relativeentropy-class: relativeentropy-class

Description

Container for class relativeentropy.

Arguments

Fields

results: data.frame containing rdiversity output

measure

object of class character naming the diversity measure being calculated

type_abundance

two-dimensional matrix of mode numeric with rows as types (species), columns as subcommunities, and each element containing the relative abundance of types in each subcommunity relative to the metacommunity as a whole. In the phylogenetic case, this corresponds to the proportional abundance of historical species, which is calculated from the proportional abundance of terminal taxa

ordinariness

two-dimensional matrix of mode numeric with rows as types, columns as subcommunities, and elements containing the ordinariness of types within subcommunities

subcommunity_weights

vector of mode numeric containing subcommunity weights

type_weights

two-dimensional matrix of mode numeric, with rows as types, columns as subcommunities, and elements containing weights of types within a subcommunity

dat_id

object of class character describing the class of distance / similarity being used, e.g. "naive", "taxonomic", and so on

similarity_components

list containing the components necessary to calculate similarity. This list is empty when precompute_dist = TRUE when calculating distance. When a pairwise distance matrix is too large and precompute_dist = FALSE, this list contains all the information required to calculate pairwise distance between types

similarity_parameters

list containing parameters associated with converting pairwise distances to similarities (the dist2sim() arguments)