Measurement of Biodiversity
A now obsolete function that used to calculate sample based and group ...
Generate a null community matrix
Number of individuals corresponding to a desired coverage (inverse C_h...
Construct spatially constrained sample-based rarefaction (sSBR) curve ...
Create the 'mob_in' object.
Compute average nearest neighbor distance
Calculate beta diversity from sites by species table.
Calculate the recommended target coverage value for the computation of...
Estimation of species richness
Calculate biodiversity statistics from sites by species table.
Compute various diversity indices from a vector of species abundances ...
Calculate probability of interspecific encounter (PIE)
Calculate species richness for a given coverage level.
Calculate S_PIE
Calculate expected sample coverage C_hat
Compare all sample-based curves (random, spatially constrained-k-NN, s...
Conduct the MoB tests on drivers of biodiversity across scales.
Measurement of Biodiversity in R
Plot distributions of species abundance
Plot alpha-, beta-, and gamma-scale biodiversity statistics for a MoB ...
Plot the relationship between the number of plots and the number of in...
Plot rarefaction curves for each treatment group
Plot the multiscale MoB analysis output generated by get_delta_stats...
Obsolete function that used to plot alpha- and gamma-scale biodiversit...
Rarefied Species Richness
Subset the rows of the mob data input object
Functions for calculating metrics for the measurement biodiversity and its changes across scales, treatments, and gradients. The methods implemented in this package are described in: Chase, J.M., et al. (2018) <doi:10.1111/ele.13151>, McGlinn, D.J., et al. (2019) <doi:10.1111/2041-210X.13102>, McGlinn, D.J., et al. (2020) <doi:10.1101/851717>, and McGlinn, D.J., et al. (2023) <doi:10.1101/2023.09.19.558467>.