get_calibrations_vector: Search and extract secondary calibrations for a given...

In phylotastic/datelife: Scientific Data on Time of Lineage Divergence for Your Taxa

Search and extract secondary calibrations for a given character vector of taxon names

Description

The function searches DateLife's local database of phylogenetic trees with branch lengths proportional to time (chronograms) with datelife_search(), and extracts available node ages for each pair of given taxon names with extract_calibrations_phylo().

Usage

get_calibrations_vector(input = NULL, each = FALSE)

Arguments

input	A character vector of taxon names.
each	Boolean, default to FALSE: all calibrations are returned in the same data.frame. If TRUE, calibrations from each chronogram are returned in separate data frames.

Details

The function calls datelife_search() with summary_format = "phylo_all" to get all chronograms in the database containing at least two taxa in input, and generates a phylo or multiPhylo object object that will be passed to extract_calibrations_phylo().

Value

An object of class calibrations, which is a data.frame (if each = FALSE) or a list of data.frames (if each = TRUE) of node ages for each pair of taxon names. You can access the input data from which the calibrations were extracted with attributes(output)$chronograms.

phylotastic/datelife documentation built on Jan. 17, 2024, 11:10 p.m.