Function reference

All functions

arg.check()

Check for missing arguments in function call

dataR

Presence-absence of 33 Australian tree frogs (Rosauer 2017)

delta.grid()

Delta of Diversity Metrics

df2rast()

Transform a data.frame to raster

geo.phylo()

Calculate phylogenetic community metrics for raster data

geo.phylo.ses()

Calculate phylogenetic community metrics and their standardized effect sizes for raster data

inv.range()

Calculate the inverse of range size

load.data.rosauer()

Load an example dataset with presence-absence data of 33 tree frogs and a phylogenetic tree for this species

phylo.pres()

Prepare rasters and phylogenetic tree to run community metrics

range_size()

Calculate range size for a set of species using a raster as input

rast.ed()

Calculate Evolutionary distinctiveness for raster data

rast.ed.ses()

Evolutionary distinctiveness standardized for specie richness

rast.pd()

Calculate phylogenetic diversity for raster data

rast.pd.ses()

Phylogenetic diversity standardized for species richness

rast.pe()

Calculate phylogenetic endemism for raster data

rast.pe.ses()

Phylogenetic endemism standardized for specie richness

rast.sr()

Calculate species richness for raster data

rast.we()

Calculate weighted endemism for raster data

rast.we.ses()

Calculate weighted endemism standardized for species richness

shp2rast()

Rasterize shapefile

species.ed()

Calculate Evolutionary distinctiveness for each species

species.tip.length()

Compute species tip length

tip.root.path()

Compute tree edge lengths and node paths from root to each tip