bipartiteD3 (version 0.3.2)

List2DF: Convert bipartite-style list of matrices to dataframe

Description

List2DF returns a data frame in the format internally required for bipartiteD3 where the first two columns list the interacting species, and subsequent columns list the link strengths in each site.

Usage

List2DF(
  List,
  PrimaryLab = "Primary",
  SecondaryLab = "Secondary",
  SiteNames = NULL
)

Value

A data.frame where the first column is the primary interactor, the second the secondary interactor and subsequent named columns detail the link strengths

Arguments

List

An list of bipartite format matrices

PrimaryLab

Label for the primary level of the bipartite web, e.g. 'Plants'

SecondaryLab

Label for the secondary level of the bipartite web, e.g. 'Pollinators'

SiteNames

Vector of names for the different sites (list elements). By default takes names of input matrices if they exist.

Details

List2DF expects an list of multiple bipartite webs as may be created by the frame2webs(type.out='list') function in bipartite. This structure includes row and column names to indicate the species, and a named third dimension giving the names of each of the sites

Note a list of this format can be passed directly to bipartite_D3 since it will test for an list and apply List2DF() anyway.

Examples

if (FALSE)  testdata <- data.frame(higher = c("bee1","bee1","bee1","bee2","bee1","bee3"),
lower = c("plant1","plant2","plant1","plant2","plant3","plant4"),
webID = c("meadow","meadow","meadow","meadow","bog","bog"), freq=c(5,9,1,2,3,7))
bipartite::frame2webs(testdata, type.out = 'list')-> SmallTestWeb

List2DF(SmallTestWeb)