kuenm: an R package for detailed development of ecological niche models using Maxent
Cobos, M.E.; Peterson, A.T.; Barve, N.; Osorio-Olvera, L. (2019). kuenm: an R package for detailed development of ecological niche models using Maxent. PeerJ 7: e6281. https://dx.doi.org/10.7717/peerj.6281 In: PeerJ. PeerJ: Corte Madera & London. e-ISSN 2167-8359, more |   |
| Author keywords | Extrapolation risks, Model calibration, Model projections, Model selection, Species distribution models |
| Authors | | Top | Dataset | - Cobos, M.E.
- Peterson, A.T.
- Barve, N.
- Osorio-Olvera, L.
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| Abstract | BackgroundEcological niche modeling is a set of analytical tools with applications in diverse disciplines, yet creating these models rigorously is now a challenging task. The calibration phase of these models is critical, but despite recent attempts at providing tools for performing this step, adequate detail is still missing. Here, we present the kuenm R package, a new set of tools for performing detailed development of ecological niche models using the platform Maxent in a reproducible way. ResultsThis package takes advantage of the versatility of R and Maxent to enable detailed model calibration and selection, final model creation and evaluation, and extrapolation risk analysis. Best parameters for modeling are selected considering (1) statistical significance, (2) predictive power, and (3) model complexity. For final models, we enable multiple parameter sets and model transfers, making processing simpler. Users can also evaluate extrapolation risk in model transfers via mobility-oriented parity (MOP) metric. DiscussionUse of this package allows robust processes of model calibration, facilitating creation of final models based on model significance, performance, and simplicity. Model transfers to multiple scenarios, also facilitated in this package, significantly reduce time invested in performing these tasks. Finally, efficient assessments of strict-extrapolation risks in model transfers via the MOP and MESS metrics help to prevent overinterpretation in model outcomes.
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| Dataset | - Ramos, E., Sainz-Villegas, S., de la Hoz, C.F., Puente, A., Juanes, J.A. (2023) Species Distribution Models for invasive macroalgae. Integrated data products created under the European Marine Observation Data Network (EMODnet) Biology project Phase IV (EMFF/2019/1.3.1.9/Lot 6/SI2.837974), funded by the by the European Union under Regulation (EU) No 508/2014 of the European Parliament and of the Council of 15 May 2014 on the European Maritime and Fisheries Fund., more
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