islands_1type_1000reps: 1000 islands in DAISIE format simulated with the ML...

Description Usage Format Source See Also

Description

Each simulated dataset is an element of the list, which can be called using e.g.islands_1type_1000reps[[1]] Each of the island replicates is a list in itself. The first (e.g. islands_1type_1000reps[[x]][[1]]) element of that list has the following components:
$island_age - the island age
$not_present - the number of mainland lineages that are not present on the island
$stt_all - STT table for all species on the island (nI - number of non-endemic species; nA - number of anagenetic species, nC - number of cladogenetic species, present - number of independent colonisations present )

The subsequent elements of the list each contain information on a single colonist lineage on the island and has 3 components:
$branching_times - island age and stem age of the population/species in the case of Non-endemic, Non-endemic_MaxAge and Endemic anagenetic species. For cladogenetic species these should be island age and branching times of the radiation including the stem age of the radiation.
$stac - the status of the colonist
* Non_endemic_MaxAge: 1
* Endemic: 2
* Endemic&Non_Endemic: 3
* Non_endemic: 4
$missing_species - number of island species that were not sampled for particular clade (only applicable for endemic clades)

Usage

1

Format

A list with 1000 items.

Source

Valente, L.M., A.B. Phillimore and R.S. Etienne (2015). Equilibrium and non-equilibrium dynamics simultaneously operate in the Galapagos islands. Ecology Letters 18: 844-852.

See Also

DAISIE_sim, DAISIE_plot_sims


DAISIE documentation built on May 1, 2019, 8:06 p.m.