Cluster capture‐recapture to account for identification uncertainty on aerial surveys of animal populations

Capture-recapture methods for estimating wildlife population sizes almost always require their users to identify every detected animal. Many modern-day wildlife surveys detect animals without physical capture-visual detection by cameras is one such example. However, for every pair of detections, the surveyor faces a decision that is often fraught with uncertainty: are they linked to the same individual? An inability to resolve every such decision to a high degree of certainty prevents the use of standard capture-recapture methods, impeding the estimation of animal density. Here, we develop an estimator for aerial surveys, on which two planes or unmanned vehicles (drones) fly a transect over the survey region, detecting individuals via high-definition cameras. Identities remain unknown, so one cannot discern if two detections match to the same animal; however, detections in close proximity are more likely to match. By modeling detection locations as a clustered point process, we extend recently developed methodology and propose a precise and computationally efficient estimator of animal density that does not require individual identification. We illustrate the method with an aerial survey of porpoise, on which cameras detect individuals at the surface of the sea, and we need to take account of the fact that they are not always at the surface.

[1]  J. Neyman,et al.  A theory of the spatial distribution of galaxies , 1952 .

[2]  William A Link,et al.  Uncovering a Latent Multinomial: Analysis of Mark–Recapture Data with Misidentification , 2010, Biometrics.

[3]  Matthew R. Schofield,et al.  Incorporating Genotype Uncertainty into Mark–Recapture‐Type Models For Estimating Abundance Using DNA Samples , 2009, Biometrics.

[4]  Phil Lovell,et al.  USING AIRCRAFT IN TANDEM FORMATION TO ESTIMATE ABUNDANCE OF HARBOUR PORPOISE , 1998 .

[5]  J. Andrew Royle,et al.  Spatially explicit models for inference about density in unmarked or partially marked populations , 2011, 1112.3250.

[6]  David R. Anderson,et al.  Statistical inference from capture data on closed animal populations , 1980 .

[7]  R. Waagepetersen An Estimating Function Approach to Inference for Inhomogeneous Neyman–Scott Processes , 2007, Biometrics.

[8]  Murray G. Efford,et al.  Bird population density estimated from acoustic signals , 2009 .

[9]  Virgilio Gómez-Rubio,et al.  Spatial Point Patterns: Methodology and Applications with R , 2016 .

[10]  David L. Borchers,et al.  Trace-Contrast Models for Capture–Recapture Without Capture Histories , 2016 .

[11]  David L. Borchers,et al.  Cetacean abundance and distribution in European Atlantic shelf waters to inform conservation and management , 2013 .

[12]  Ben Stevenson,et al.  palm: Fitting point process models via the Palm likelihood , 2017 .

[13]  Per Berggren,et al.  Diving behaviour of harbour porpoises, Phocoena phocoena , 1995 .

[14]  Yongtao Guan,et al.  A Composite Likelihood Approach in Fitting Spatial Point Process Models , 2006 .

[15]  Dietrich Stoyan,et al.  Parameter Estimation and Model Selection for Neyman‐Scott Point Processes , 2008, Biometrical journal. Biometrische Zeitschrift.

[16]  M. Baudin Likelihood and nearest-neighbor distance properties of multidimensional Poisson cluster processes , 1981 .

[17]  Murray G Efford,et al.  Estimation of population density by spatially explicit capture-recapture analysis of data from area searches. , 2011, Ecology.

[18]  S. Buckland Introduction to distance sampling : estimating abundance of biological populations , 2001 .

[19]  Brett T. McClintock,et al.  Estimating multispecies abundance using automated detection systems: ice‐associated seals in the Bering Sea , 2014 .

[20]  J. Andrew Royle,et al.  Spatial Capture-Recapture , 2013 .

[21]  G. Seber,et al.  The estimation of animal abundance and related parameters , 1974 .

[22]  E. B. Jensen,et al.  Asymptotic Palm likelihood theory for stationary point processes , 2013 .

[23]  D L Borchers,et al.  Spatially Explicit Maximum Likelihood Methods for Capture–Recapture Studies , 2008, Biometrics.

[24]  David L. Borchers,et al.  Continuous‐time spatially explicit capture–recapture models, with an application to a jaguar camera‐trap survey , 2014 .

[25]  David L. Borchers,et al.  Abundance of harbour porpoise and other cetaceans in the North Sea and adjacent waters , 2002 .

[26]  Marie Auger-Méthé,et al.  Accounting for matching uncertainty in two stage capture–recapture experiments using photographic measurements of natural marks , 2013, Environmental and Ecological Statistics.