metacommunity-class: metacommunity-class

Description

Container for class metacommunity.

Usage

# S4 method for metacommunity
show(object)

Arguments

object

object of class metacommunity

Fields

type_abundance: two-dimensional matrix of mode numeric with rows as types, columns as subcommunities, and elements containing relative abundances of types in subcommunities. In the phylogenetic case, this corresponds to the proportional abundance of historic species, which is calculated from the proportional abundance of present day species.

similarity

two-dimensional matrix of mode numeric with rows as types, columns as types, and elements containing pairwise similarities between types

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; contains 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

raw_abundance

[Phylogenetic] two-dimensional matrix of mode numeric with rows as types, columns as subcommunities, and elements containing the relative abundance of present day species

raw_structure

[Phylogenetic] two-dimensional matrix of mode numeric with rows as historical species, columns as present day species, and elements containing historical species lengths within lineages

parameters

[Phylogenetic] tibble containing parameters associated with each historic species in the phylogeny