fossils: Fossils object

In rachelwarnock/fossilsim: Simulation of Fossil and Taxonomy Data

Fossils object

Description

Create a fossil record object. The input is taken to be a dataframe or list.

Usage

fossils(data = NULL, from.taxonomy = FALSE)

as.fossils(data, from.taxonomy = FALSE)

is.fossils(data)

Arguments

data	Dataframe or list of sampled fossils. See Details for the list of required fields. If NULL, the function creates an empty fossils object.
from.taxonomy	Boolean indicating whether the fossils were sampled using a taxonomy object, as opposed to a tree object. Default = FALSE.

Details

The fossil record object contains 4 fields for each fossil with the following information:

• sp the label of the corresponding species. This label matches the edge labels in the corresponding phylo object or the species labels in the corresponding taxonomy object if additional taxonomic information was provided

• edge the label of the sampled node or tip in the phylogeny, i.e the node at the end of the edge along which the fossil was sampled

• hmin the age of the fossil or the youngest bound of the time interval in which the fossil was sampled

• hmax the oldest bound of the time interval in which the fossil was sampled. This is equal to hmin if exact sampling times are known

rachelwarnock/fossilsim documentation built on April 22, 2024, 3:21 p.m.