ps_diversity(): Calculate spatial phylogenetic diversity and endemism metrics

ps_rand(): Null model randomization analysis of alpha diversity metrics

quantize(): Stratified randomization of community matrix

ps_canape(): Categorical Analysis of Neo- and Paleo-Endemism (CANAPE)

ps_canaper(): Binary randomization tests including CANAPE

clade_dist(): Pairwise distances among clades or nodes

Beta diversity

ps_dissim(): Quantitative phylogenetic dissimilarity

ps_add_dissim(): Add community dissimilarity data to a phylospatial object

ps_regions(): Cluster analysis to identify phylogenetic regions

ps_regions_eval(): Evaluate region numbers

ps_ordinate(): Community phylogenetic ordination

ps_rgb(): Map phylospatial data onto RGB color bands

Conservation prioritization

ps_prioritize(): Phylogenetic conservation prioritization

plot_lambda(): Plot alternative lambda values

benefit(): Calculate taxon conservation benefit

Utilities

plot(<phylospatial>): Plot a phylospatial object

ps_get_comm(): Get phylospatial community data

to_spatial(): Convert a site-by-variable matrix into a SpatRaster or sf object