Extracts an island clade based on the ancestral state reconstruction of the species presence on the island, therefore this clade can contain non-endemic species as well as endemic species.
Source:R/extract_asr_clade.R
extract_asr_clade.RdExtracts an island clade based on the ancestral state reconstruction of the species presence on the island, therefore this clade can contain non-endemic species as well as endemic species.
Arguments
- phylod
A
phylo4dobject from the packagephylobasecontaining phylogenetic and endemicity data for each species.- species_label
The tip label of the species of interest.
- clade
A numeric vector which the indices of the species which are in the island clade.
- include_not_present
A boolean determining whether species not present on the island should be included in island colonist when embedded within an island clade. Default is FALSE.