R Code and Output Supporting "Accounting for individual-specific variation in habitat-selection studies: Efficient estimation of mixed-effects models using Bayesian or frequentist computation"
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Title
R Code and Output Supporting "Accounting for individual-specific variation in habitat-selection studies: Efficient estimation of mixed-effects models using Bayesian or frequentist computation"
Published Date
2019-07-22
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Fieberg, John R
Jfieberg@umn.edu
Jfieberg@umn.edu
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Abstract
This repository contains data and R code (along with associated output from running the code) for fitting resource-selection functions and step-selection functions with random effects, supporting all results reported in:
Muff, S., Signer, J. and Fieberg, J., 2018. Accounting for individual-specific variation in habitat-selection studies: Efficient estimation of mixed-effects models using Bayesian or frequentist computation. bioRxiv, p.411801.
Description
See readme.txt for a description of the files in this repository.
Referenced by
Muff, S., Signer, J. and Fieberg, J., 2018. Accounting for individual-specific variation in habitat-selection studies: Efficient estimation of mixed-effects models using Bayesian or frequentist computation. bioRxiv, p.411801.
LaPoint, S., Gallery, P., Wikelski, M. & Kays, R. (2013). Animal behavior, cost-based corridor models, and real corridors. Landscape Ecology, 28, 1615-1630
Lele, S.R., Keim, J L., and P. Solymos (2017). ResourceSelection: Resource Selection (Probability) Functions for Use-Availability Data. R package version 0.3-2. https://CRAN.R-project.org/package=ResourceSelection
Weinberger, I. C., S. Muff, A. Kranz, and F. Bontadina (2016). Flexible habitat selection paves the way for a recovery of otter populations in the European Alps. Biological Conservation 199, 88-95.
LaPoint, S., Gallery, P., Wikelski, M. & Kays, R. (2013). Animal behavior, cost-based corridor models, and real corridors. Landscape Ecology, 28, 1615-1630
Lele, S.R., Keim, J L., and P. Solymos (2017). ResourceSelection: Resource Selection (Probability) Functions for Use-Availability Data. R package version 0.3-2. https://CRAN.R-project.org/package=ResourceSelection
Weinberger, I. C., S. Muff, A. Kranz, and F. Bontadina (2016). Flexible habitat selection paves the way for a recovery of otter populations in the European Alps. Biological Conservation 199, 88-95.
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The current version replaces version 1:
https://hdl.handle.net/11299/204737.1
https://hdl.handle.net/11299/204737.1
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Suggested citation
Muff, Stefanie; Signer, Johannes; Fieberg, John R. (2019). R Code and Output Supporting "Accounting for individual-specific variation in habitat-selection studies: Efficient estimation of mixed-effects models using Bayesian or frequentist computation". Retrieved from the Data Repository for the University of Minnesota (DRUM), https://doi.org/10.13020/8bhv-dz98.
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readme.txt
Description of files
(6.93 KB)
d_otter.csv
Otter data
(1.27 MB)
fisher_data.csv
Fisher data
(918.79 KB)
Goats_RSF.R
R code for fitting RSFs to goat data
(6.14 KB)
Goats_RSF.html
Output from running Goats_RSF.R
(735.67 KB)
Otters_SSF.r
R code for fitting RSFs to otter data
(9.96 KB)
Otters_SSF.html
Output from running Otters_SSF.R
(640.36 KB)
inla_emarginal.R
Function called in Otters_SSF.R
(673 B)
inla_mmarginal.R
Function called in Otters_SSF.R
(653 B)
fisher_rsf_and_ssf.R
R code for fitting RSFs and SSFs to fisher data
(10.57 KB)
fisher_rsf_and_ssf.html
Output from running fisher_rsf_and_ssf.R
(743.26 KB)
fisher_ssf_stan.R
(2.33 KB)
fisher_ssf_stan.html
(918.7 KB)
landuse_study_area.tif
Landcover data used in fisher_rsf_and_ssf.R
(1.92 MB)
ssf_simulations_v17.R
Code for conducting simulations
(10.13 KB)
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