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The ZOON R package for reproducible and shareable species distribution modelling

Golding, Nick; August, Tom A.; Lucas, Tim C.D.; Gavaghan, David J.; van Loon, E. Emiel; McInerny, Greg. 2018 The ZOON R package for reproducible and shareable species distribution modelling. Methods in Ecology and Evolution, 9 (2). 260-268. https://doi.org/10.1111/2041-210X.12858

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Abstract/Summary

1. The rapid growth of species distribution modelling (SDM) as an ecological discipline has resulted in a large and diverse set of methods and software for constructing and evaluating SDMs. The disjointed nature of the current SDM research environment hinders evaluation of new methods, synthesis of current knowledge and the dissemination of new methods to SDM users. 2. The zoon r package aims to overcome these problems by providing a modular framework for constructing reproducible SDM workflows. zoon modules are interoperable snippets of r code, each carrying a SDM method that zoon combines into a single analysis object. 3. Rather than defining these modules, zoon draws modules from an open, version-controlled online repository. zoon makes it easy for SDM researchers to contribute modules to this repository, enabling others to rapidly deploy new methods in their own workflows or to compare alternative methods. 4. Each workflow object created by zoon is a rerunnable record of the data, code and results of an entire SDM analysis. This can then be easily shared, scrutinised, reproduced and extended by the whole SDM research community. 5. We explain how zoon works and demonstrate how it can be used to construct a completely reproducible SDM analyses, create and share a new module, and perform a methodological comparison study.

Item Type: Publication - Article
Digital Object Identifier (DOI): https://doi.org/10.1111/2041-210X.12858
UKCEH and CEH Sections/Science Areas: Biodiversity (Science Area 2017-)
ISSN: 2041-210X
Additional Keywords: modelling, population ecology, software, species distribution modelling, zoon
NORA Subject Terms: Ecology and Environment
Data and Information
Date made live: 01 Dec 2017 10:44 +0 (UTC)
URI: http://nora.nerc.ac.uk/id/eprint/518562

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