R Functions for downloading, cleaning, culling, or analyzing fossil data from the Paleobiology Database. Developed and maintained by Andrew Zaffos as part of the Paleobiology Database and Macrostrat Database tech development initiatives at the University of Wisconsin - Madison.
- RCurl dependency has been dropped thanks to changes in how base handles https
- rgdal has been replaced with sf
subsampleIndividuals()
Has been removed and can be replaced withvegan::rarefy()
subsampleEvenness()
Has been removed and can be replaced withSSDCS::sqs()
adaptiveBeta()
Has been removed. More thorough code can be found in the supplementary materials of the original paper
- Beta diversity functions now enforce a presence-absence matrix if provided an abundance matrix.
- Dropped several hard-coded data cleaning steps that removed NA's and hanging factors from various functions. This may introduce breaking changes to some scripts, but these sorts of cleaning decisions should be made expicitly by users rather than be implicit in these functions.
downloadPBDB()
now supports spaces in interval names - e.g.,"Early Triassic"