Extract a subset of sites or species from a bioregion.clusters object

This function extracts a subset of nodes according to its type (sites or species) from a bioregion.clusters object containing both types of nodes (sites and species).

Usage

site_species_subset(clusters, node_type = "site")

Arguments

clusters: an object of class bioregion.clusters.
node_type: a character indicating what types of nodes ("site" or "species") should be extracted (node_type = "site" by default).

Value

An object of class bioregion.clusters with a given node type (sites or species).

Note

The network clustering functions (prefix netclu_) may return both types of nodes (sites and species) when applied on bipartite networks (argument bipartite). In this case, the type of nodes returned in the output can be chosen with the argument return_node_type. This function allows to retrieve a particular type of nodes (sites or species) from the output and modify the return_node_type accordingly.

Author

Maxime Lenormand (maxime.lenormand@inrae.fr)
Pierre Denelle (pierre.denelle@gmail.com)
Boris Leroy (leroy.boris@gmail.com)

Examples

net <- data.frame(
  Site = c(rep("A", 2), rep("B", 3), rep("C", 2)),
  Species = c("a", "b", "a", "c", "d", "b", "d"),
  Weight = c(10, 100, 1, 20, 50, 10, 20)
)

clusters <- netclu_louvain(net, lang = "igraph", bipartite = TRUE)

clusters_sites <- site_species_subset(clusters, node_type = "site")