Compute individual species coexistence based on reach criteria

Usage

IndivSpec_reach_richness(
  df.TS.TE,
  df.occ,
  time.slice,
  round.digits = 1,
  species = "species",
  TS = "TS",
  TE = "TE",
  Max.age = "Max.age",
  Min.age = "Min.age",
  lat = "lat",
  lon = "lng"
)

Arguments

df.TS.TE: a data frame object containing at least three columns. Species names, origination time and extinction time for each species.
df.occ: a data frame object containing the occurrence records for each species. This must have at least a column indicating the name of species, its minimum and maximum age estimate, and its site location ID.
time.slice: scalar indicating the time interval between consecutive time slices.
round.digits: scalar indicating the number of digits for time of origination and time for extinction.
species: character indicating the name of the column of the data frame containing the species name information.
TS: character indicating the name of the columns of the data frame containing the information on origination time.
TE: character indicating the name of the column of the data frame containing the information on extinction time.
Max.age: character indicating the name of the column containing the upper age limit for occurrence record.
Min.age: character indicating the name of the column containing the lower age limit for occurrence record.
lat: character indicating the name of the column containing the latitude of occurrence record in df.occ.
lon: character indicating the name of the column containing the longitude of occurrence record in df.occ.

Value

data frame containing the name of species, its mean coexistence value calculated by each time slice considering reach criteria of co-occurrence