GTS2020_scale: GTS2020_scale

In jf15558/FAU.JFS: What the Package Does (One Line, Title Case)

Description

Convenience function to apply GTS2020 chronostratigraphy to fossil datasets. The function relies on a lookup table generated based on the named intervals in the PBDB in early 2021. First and last interval names in the supplied dataset are matched against this lookup table, itself available using 'get("GTS2020)", to get GTS2020 numeric ages. If the dataset contains intervals which are not present in the lookup table, they will not be matched and the user will be warned. To get around this possibility, the user can also supply the original numeric ages which will be used as default ages if an interval cannot be matched, to ensure that the returned vectors of numeric ages do not contain NAs.

Usage

GTS2020_scale(
  x,
  srt = "early_interval",
  end = "late_interval",
  max_ma = NULL,
  min_ma = NULL,
  verbose = TRUE
)

Arguments

x	A data.frame containing, minimally two columns corresponding respectively to the first and last intervals of the data. Missing values in the second column will be infilled using the corresponding value in the second column following PBDB formatting where only the first interval column is recorded when a datapoint lies solely within that interval.
srt	A character of length 1 specifing the column name of the first interval field in x
end	A character of length 1 specifing the column name of the last interval field in x
max_ma	If not NULL, a character of length 1 specifing the column name of the original numeric maximum age field in x, to be used as fall back values if interval names cannot all be matched
min_ma	If not NULL, a character of length 1 specifing the column name of the original numeric minimum age field in x, to be used as fall back values if interval names cannot all be matched
verbose	A logical indicating if warning messages should be displayed or otherwise

Value

The dataframe, x, with two additional columns containing the revised first and last numeric ages of the data, with column names GTS_FAD and GTS_LAD respectively

jf15558/FAU.JFS documentation built on Jan. 21, 2022, 6:52 a.m.