PRESENCE - Estimates patch occupancy rates and related parameters. This work is in collaboration with Darryl MacKenzie, and is largely funded by the Amphibian Research and Monitoring Initiative (ARMI). Contact Darryl if you would like to learn more about this project.

Current Version: 2.13.43


book cover image MacKenzie, D. I., J. D. Nichols, J. A. Royle, K. H. Pollock, L.L. Bailey, and J. E. Hines. 2018. Occupancy Estimation and Modeling - Inferring Patterns and Dynamics of Species Occurrence. 2nd Edition. Elsevier Publishing.
ecology image MacKenzie, D. I., J. D. Nichols, G. B. Lachman, S. Droege, J. A. Royle and C. A. Langtimm. 2002. Estimating site occupancy rates when detection probabilities are less than one. Ecology 83(8): 2248-2255 ecology image MacKenzie, D. I., J. D. Nichols, J. E. Hines, M. G. Knutson and A. B. Franklin. 2003. Estimating site occupancy, colonization and local extinction probabilities when a species is detected imperfectly. Ecology 84(8) 2200-2207.
ecological Applications image Bailey, L. L., J.D. Nichols and J.E. Hines. 2007. Exploring Sampling Design Trade-Offs In Occupancy Studies With imperfect detection: examples and software. Ecological Applications, 17(1). pp. 281-290. methods in ecology and evolution image Guillera-Arroita, G. and J.J. Lahoz-Monfort. 2012. Designing studies to detect differences in species occupancy: power analysis under imperfect detection. Methods in Ecology and Evolution 2012, 3, 860-869.



Current Version: 2.13.43
PRESENCE (includes GenPres)
PRESENCE (includes GenPres, no install/setup program)

Installing RPresence

To install RPresence, type the following in the R console:
install.packages('RPresence', repo='')

Recent Modifications

Ver 13.43 (26Oct2022) - add derived parms for 2sp model
Ver 13.35 (06May2022) - fix output when constraints are specifiedIn RPresence, del beta cols in DM all=0
Ver 13.27 (18Mar2022) - In RPresence, del beta cols in DM all=0
Ver 13.20 (20Jan2022) - cleaned up unnecessary files in setup file
Ver 13.19 (11Jan2022) - added derived parm output to 2sp model

PRESENCE workshops

Information about upcoming workshops on the use of Occupancy modeling using PRESENCE can be found at: