Ecological Archives E096-034-S2

Thierry Chambert, David A. W. Miller, and James D. Nichols. 2015. Modeling false positive detections in species occurrence data under different study designs. Ecology 96:332–339. http://dx.doi.org/10.1890/14-1507.1

R code of the simulation study presented in Appendix A.
Ecological Archives E096-034-S2.

Thierry Chambert
Department of Ecosystem Science and Management
Pennsylvania State University
12100 Beech Forest Road, G2
Laurel, MD 20708
E-mail: [email protected]

David A. W. Miller
Department of Ecosystem Science and Management
Pennsylvania State University
411 Forest Resources Building
University Park, PA 16802

James D. Nichols
Patuxent Wildlife Research Center
U.S. Geological Survey
12100 Beech Forest Road, G2
Laurel, MD 20708

ConvergenceIssues.r (MD5: c579e3efb69ab080a2263e919563c7a3)

SimulationStudy.r (MD5: 0389b50a5ef371d0e9e6957357656345)

The file SimulationStudy.r contains all the necessary code to run the simulation study in R. The different parmaters and variables are explained and defined in the script. The file ConvergenceIssues.r can be used as a demonstration of how, in presence of data from the Observation Confirmation Design, estimates from the Site Confirmation model do not always converge to the true (known) values. Convergence from the Observation Confirmation is much better. You can change the simulated ('true') values to assess how the convergence properties change.