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Abstract Quantitative evaluations to optimize complexity have become standard for avoiding overfitting of ecological niche models (ENMs) that estimate species’ potential geographic distributions.ENMevalwas the first R package to make such evaluations (often termed model tuning) widely accessible for the Maxent algorithm. It also provided multiple methods for partitioning occurrence data and reported various performance metrics.Requests by users, recent developments in the field, and needs for software compatibility led to a major redesign and expansion. We additionally conducted a literature review to investigate trends inENMevaluse (2015–2019).ENMeval2.0 has a new object‐oriented structure for adding other algorithms, enables customizing algorithmic settings and performance metrics, generates extensive metadata, implements a null‐model approach to quantify significance and effect sizes, and includes features to increase the breadth of analyses and visualizations. In our literature review, we found insufficient reporting of model performance and parameterization, heavy reliance on model selection with AICc and low utilization of spatial cross‐validation; we explain howENMeval2.0 can help address these issues.This redesigned and expanded version can promote progress in the field and improve the information available for decision‐making.
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geomorph v4.0 and gmShiny: Enhanced analytics and a new graphical interface for a comprehensive morphometric experience
Abstract Geometric morphometric (GM) tools are essential for meaningfully quantifying and understanding patterns of variation in complex traits like shape. In this field, the breadth of answerable questions has grown dramatically in recent years through the development of new analyses and increased computational efficiency.In this note, we describe the ways in whichgeomorph, a widely usedRpackage for quantifying and analysing GM data, has grown with the field.We presentgeomorph v4.0and describe the ways in which this version has dramatically improved upon previous versions. We also present a new graphical user interface for easy implementation,gmShiny.These contributions positiongeomorphto be the primary tool for GM analyses, particularly those employing a phylogenetic comparative approach.
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- PAR ID:
- 10360706
- Publisher / Repository:
- Wiley-Blackwell
- Date Published:
- Journal Name:
- Methods in Ecology and Evolution
- Volume:
- 12
- Issue:
- 12
- ISSN:
- 2041-210X
- Page Range / eLocation ID:
- p. 2355-2363
- Format(s):
- Medium: X
- Sponsoring Org:
- National Science Foundation
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