1000 islands in DAISIE format simulated with the ML parameters of the CR model for the Galapagos data
Source:R/DAISIE_data.R
islands_1type_1000reps.RdEach 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)
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.