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Data cleaning and preparing

Functions for cleaning and preparing occurrence or taxonomic data for downstream analyses.

tax_check()
Taxonomic spell check
phylo_check()
Check phylogeny tip names
tax_unique()
Filter occurrences to unique taxa
palaeorotate()
Palaeorotate fossil occurrences
look_up()
Look up geological intervals and assign geological stages
tax_expand_lat()
Generate pseudo-occurrences from latitudinal range data
tax_expand_time()
Generate pseudo-occurrences from temporal range data

Data binning

Functions for binning occurrence data.

bin_lat()
Assign fossil occurrences to latitudinal bins
bin_space()
Assign fossil occurrences to spatial bins
bin_time()
Assign fossil occurrences to time bins

Data summarisation

Functions to summarise occurrence-level data.

tax_range_space()
Calculate the geographic range of fossil taxa
tax_range_time()
Calculate the temporal range of fossil taxa

Data visualization

Functions to aid in the visualisation of data and analysis results.

axis_geo() axis_geo_phylo()
Add an axis with a geological timescale
tax_range_strat()
Generate a stratigraphic section plot

Auxiliary functions

Functions to support further functionality.

lat_bins() deprecated
Generate equal-width latitudinal bins
lat_bins_area()
Generate equal-area latitudinal bins
lat_bins_degrees()
Generate equal-width latitudinal bins
time_bins()
Generate time bins
group_apply()
Apply a function over grouping(s) of data

Built-in data

palaeoverse comes with a selection of built-in datasets that are used in examples to illustrate various use cases.

GTS2012
Geological Timescale 2012
GTS2020
Geological Timescale 2020
interval_key
Example dataset: Interval key for the look_up function
reefs
Example dataset: Phanerozoic reefs from the PaleoReefs Database
tetrapods
Example dataset: Early tetrapod data from the Paleobiology Database