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blockCV: an R package for generating spatially or environmentally separated folds for k-fold cross-validation of species distribution models

View ORCID ProfileRoozbeh Valavi, View ORCID ProfileJane Elith, View ORCID ProfileJosé J. Lahoz-Monfort, View ORCID ProfileGurutzeta Guillera-Arroita
doi: https://doi.org/10.1101/357798
Roozbeh Valavi
1School of Biosciences, University of Melbourne, Parkville, Vic. 3010, Australia, Email: , Phone: +61 423 283 238
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  • For correspondence: rvalavi@student.unimelb.edu.au
Jane Elith
2School of Biosciences, University of Melbourne, Parkville, Vic. 3010, Australia, Email:
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José J. Lahoz-Monfort
3School of Biosciences, University of Melbourne, Parkville, Vic. 3010, Australia, Email:
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Gurutzeta Guillera-Arroita
4School of Biosciences, University of Melbourne, Parkville, Vic. 3010, Australia, Email:
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  • For correspondence: gurutzeta.guillera@unimelb.edu.au
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Summary

  1. When applied to structured data, conventional random cross-validation techniques can lead to underestimation of prediction error, and may result in inappropriate model selection.

  2. We present the R package blockCV, a new toolbox for cross-validation of species distribution modelling.

  3. The package can generate spatially or environmentally separated folds. It includes tools to measure spatial autocorrelation ranges in candidate covariates, providing the user with insights into the spatial structure in these data. It also offers interactive graphical capabilities for creating spatial blocks and exploring data folds.

  4. Package blockCV enables modellers to more easily implement a range of evaluation approaches. It will help the modelling community learn more about the impacts of evaluation approaches on our understanding of predictive performance of species distribution models.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted June 28, 2018.
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blockCV: an R package for generating spatially or environmentally separated folds for k-fold cross-validation of species distribution models
Roozbeh Valavi, Jane Elith, José J. Lahoz-Monfort, Gurutzeta Guillera-Arroita
bioRxiv 357798; doi: https://doi.org/10.1101/357798
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blockCV: an R package for generating spatially or environmentally separated folds for k-fold cross-validation of species distribution models
Roozbeh Valavi, Jane Elith, José J. Lahoz-Monfort, Gurutzeta Guillera-Arroita
bioRxiv 357798; doi: https://doi.org/10.1101/357798

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