Achieving higher standards in species distribution modeling by leveraging the diversity of available software
Por:
Kass J.M., Smith A.B., Warren D.L., Vignali S., Schmitt S., Aiello-Lammens M.E., Arlé E., Márcia Barbosa A., Broennimann O., Cobos M.E., Guéguen M., Guisan A., Merow C., Naimi B., Nobis M.P., Ondo I., Osorio-Olvera L., Owens H.L., Pinilla-Buitrago G.E., Sánchez-Tapia A., Thuiller W., Valavi R., Velazco S.J.E., Zizka A., Zurell D.
Publicada:
1 ene 2025
Ahead of Print:
1 nov 2024
Resumen:
The increasing online availability of biodiversity data and advances in ecological modeling have led to a proliferation of open-source modeling tools. In particular, R packages for species distribution modeling continue to multiply without guidance on how they can be employed together, resulting in high fidelity of researchers to one or several packages. Here, we assess the wide variety of software for species distribution models (SDMs) and highlight how packages can work together to diversify and expand analyses in each step of a modeling workflow. We also introduce the new R package ‘sdmverse' to catalog metadata for packages, cluster them based on their methodological functions, and visualize their relationships. To demonstrate how pluralism of software use helps improve SDM workflows, we provide three extensive and fully documented analyses that utilize tools for modeling and visualization from multiple packages, then score these tutorials according to recent methodological standards. We end by identifying gaps in the capabilities of current tools and highlighting outstanding challenges in the development of software for SDMs. © 2024 The Author(s). Ecography published by John Wiley & Sons Ltd on behalf of Nordic Society Oikos.
Filiaciones:
Macroecology Laboratory, Graduate School of Life Sciences, Tohoku University, Miyagi, Sendai, Japan
Biodiversity and Biocomplexity Unit, Okinawa Institute of Science and Technology Graduate University, Okinawa, Onna, Japan
Missouri Botanical Garden, Saint Louis, MO, United States
Environmental Science and Informatics Section, Okinawa Institute of Science and Technology Graduate University, Okinawa, Onna, Japan
Gulbali Institute, Charles Sturt University, Albury, NSW, Australia
Division of Conservation Biology, Institute of Ecology and Evolution, University of Bern, Bern, Switzerland
CIRAD, UPR Forêts et Sociétés, Montpellier, France
Forêts et Sociétés, Univ Montpellier, CIRAD, Montpellier, France
Department of Environmental Studies and Science, Pace University, Pleasantville, NY, United States
School of Zoology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv, Israel
Macroecology and Society, German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig, Leipzig, Germany
Research Centre for Geospatial Sciences (CICGE), Porto University, Alameda do Monte da Virgem, Vila Nova de Gaia, Portugal
Department of Ecology and Evolution and Institute of Earth Surface Dynamics, University of Lausanne, Lausanne, Switzerland
Department of Ecology and Evolutionary Biology and Biodiversity Institute, University of Kansas, Lawrence, KS, United States
Univ. Grenoble Alpes, Univ. Savoie Mont Blanc, CNRS, LECA, Laboratoire d'Ecologie Alpine, Grenoble, France
Eversource Energy Center and Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT, United States
Quantitative Biodiversity Dynamics (QBD), Department of Biology, University of Utrecht, Utrecht, Netherlands
Swiss Federal Research Institute WSL, Birmensdorf, Switzerland
Royal Botanic Gardens, Richmond, Kew, United Kingdom
United Nations Environment Programme World Conservation Monitoring Centre (UNEP-WCMC), Cambridge, United Kingdom
Laboratorio de Ecoinformática de la Biodiversidad, Departamento de Ecología de la Biodiversidad, Instituto de Ecología, Unidad Mérida, Yucatán, Universidad Nacional Autónoma de México, Ciudad de México, Mexico
Laboratorio Nacional Conahcyt de Biología del Cambio Climático, CONAHCyT, Ciudad de México, Mexico
Center for Global Mountain Biodiversity, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
Florida Museum of Natural History, University of Florida, Gainesville, FL, United States
PhD Program in Biology, The Graduate Center and Department of Biology, City College of New York, City University of New York, New York, NY, United States
Instituto de Pesquisas Jardim Botânico do Rio de Janeiro, RJ, Rio de Janeiro, Brazil
CSIRO Environment, Clayton South, VIC, Australia
Instituto de Biología Subtropical, Consejo Nacional de Investigaciones Científicas y Técnicas, Universidad Nacional de Misiones, Puerto Iguazú, Misiones, Argentina
Department of Geography, San Diego State University, San Diego, CA, United States
Biodiversity of Plants Lab, Department of Biology, Philipps-University Marburg, Marburg, Germany
Institute for Biochemistry and Biology, University of Potsdam, Potsdam, Germany
gold, All Open Access; Gold Open Access
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