Biodiversity Assessment Tools
Phylogenetic/functional uniqueness of species.
Simulation of species spatial distributions.
Simulation of phylogenetic or functional tree.
Slope of accumulation curves.
Standardize variables.
Build functional tree.
Quality of tree.
Convert negative branches of tree.
Species-area relationship (SAR).
Standard Effect Size.
Plots of simulated species spatial distributions.
Simulation of species abundance distributions (SAD).
Simulation of sampling from artificial communities.
Scaled mean squared error of accumulation curves.
Akaike Information Criterion.
Alpha diversity accumulation curves (observed and estimated).
Alpha diversity estimates.
Alpha diversity (Taxon, Phylogenetic or Functional Diversity - TD, PD,...
Beta diversity accumulation curves.
Beta diversity evenness (Taxon, Phylogenetic or Functional Diversity -...
Beta diversity among multiple communities.
Beta diversity (Taxon, Phylogenetic or Functional Diversity - TD, PD, ...
Contribution of species or individuals to total phylogenetic/functiona...
Coverage of datasets.
Community Weighted Dispersion.
Community Weighted Evenness.
Community Weighted Mean.
Phylogenetic/functional dispersion of species or individuals.
Dummify variables.
Contribution of each species or individual to the total taxonomic/phyl...
Taxonomic/phylogenetic/functional evenness of species or individuals.
Filling missing data.
Gamma diversity (Taxon, Phylogenetic or Functional Diversity - TD, PD,...
General dynamic model of oceanic island biogeography (GDM).
Gower distance.
Hill numbers.
Alpha diversity using convex hull hypervolumes.
Beta diversity partitioning using convex hull hypervolumes.
Build convex hull hypervolumes.
Contribution of each observation to a convex hull hypervolume.
Gamma diversity using convex hull hypervolumes.
Species-abundance distribution (SAD) using convex hulls.
Build hyperspace.
Quality of hyperspace.
Interspecific abundance-occupancy relationship (IAOR).
Alpha diversity using kernel density hypervolumes.
Functional beta diversity evenness using kernel density hypervolumes.
Beta diversity partitioning using kernel density hypervolumes.
Build kernel hypervolumes.
Contribution of each observation to the kernel density hypervolume.
Functional dispersion of kernel density hypervolumes.
Contribution of each observation to the evenness of a kernel density h...
Functional evenness of kernel density hypervolumes.
Gamma diversity using kernel density hypervolumes.
Hotspots in hypervolumes.
Functional originality of observations in kernel density hypervolumes.
Species-abundance distribution (SAD) using kernel density hypervolumes...
Pairwise similarity among kernel density hypervolumes.
Create Linnean tree.
Mixture model.
Optimization of alpha diversity sampling protocols.
Efficiency statistics for alpha-sampling.
Optimization of beta diversity sampling protocols.
Efficiency statistics for beta-sampling.
Optimization of spatial sampling.
Phylogenetic/functional originality of species or individuals.
Model R2.
Rao quadratic entropy.
Maps of alpha diversity (Taxon, Phylogenetic or Functional Diversity -...
Maps of beta diversity (Taxon, Phylogenetic or Functional Diversity - ...
Maps of phylogenetic/functional dispersion of species or individuals.
Maps of phylogenetic/functional evenness of species or individuals.
Species-abundance distribution (SAD).
Includes algorithms to assess alpha and beta diversity in all their dimensions (taxonomic, phylogenetic and functional). It allows performing a number of analyses based on species identities/abundances, phylogenetic/functional distances, trees, convex-hulls or kernel density n-dimensional hypervolumes depicting species relationships. Cardoso et al. (2015) <doi:10.1111/2041-210X.12310>.