Ancestral State per Assemblage

Usage

calc_ancestral_state(tree, ancestral.area, prefix = "N")

Arguments

tree: A newick phylogenetic tree object
ancestral.area: One column data frame. Lines are nodes the column are the biomes/region of occurrence for each ancestors. Can be obtained by using (get_node_range_BioGeoBEARS)
prefix: A single character string to be used to name nodes

Value

A data frame with assemblages in lines and nodes in columns. Each cell contains the ancestral area/Ecoregion of occurrence for each node and its respective species.

Author

Gabriel Nakamura gabriel.nakamura.souza@gmail.com

Examples

biogeo_toy <- data.frame(Ecoregion= c("A", "B", "C"))
ancestral_area_toy <- data.frame(state= c("ABC", "B", "C", "ABC"))
calc_ancestral_state(toy_treeEx, ancestral_area_toy)
#>    s1    s2    s3    s4    s5   
#> N6 "ABC" "ABC" "ABC" "ABC" "ABC"
#> N7 "B"   "B"   "B"   NA    NA   
#> N8 "C"   "C"   NA    NA    NA   
#> N9 NA    NA    NA    "ABC" "ABC"