N‐SDM: a high‐performance computing pipeline for Nested Species Distribution Modelling

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Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_79EC6A21B8EC
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
N‐SDM: a high‐performance computing pipeline for Nested Species Distribution Modelling
Journal
Ecography
Author(s)
Adde Antoine, Rey Pierre-Louis, Brun Philipp, Külling Nathan, Fopp Fabian, Altermatt Florian, Broennimann Olivier, Lehmann Anthony, Petitpierre Blaise, Zimmermann Niklaus E., Pellissier Loïc, Guisan Antoine
ISSN
0906-7590
1600-0587
Publication state
Published
Issued date
2023
Peer-reviewed
Oui
Volume
2023
Number
6
Pages
e06540
Language
english
Abstract
Predicting contemporary and future species distributions is relevant for science and decision making, yet the development of high-resolution spatial predictions for numerous taxonomic groups and regions is limited by the scalability of available modelling tools. Uniting species distribution modelling (SDM) techniques into one high-performance computing (HPC) pipeline, we developed N-SDM, an SDM platform aimed at delivering reproducible outputs for standard biodiversity assessments. N-SDM was built around a spatially-nested framework, intended at facilitating the combined use of species occurrence data retrieved from multiple sources and at various spatial scales. N-SDM allows combining two models fitted with species and covariate data retrieved from global to regional scales, which is useful for addressing the issue of spatial niche truncation. The set of state-of-the-art SDM features embodied in N-SDM includes a newly devised covariate selection procedure, five modelling algorithms, an algorithm-specific hyperparameter grid search, and the ensemble of small-models approach. N-SDM is designed to be run on HPC environments, allowing the parallel processing of thousands of species at the same time. All the information required for installing and running N-SDM is openly available on the GitHub repository https://github.com/N-SDM/N-SDM.
Open Access
Yes
Create date
25/04/2023 9:40
Last modification date
09/08/2023 6:56
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