DAISIE_format_GW: Formats guild-wide simulation output into standard DAISIE list output

Description

Formats guild-wide simulation output into standard DAISIE list output

Usage

DAISIE_format_GW(
  island_replicates,
  time,
  M,
  sample_freq,
  num_guilds,
  verbose = TRUE
)

Value

List with GW DAISIE simulation output

Arguments

island_replicates: List output from DAISIE_sim_core_cr(), DAISIE_sim_core_time_dep(), DAISIE_sim_core_cr_shift() or DAISIE_sim_min_type2() functions. Minimally, this must be a list that has as many elements as replicates. Each element must be a list with the elements island_age, not_present and stt_all. stt_all must be a data frame with the column names Time, nI, nA, nC and present.
time: Numeric defining the length of the simulation in time units. For example, if an island is known to be 4 million years old, setting time = 4 will simulate the entire life span of the island; setting time = 2 will stop the simulation at the mid-life of the island.
M: Numeric defining the size of mainland pool, i.e. the number of species that can potentially colonize the island.
sample_freq: Numeric specifing the number of units times should be divided by for plotting purposes. Larger values will lead to plots with higher resolution, but will also run slower.
num_guilds: The number of guilds on the mainland. The number of mainland species is divided by the number of guilds when divdepmodel = "GW"
verbose: A numeric vector of length 1, which in simulations and `DAISIEdataprep()` can be `1` or `0`, where `1` gives intermediate output should be printed. For ML functions a numeric determining if intermediate output should be printed. The default: `0` does not print, `1` prints the initial likelihood and the settings that were selected (which parameters are to be optimised, fixed or shifted), `2` prints the same as `1 and also the intermediate output of the parameters and loglikelihood, while `3` the same as `2` and prints intermediate progress during likelihood computation.