Species' range model metadata standards: RMMS

作者: Cory Merow , Brian S. Maitner , Hannah L. Owens , Jamie M. Kass , Brian J. Enquist

DOI: 10.1111/GEB.12993

关键词:

摘要: AIM: The geographic range and ecological niche of species are widely used concepts in ecology, evolution conservation many modelling approaches have been developed to quantify each. Niche distribution methods require a litany design choices; differences among subdisciplines created communication barriers that increase isolation scientific advances. As result, understanding reproducing the work others is difficult, if not impossible. It often challenging evaluate whether model has built appropriately for its intended application or subsequent reuse. Here, we propose standardized metadata framework enables researchers understand decisions while making models fully citable reproducible. Such reproducibility critical both policy reports, international standardization better comparison between different scenarios research groups. INNOVATION: Range (RMMS) address three challenges: they (a) designed convenience encourage use, (b) accommodate wide variety applications, (c) extensible allow community steer them as needed. RMMS based on dictionary specifies hierarchical structure catalogue aspects process. balances constrained, minimalist vocabulary improve with flexibility users modify extend. To facilitate an R package, rangeModelMetaData, build templates, automatically fill values from common objects, check inconsistencies standards, suggest values. MAIN CONCLUSIONS: Modelling Metadata tools foster cross‐disciplinary advances biogeography, allied disciplines by improving evaluation, sharing, searching, comparisons studies. Our initially proposed standards here be modified extended evolve trends needs.

参考文章(31)
Gurutzeta Guillera-Arroita, José J. Lahoz-Monfort, Jane Elith, Ascelin Gordon, Heini Kujala, Pia E. Lentini, Michael A. McCarthy, Reid Tingley, Brendan A. Wintle, Is my species distribution model fit for purpose? Matching data and models to applications Global Ecology and Biogeography. ,vol. 24, pp. 276- 292 ,(2015) , 10.1111/GEB.12268
Matthew E Aiello‐Lammens, Robert A Boria, Aleksandar Radosavljevic, Bruno Vilela, Robert P Anderson, None, spThin: an R package for spatial thinning of species occurrence records for use in ecological niche models Ecography. ,vol. 38, pp. 541- 545 ,(2015) , 10.1111/ECOG.01132
Wilfried Thuiller, Bruno Lafourcade, Robin Engler, Miguel B. Araújo, BIOMOD – a platform for ensemble forecasting of species distributions Ecography. ,vol. 32, pp. 369- 373 ,(2009) , 10.1111/J.1600-0587.2008.05742.X
L. N. Joppa, G. McInerny, R. Harper, L. Salido, K. Takeda, K. O'Hara, D. Gavaghan, S. Emmott, Troubling Trends in Scientific Software Use Science. ,vol. 340, pp. 814- 815 ,(2013) , 10.1126/SCIENCE.1231535
David Warton, Geert Aarts, Advancing our thinking in presence‐only and used‐available analysis Journal of Animal Ecology. ,vol. 82, pp. 1125- 1134 ,(2013) , 10.1111/1365-2656.12071
Robert Muscarella, Peter J Galante, Mariano Soley‐Guardia, Robert A Boria, Jamie M Kass, María Uriarte, Robert P Anderson, None, ENMeval: An R package for conducting spatially independent evaluations and estimating optimal model complexity for Maxent ecological niche models Methods in Ecology and Evolution. ,vol. 5, pp. 1198- 1205 ,(2014) , 10.1111/2041-210X.12261
Chris F Taylor, Dawn Field, Susanna-Assunta Sansone, Jan Aerts, Rolf Apweiler, Michael Ashburner, Catherine A Ball, Pierre-Alain Binz, Molly Bogue, Tim Booth, Alvis Brazma, Ryan R Brinkman, Adam Michael Clark, Eric W Deutsch, Oliver Fiehn, Jennifer Fostel, Peter Ghazal, Frank Gibson, Tanya Gray, Graeme Grimes, John M Hancock, Nigel W Hardy, Henning Hermjakob, Randall K Julian, Matthew Kane, Carsten Kettner, Christopher Kinsinger, Eugene Kolker, Martin Kuiper, Nicolas Le Novère, Jim Leebens-Mack, Suzanna E Lewis, Phillip Lord, Ann-Marie Mallon, Nishanth Marthandan, Hiroshi Masuya, Ruth McNally, Alexander Mehrle, Norman Morrison, Sandra Orchard, John Quackenbush, James M Reecy, Donald G Robertson, Philippe Rocca-Serra, Henry Rodriguez, Heiko Rosenfelder, Javier Santoyo-Lopez, Richard H Scheuermann, Daniel Schober, Barry Smith, Jason Snape, Christian J Stoeckert, Keith Tipton, Peter Sterk, Andreas Untergasser, Jo Vandesompele, Stefan Wiemann, Promoting coherent minimum reporting guidelines for biological and biomedical investigations: the MIBBI project Nature Biotechnology. ,vol. 26, pp. 889- 896 ,(2008) , 10.1038/NBT.1411
Mariano Soley‐Guardia, Aleksandar Radosavljevic, Jhanine L Rivera, Robert P Anderson, None, The effect of spatially marginal localities in modelling species niches and distributions Journal of Biogeography. ,vol. 41, pp. 1390- 1401 ,(2014) , 10.1111/JBI.12297
M ARAUJO, M NEW, Ensemble forecasting of species distributions Trends in Ecology and Evolution. ,vol. 22, pp. 42- 47 ,(2007) , 10.1016/J.TREE.2006.09.010