phyloraster2.2.0 package

Evolutionary Diversity Metrics for Raster Data

arg.check

Check for missing arguments in function call

canape.rast

Classify Phylogenetic Endemism using rasters

delta.grid

Delta of Diversity Metrics

df2rast

Transform a data.frame to raster

dot-end.type

Classify Phylogenetic Endemism using rasters

dot-fit.memory

Evaluate if the rasters generated in the function fits on available me...

dot-rast.ed.B

Calculate Evolutionary distinctiveness for each raster cell

dot-rast.geo.phylo

Calculate phylogenetic community metrics for raster data

dot-rast.pd.B

Calculate phylogenetic diversity for each raster cell

dot-rast.pe.B

Calculate phylogenetic endemism for a raster

dot-rast.we.B

Calculate weighted endemism for each raster cell

geo.phylo

Calculate phylogenetic community metrics for raster data

geo.phylo.ses

Calculate phylogenetic community metrics and their standardized effect...

inv.range

Calculate the inverse of range size

load.data.rosauer

Load an example dataset with presence-absence data of 33 tree frogs an...

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

Standardized effect size for Evolutionary distinctiveness

rast.pd

Calculate phylogenetic diversity for raster data

rast.pd.ses

Standardized effect size for Phylogenetic diversity

rast.pe

Calculate phylogenetic endemism for raster data

rast.pe.ses

Standardized effect size for Phylogenetic endemism

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

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>.

  • Maintainer: Gabriela Alves-Ferreira
  • License: GPL (>= 3)
  • Last published: 2025-02-28