make_true_and_sample_web: Make an artificial bipartite networks with some properties of...

In cassandRa: Finds Missing Links and Metric Confidence Intervals in Ecological Bipartite Networks

Make an artificial bipartite networks with some properties of ecological networks, then sample from it

Description

Core model adapted from: "Sampling bias is a challenge [...]: lessons from a quantitative nichemodel" by Jochen Frund, Kevin S. McCann and Neal M. Williams

Usage

make_true_and_sample_web(
  seed = NULL,
  specpar = 1,
  n_hosts = 10,
  n_wasps = 10,
  TargetTrueConn = 0.5,
  SampleObs = 1000,
  abun_mean = 5,
  abun_sdlog = 1,
  traitvsnested = 0.5,
  hosttrait_n = "two"
)

Arguments

seed	Random number generator seed, if specified.
specpar	Specialisation parameter, equal to 1/sd of the normal curve that defines the consumption range
n_hosts	Number of focal level species (e.g. hosts, flowers)
n_wasps	Number of non-focal level species (e.g. parasitic wasps, pollinators)
TargetTrueConn	Proportion of possible interactions to keep
SampleObs	Number of samples to draw
abun_mean	Mean abundance level (log scale).
abun_sdlog	Distributon of abundance level (SD log scale).
traitvsnested	The relative balance between the nestedness generator and the trait-based generator
hosttrait_n	Number of trait dimensions. Default 'two', uses two traits, with one dominant. 'single' and 'multi' retained from Frund et al.

Details

Abundances are assigned by generating abundances that match a log-normal distribution (but without introducing noise)

Value

A network list containing 'obs' a matrix of observations, 'TrueWeb' a matrix of the 'true'] drawn web, and number of other properties of these networks.

Examples

make_true_and_sample_web()

cassandRa documentation built on June 22, 2024, 10:21 a.m.