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A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture

Spatial capture–recapture models (SCR) are used to estimate animal density and to investigate a range of problems in spatial ecology that cannot be addressed with traditional nonspatial methods. Bayesian approaches in particular offer tremendous flexibility for SCR modeling. Increasingly, SCR data a...

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Autores principales: Milleret, Cyril, Dupont, Pierre, Bonenfant, Christophe, Brøseth, Henrik, Flagstad, Øystein, Sutherland, Chris, Bischof, Richard
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342129/
https://www.ncbi.nlm.nih.gov/pubmed/30680119
http://dx.doi.org/10.1002/ece3.4751
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author Milleret, Cyril
Dupont, Pierre
Bonenfant, Christophe
Brøseth, Henrik
Flagstad, Øystein
Sutherland, Chris
Bischof, Richard
author_facet Milleret, Cyril
Dupont, Pierre
Bonenfant, Christophe
Brøseth, Henrik
Flagstad, Øystein
Sutherland, Chris
Bischof, Richard
author_sort Milleret, Cyril
collection PubMed
description Spatial capture–recapture models (SCR) are used to estimate animal density and to investigate a range of problems in spatial ecology that cannot be addressed with traditional nonspatial methods. Bayesian approaches in particular offer tremendous flexibility for SCR modeling. Increasingly, SCR data are being collected over very large spatial extents making analysis computational intensive, sometimes prohibitively so. To mitigate the computational burden of large‐scale SCR models, we developed an improved formulation of the Bayesian SCR model that uses local evaluation of the individual state‐space (LESS). Based on prior knowledge about a species’ home range size, we created square evaluation windows that restrict the spatial domain in which an individual's detection probability (detector window) and activity center location (AC window) are estimated. We used simulations and empirical data analyses to assess the performance and bias of SCR with LESS. LESS produced unbiased estimates of SCR parameters when the AC window width was ≥5σ (σ: the scale parameter of the half‐normal detection function), and when the detector window extended beyond the edge of the AC window by 2σ. Importantly, LESS considerably decreased the computation time needed for fitting SCR models. In our simulations, LESS increased the computation speed of SCR models up to 57‐fold. We demonstrate the power of this new approach by mapping the density of an elusive large carnivore—the wolverine (Gulo gulo)—with an unprecedented resolution and across the species’ entire range in Norway (> 200,000 km(2)). Our approach helps overcome a major computational obstacle to population and landscape‐level SCR analyses. The LESS implementation in a Bayesian framework makes the customization and fitting of SCR accessible for practitioners working at scales that are relevant for conservation and management.
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spelling pubmed-63421292019-01-24 A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture Milleret, Cyril Dupont, Pierre Bonenfant, Christophe Brøseth, Henrik Flagstad, Øystein Sutherland, Chris Bischof, Richard Ecol Evol Original Research Spatial capture–recapture models (SCR) are used to estimate animal density and to investigate a range of problems in spatial ecology that cannot be addressed with traditional nonspatial methods. Bayesian approaches in particular offer tremendous flexibility for SCR modeling. Increasingly, SCR data are being collected over very large spatial extents making analysis computational intensive, sometimes prohibitively so. To mitigate the computational burden of large‐scale SCR models, we developed an improved formulation of the Bayesian SCR model that uses local evaluation of the individual state‐space (LESS). Based on prior knowledge about a species’ home range size, we created square evaluation windows that restrict the spatial domain in which an individual's detection probability (detector window) and activity center location (AC window) are estimated. We used simulations and empirical data analyses to assess the performance and bias of SCR with LESS. LESS produced unbiased estimates of SCR parameters when the AC window width was ≥5σ (σ: the scale parameter of the half‐normal detection function), and when the detector window extended beyond the edge of the AC window by 2σ. Importantly, LESS considerably decreased the computation time needed for fitting SCR models. In our simulations, LESS increased the computation speed of SCR models up to 57‐fold. We demonstrate the power of this new approach by mapping the density of an elusive large carnivore—the wolverine (Gulo gulo)—with an unprecedented resolution and across the species’ entire range in Norway (> 200,000 km(2)). Our approach helps overcome a major computational obstacle to population and landscape‐level SCR analyses. The LESS implementation in a Bayesian framework makes the customization and fitting of SCR accessible for practitioners working at scales that are relevant for conservation and management. John Wiley and Sons Inc. 2018-12-18 /pmc/articles/PMC6342129/ /pubmed/30680119 http://dx.doi.org/10.1002/ece3.4751 Text en © 2018 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd. This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Research
Milleret, Cyril
Dupont, Pierre
Bonenfant, Christophe
Brøseth, Henrik
Flagstad, Øystein
Sutherland, Chris
Bischof, Richard
A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture
title A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture
title_full A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture
title_fullStr A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture
title_full_unstemmed A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture
title_short A local evaluation of the individual state‐space to scale up Bayesian spatial capture–recapture
title_sort local evaluation of the individual state‐space to scale up bayesian spatial capture–recapture
topic Original Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6342129/
https://www.ncbi.nlm.nih.gov/pubmed/30680119
http://dx.doi.org/10.1002/ece3.4751
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