make_true_and_sample_web function

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

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

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.

Returns

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.

Details

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

Examples

make_true_and_sample_web()