Diversity Dynamics using Fossil Sampling Data
Environmental affinities of taxa
Sampling statistics and diversity indices in every bin
Mapping multiple entries to categories
Cleanse Species Name Vector
Determination and omission of consecutive duplicates in a vector.
Time series from metrics of diversity dynamics
FAD - LAD matrix from occurrence data
Filling of missing values in a vector, based on the marginal values of...
Estimation of geographic ranges from occurrence data
Scalar indices of diversity
Match the dates of a time-dependent variable with a predefined vector
Origination/extinction response table for statistical modelling.
Omission of taxa that have a poor occurrence record
Plot time series counts or proportions as polygons
Plotting ranges and occurrence distributions through time
Test of rate split (selectivity)
Replicate matching and merging
Quantile plot of time series
List of singleton taxa
Discretization of continuous time dimension - slicing
Utility functions for slicing gappy time series
Subsampling wrapper function
Subsampling trial functions
Occurrence database summary
Proportions of survivorship
Apply function to TAxon/BIN subset of occurrences and iterATE
Function to plot a series a values with bars that have variable widths
Time series plotting using a custom time scale
Functions to describe sampling and diversity dynamics of fossil occurrence datasets (e.g. from the Paleobiology Database). The package includes methods to calculate range- and occurrence-based metrics of taxonomic richness, extinction and origination rates, along with traditional sampling measures. A powerful subsampling tool is also included that implements frequently used sampling standardization methods in a multiple bin-framework. The plotting of time series and the occurrence data can be simplified by the functions incorporated in the package, as well as other calculations, such as environmental affinities and extinction selectivity testing. Details can be found in: Kocsis, A.T.; Reddin, C.J.; Alroy, J. and Kiessling, W. (2019) <doi:10.1101/423780>.