Scientific modelling can be accessible, interoperable and user friendly: An example for pasture and livestock modelling
Abstract
This article describes the adaptation of a non-spatial model of pastureland dynamics, including vegetation life cycle, livestock management and nitrogen cycle, for use in a spatially explicit and modular modelling platform (k.LAB) dedicated to make data and models more interoperable. The aim is to deliver an existing, locally successful monolithic model, into a more modular, transparent and accessible approach to potential end users, regional managers, farmers and other stakeholders. This allows better usability and adaptability of the model beyond its originally intended geographical scope (the Cantabrian Region in the North of Spain). The original model, named Puerto, is developed in the R language and includes 1,491 lines of code divided into 13 script files and linked to 19 input tables. The spatiotemporal rewrite is structured around a set of 10 namespaces called PaL (Pasture and Livestock), which includes 198 interoperable but independent models. The end user chooses the spatial and temporal context of the analysis through an intuitive web-based user interface called k.Explorer. Each model can be called individually or in conjunction with the others, by querying any PaL-related concepts in a search bar. A scientific workflow is built as a response, which is run to produce result datasets and a report with information on the data sources and modelling processes used, delivering results with full transparency. We argue that this work demonstrates key steps needed to create more Findable, Accessible, Interoperable and Reusable (FAIR) models. This is particularly essential in environments as complex as agricultural systems, where multidisciplinary knowledge needs to be integrated across diverse spatial and temporal scales in order to understand complex and changing problems.
02 /Specification & Classification
Click any tag to browse matching papers- Research Focus
- Approach
Reproducibility ledger
Nobody has reported trying to reproduce this paper yet. Did you replicate an experiment or run the code? Your report saves the next lab a week.
Sign in to file a reproducibility report.
Related papers
- Pig herd management and infection transmission dynamics: a challenge for modellers.
V. Sicard, S. Picault, M. Andraud·Peer Community JournalPeer-reviewed·May 29, 2024
- modelRxiv: A platform for the dissemination and interactive display of models
K. D. Harris, G. Hadari, G. Greenbaum·bioRxiv·Feb 16, 2022
- Introducing Mouffet, a unified framework to make model creation easier and more reproducible
S. Christin, N. Lecomte·bioRxiv·Jul 6, 2022
- The Virtual Plant Laboratory: a modern plant modeling framework in Julia
Alejandro Morales, David B. Kottelenberg, … Jochem B. Evers·in silico PlantsPeer-reviewed·Jan 1, 2025
- Implementation of the Perfect Plasticity Approximation with biogeochemical compartments in R
A. Erickson, N. Strigul·EcographyPeer-reviewed·Feb 28, 2020
- Lactation curve model with explicit representation of perturbations as a phenotyping tool for dairy livestock precision farming
A. Ben Abdelkrim, L. Puillet, … O. Martin·bioRxiv·Aug 27, 2019