| MaxentVariableSelection-package {MaxentVariableSelection} | R Documentation |
Selecting the Best Set of Relevant Environmental Variables along with the Optimal Regularization Multiplier for Maxent Niche Modeling
Description
Complex niche models show low performance in identifying the most important range-limiting environmental variables and in transferring habitat suitability to novel environmental conditions (Warren and Seifert, 2011 <DOI:10.1890/10-1171.1>; Warren et al., 2014 <DOI:10.1111/ddi.12160>). This package helps to identify the most important set of uncorrelated variables and to fine-tune Maxent's regularization multiplier. In combination, this allows to constrain complexity and increase performance of Maxent niche models (assessed by information criteria, such as AICc (Akaike, 1974 <DOI:10.1109/TAC.1974.1100705>), and by the area under the receiver operating characteristic (AUC) (Fielding and Bell, 1997 <DOI:10.1017/S0376892997000088>). Users of this package should be familiar with Maxent niche modelling.
Details
| Package: | MaxentVariableSelection |
| Type: | Package |
| Version: | 1.0-3 |
| Date: | 2018-01-23 |
| Depends: | R (>= 3.1.2) |
| Imports: | ggplot2, raster |
| Suggests: | knitr, rmarkdown |
| VignetteBuilder: | knitr |
| License: | GPL (>= 2) |
| Literature: | Akaike H (1974) |
| A new look at the statistical model identification | |
| IEEE Transactions on Automatic Control 19:6 716--723. | |
| Fielding AH and Bell JF (1997) | |
| A review of methods for the assessment of prediction | |
| errors in conservation presence/absence models | |
| Environmental Conservation 24:1 38--49. | |
| Jimenez-Valverde A (2012) | |
| Insights into the area under the receiver operating characteristic curve | |
| (AUC) as a discrimination measure in species distribution modelling | |
| Global Ecology and Biogeography 21:4 498--507. | |
| Tyberghein L, Verbruggen H, Pauly K, Troupin C, Mineur F and De Clerck, O (2012) | |
| Bio-ORACLE: a global environmental dataset for marine species distribution modelling | |
| Global Ecology and Biogeography 21:2 272--281. | |
| Warren DL, Glor RE, and Turelli M (2010) | |
| ENMTools: a toolbox for comparative studies of environmental niche | |
| models | |
| Ecography 33:3 607--611. | |
| Warren DL and Seifert SN (2011) | |
| Ecological niche modeling in Maxent: the importance of model | |
| complexity and the performance of model selection criteria | |
| Ecological Applications 21:2 335--342. | |
Citation
To cite the package 'MaxentVariableSelection' in publications use:
Jueterbock A, Smolina I, Coyer JA and Hoarau, G (2016)
The fate of the Arctic seaweed Fucus distichus under climate change:
an ecological niche modelling approach
Ecology and Evolution 6(6), 1712-1724
Author(s)
Alexander Jueterbock
Maintainer: Alexander Jueterbock, <Alexander-Jueterbock@web.de>