DAISIE_plot_island: Plot colonisation and branching time of species found on an...

In rsetienne/DAISIE: Dynamical Assembly of Islands by Speciation, Immigration and Extinction

Plot colonisation and branching time of species found on an island dataset.

Description

Produces an image with the times of colonisation, branching times, clade name and clade status for all clades found in a given dataset.

Usage

DAISIE_plot_island(island, island_age = NA)

Arguments

island	Island data object. Can be in DAISIE list format (see Galapagos_datalist and DAISIE_data_prep for examples) or in table format (see Galapagos_datatable for an example).
island_age	Age of island in appropriate units. In DAISIE_plot_age_diversity() and DAISIE_plot_island() if island input is in table format, the age of the island must be specified. If island input is in DAISIE list format, this option will override the island age specified in the island list.

Details

R plot showing for each clade in the island object: time of colonisation, branching times, species status (endemic or non-endemic), total number of species in clade (n), number of species not sampled (m).

Value

R plot.

Author(s)

Luis Valente

References

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_cr, DAISIE_sim_time_dep, DAISIE_sim_cr_shift, DAISIE_plot_age_diversity

Examples

### Plot Galapagos islands dataset from data table (specify island age)

utils::data(Galapagos_datatable)
DAISIE_plot_island(Galapagos_datatable, island_age=4)

### Plot Galapagos islands dataset from datalist (no need to specify
## island age)
utils::data(Galapagos_datalist)
DAISIE_plot_island(Galapagos_datalist)

rsetienne/DAISIE documentation built on Oct. 25, 2023, 4:32 a.m.