Package: phyloraster 2.3.0

phyloraster: Evolutionary Diversity Metrics for Raster Data

Phylogenetic Diversity (PD, Faith 1992), Evolutionary Distinctiveness (ED, Isaac et al. 2007), Phylogenetic Endemism (PE, Rosauer et al. 2009; Laffan et al. 2016), and Weighted Endemism (WE, Laffan et al. 2016) for presence-absence raster. Faith, D. P. (1992) <doi:10.1016/0006-3207(92)91201-3> Isaac, N. J. et al. (2007) <doi:10.1371/journal.pone.0000296> Laffan, S. W. et al. (2016) <doi:10.1111/2041-210X.12513> Rosauer, D. et al. (2009) <doi:10.1111/j.1365-294X.2009.04311.x>.

Authors:Gabriela Alves-Ferreira [aut, cre, cph], Flávio M. M. Mota [aut], Neander Marcel Heming [aut]

# Install 'phyloraster' in R:

install.packages('phyloraster', repos = c('https://gabferreira.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

On CRAN:

Last updated from:0cff977007. Checks:9 OK. Indexed: yes.

Target	Result	Time
linux-devel	OK	169
source / vignettes	OK	225
linux-release	OK	180
macos-release	OK	200
macos-oldrel	OK	195
windows-devel	OK	114
windows-release	OK	84
windows-oldrel	OK	112
wasm-release	OK	145

Last update: 2026-02-10
Started: 2023-06-14

Help page	Topics
Check for missing arguments in function call	arg.check
Classify Phylogenetic Endemism using rasters	canape.rast
Presence-absence of 33 Australian tree frogs (Rosauer 2017)	dataR
Delta of Diversity Metrics	delta.grid
Transform a data.frame to raster	df2rast
Calculate phylogenetic community metrics for raster data	geo.phylo
Calculate phylogenetic community metrics and their standardized effect sizes for raster data	geo.phylo.ses
Calculate the inverse of range size	inv.range
Load an example dataset with presence-absence data of 33 tree frogs and a phylogenetic tree for this species	load.data.rosauer
Prepare rasters and phylogenetic tree to run community metrics	phylo.pres
Calculate range size for a set of species using a raster as input	range_size
Calculate Evolutionary distinctiveness for raster data	rast.ed
Standardized effect size for Evolutionary distinctiveness	rast.ed.ses
Calculate phylogenetic diversity for raster data	rast.pd
Standardized effect size for Phylogenetic diversity	rast.pd.ses
Calculate phylogenetic endemism for raster data	rast.pe
Standardized effect size for Phylogenetic endemism	rast.pe.ses
Calculate species richness for raster data	rast.sr
Calculate weighted endemism for raster data	rast.we
Calculate weighted endemism standardized for species richness	rast.we.ses
Rasterize shapefile	shp2rast
Calculate Evolutionary distinctiveness for each species	species.ed
Compute species tip length	species.tip.length
Compute tree edge lengths and node paths from root to each tip	tip.root.path