rdiversity (version 2.3.0)

inddiv: Calculate individual-level diversity

Description

Generic function for calculating individual-level diversity.

Usage

inddiv(data, qs)
# S4 method for powermean
inddiv(data, qs)
# S4 method for relativeentropy
inddiv(data, qs)
# S4 method for metacommunity
inddiv(data, qs)

Value

inddiv() returns a standard output of class rdiv

Arguments

data

matrix of mode numeric; containing diversity components

qs

vector of mode numeric containing q values

Details

data may be input as three different classes:

• power_mean: calculates raw and normalised subcommunity alpha, rho or gamma diversity by taking the powermean of diversity components

• relativeentropy: calculates raw or normalised subcommunity beta diversity by taking the relative entropy of diversity components

• metacommunity: calculates all subcommunity measures of diversity

References

Reeve, R., T. Leinster, C. Cobbold, J. Thompson, N. Brummitt, S. Mitchell, and L. Matthews. 2016. How to partition diversity. arXiv 1404.6520v3:1–9.

See Also

subdiv for subcommunity-level diversity and metadiv for metacommunity-level diversity.

Examples

# Define metacommunity
pop <- cbind.data.frame(A = c(1, 1), B = c(2, 0), C = c(3, 1))
row.names(pop) <- paste0("sp", 1:2)
pop <- pop / sum(pop)
meta <- metacommunity(pop)

# Calculate subcommunity gamma diversity (takes the power mean)
g <- raw_gamma(meta)
inddiv(g, 0:2)

# Calculate subcommunity beta diversity (takes the relative entropy)
b <- raw_beta(meta)
inddiv(b, 0:2)

# Calculate all measures of individual diversity
inddiv(meta, 0:2)