An R package for spatial extinction date estimation

Don't use!

Hi folks! Version 2 is on the way. I wouldn't use version 1 except for underlying code (e.g. Solow & Beet model is fine, just not spatial models). Email if you have any questions: [email protected]


Please use the following citation for the package:

Carlson CJ, Burgio KR, Dallas TA, & Bond AL. (2018) Spatial extinction date estimation: a novel method for reconstructing spatiotemporal patterns of extinction and identifying potential zones of rediscovery. bioRxiv 279679; doi:


Package maintained by:

Colin Carlson* (National Socio-Environmental Synthesis Center, University of Maryland, Annapolis, Maryland 21401, USA.)

Additional contributors:

Kevin Burgio (Department of Ecology and Evolutionary Biology; University of Connecticut; Storrs, CT 06268, USA.)

Tad Dallas (Department of Environmental Science and Policy; University of California Davis; Davis, CA 95616, USA.)

Alexander Bond (Bird Group, Department of Life Sciences, The Natural History Museum, Akeman Street, Tring, Hertfordshire, HP23 6AP, United Kingdom.)

*Contact at [email protected] for inquiries

Special thanks to A. Beet for the original Matlab code used in Solow and Beet (2014), and to A. Butler (Biomathematics and Statistics Scotland) for translating the Matlab code into R.

version 1.0.0 - Bachman's Warbler

The spatExtinct package is an in-development package that interpolates extinction date estimators, which utilize sighting data, into gridded spatially-explicit results.

The method is largely imprecise, and sensitive to the scale of analysis. spatExtinct was developed to spatially interpolate sighting-based methods for extinction date estimation. The method has two primary purposes: reconstructing the spatial pattern of an extinction after the fact, and identifying potential areas of persistence for species that might not be extinct. spatExtinct supports parallelization, includes multiple extinction date estimators, and can be easily adapted and scaled for desired extensions or modifications.

Installing the package

Install directly from Github:

knitr::opts_chunk$set(echo = FALSE)

# If you don't have devtools:
# install.packages("devtools")

# Load the package


cjcarlson/spatExtinct documentation built on Aug. 29, 2018, 10:31 p.m.