Publications HAL de la collection AMAP

2024

Article dans une revue

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Beda Innocent Adji, Xiujuan Wang, Véronique Letort, Doffou Sélastique Akaffou, Sylvie-Annabel Sabatier, et al.. Stochastic modelling of development and biomass allocation: Computation applied to architecture of young mahogany trees (Khaya senegalensis Desr. A. Juss), a native African savannah emblematic agroforestry species. Computers and Electronics in Agriculture, 2024, 220, pp.108864. ⟨10.1016/j.compag.2024.108864⟩. ⟨hal-04560276⟩
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Rickarlos Bezandry, Mathilde Dupeyron, Laura Natalia Gonzalez-Garcia, Artemis Anest, Perla Hamon, et al.. The evolutionary history of three Baracoffea species from western Madagascar revealed by chloroplast and nuclear genomes. PLoS ONE, 2024, 19, ⟨10.1371/journal.pone.0296362⟩. ⟨hal-04448243⟩
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https://hal.inrae.fr/hal-04448243/file/journal.pone.0296362.pdf BibTex
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Sidy Sow, Yolande Senghor, Khardiatou Sadio, Rémi Vezy, Olivier Roupsard, et al.. Calibrating the STICS soil-crop model to explore the impact of agroforestry parklands on millet growth. Field Crops Research, 2024, 306, pp.109206. ⟨10.1016/j.fcr.2023.109206⟩. ⟨hal-04426468⟩
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Xiujuan Wang, Jing Hua, Mengzhen Kang, Haoyu Wang, Philippe de Reffye. Functional–Structural Plant Model “GreenLab”: A State-of-the-Art Review. Plant Phenomics, 2024, 6, ⟨10.34133/plantphenomics.0118⟩. ⟨hal-04522903⟩
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https://hal.inrae.fr/hal-04522903/file/Wang_etal_Plant_phenomics._2024_6_0118.pdf BibTex

2023

Article dans une revue

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Yélognissè Agbohessou, Claire Delon, Eric Mougin, Manuela Grippa, Torbern Tagesson, et al.. To what extent are greenhouse-gas emissions offset by trees in a Sahelian silvopastoral system?. Agricultural and Forest Meteorology, 2023, 343, ⟨10.1016/j.agrformet.2023.109780⟩. ⟨hal-04264171⟩
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https://hal.inrae.fr/hal-04264171/file/Agbohessou_etal_Agricultural_For-Meteo_2023_343.pdf BibTex
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Laëtitia Lemière, Marc Jaeger, Marie Gosme, Gérard Subsol. Combinatorial maps, a new framework to model agroforestry systems. Plant Phenomics, 2023, 5, pp.0120. ⟨10.34133/plantphenomics.0120⟩. ⟨hal-04344009⟩
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https://hal.inrae.fr/hal-04344009/file/plantphenomics.0120.pdf BibTex
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Houssem E M Triki, Fabienne Ribeyre, Fabrice Pinard, Marc Jaeger. Coupling Plant Growth Models and Pest and Disease Models: An Interaction Structure Proposal, MIMIC. Plant Phenomics, 2023, 5, pp.0077. ⟨10.34133/plantphenomics.0077⟩. ⟨hal-04218531⟩
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https://hal.inrae.fr/hal-04218531/file/Trikki_etal_plantphenomics_2023_5_0077_.pdf BibTex
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Rémi Vezy. PlantSimEngine: A Simulation Engine For The Soil-Plant-Atmosphere System. Journal of Open Source Software, 2023, 8, ⟨10.21105/joss.05371⟩. ⟨hal-04166660⟩
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https://hal.inrae.fr/hal-04166660/file/Vezy_joss_2023.pdf BibTex
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Rémi Vezy, Sebastian Munz, Noémie Gaudio, Marie Launay, Patrice Lecharpentier, et al.. Modeling soil-plant functioning of intercrops using comprehensive and generic formalisms implemented in the STICS model. Agronomy for Sustainable Development, 2023, 43 (5), pp.61. ⟨10.1007/s13593-023-00917-5⟩. ⟨hal-04189857⟩
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https://hal.inrae.fr/hal-04189857/file/2023-gaudio-STICS-intercrop_new_formalisms_5.3.0.pdf BibTex

Communication dans un congrès

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Thomas Arsouze, Grégory Beurier, Frédéric Boudon, Romain Fernandez, Marc Labadie, et al.. MaCS4Plants: A Mathematic & Computer Science Network for FSPM. FSPM 2023, Mar 2023, Berlin (DE), Germany. ⟨hal-04399157⟩
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Francesca Grisafi, Sergio Tombesi, Daniela Farinelli, Frédéric Boudon, Jean-Baptiste Durand, et al.. Analysing the architecture of Corylus avellana and parametrizing L-HAZELNUT FSPM. FSPM 2023 - 10th International Conference on Functional-Structural Plant Models, Dr. Susann Müller, Mar 2023, Berlin, Germany. pp.1-2. ⟨hal-04142608⟩
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https://inria.hal.science/hal-04142608/file/Fspm2023Hazelnut.pdf BibTex
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Raphael Perez, Valentin Torrelli, Sandrine Roques, Sebastien Devidal, Clément Piel, et al.. Testing the capacity of an oil palm FSPM to simulate changes in water and carbon dioxide fluxes under a range of climatic conditions. International Conference on Functional-Structural Plant Models (FSPM2023), Tsu-Wei Chen; Andreas Fricke; Katrin Kahlen; Susann Müller; Hartmut Stützel, Mar 2023, Berlin, Germany. pp.34-35. ⟨hal-04428293⟩
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Rémi Vezy, Simon Treillou, Emilie Peynaud, Thomas Arsouze, Raphael Perez, et al.. PlantBiophysics.jl: a Julia package for fast and easy calibration, prototyping and simulation of biophysical models. International Conference on Functional-Structural Plant Models (FSPM2023), Tsu-Wei Chen; Andreas Fricke; Katrin Kahlen; Susann Müller; Hartmut Stützel, Mar 2023, Berlin, Germany. pp.54-55. ⟨hal-04428170⟩
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2022

Article dans une revue

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Raphael P. A. Perez, Rémi Vezy, Loïc Brancheriau, Frédéric Boudon, François Grand, et al.. When architectural plasticity fails to counter the light competition imposed by planting design: an in silico approach using a functional–structural model of oil palm. in silico Plants, 2022, 4 (1), ⟨10.1093/insilicoplants/diac009⟩. ⟨hal-03736274⟩
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https://hal.inrae.fr/hal-03736274/file/diac009.pdf BibTex
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Haoyu Wang, Jing Hua, Mengzhen Kang, Xiujuan Wang, Xing-Rong Fan, et al.. Stronger wind, smaller tree: Testing tree growth plasticity through a modeling approach. Frontiers in Plant Science, 2022, 13, ⟨10.3389/fpls.2022.971690⟩. ⟨hal-03888028⟩
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https://hal.inrae.fr/hal-03888028/file/Wang_etal_Frontiers_Plant_Sci_2022_13.pdf BibTex

Communication dans un congrès

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Francesca Grisafi, Daniela Farinelli, Evelyne Costes, Frédéric Boudon, Jean-Baptiste Durand, et al.. Architecture and yield relationship in hazelnut tree. XXXI International Horticultural Congress (IHC2022): International Symposium on Innovative Perennial Crops Management, Aug 2022, Angers, France. pp.331-336, ⟨10.17660/ActaHortic.2023.1366.40⟩. ⟨hal-04137945v2⟩
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https://hal.science/hal-04137945/file/Architecture%20and%20yield%20relationship%20in%20hazelnut%20tree%20final.pdf BibTex
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Laëtitia Lemière, Marie Gosme, Gérard Subsol, Marc Jaeger. FSPM applied to agroforestry system co-design. PMA 2022 - 7th International Symposium on Plant Growth Modeling, Simulation, Visualization, and Applications, Oct 2022, Wuxi, China. ⟨hal-03996877⟩
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https://hal.inrae.fr/hal-03996877/file/PMA_LEMIERE.pdf BibTex

Pré-publication, Document de travail

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Rémi Vezy, Mathilde Millan, Alexis Bonnet, Jean Dauzat. Coupling LiDAR and structural models to improve the estimation of aboveground woody biomass. 2022. ⟨hal-03838571⟩
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https://hal.science/hal-03838571/file/whole_tree_biomass_LiDAR_v1.0.0.pdf BibTex

2021

Article dans une revue

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Beda Innocent Adji, Doffou Sélastique Akaffou, Kouadio Henri Kouassi, Yao Patrice Houphouet, Philippe de Reffye, et al.. Allometric models for non-destructive estimation of dry biomass and leaf area in Khaya senegalensis (Desr.) A. Juss (Meliaceae), Pterocarpus erinaceus Pear. (Fabaceae) and Parkia biglobosa, Jack, R. Br. (Fabaceae). Trees - Structure and Function, 2021, 35, pp.1905-1920. ⟨10.1007/s00468-021-02159-y⟩. ⟨hal-03272359⟩
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Roberta Dainese, Alessandro Tarantino. Measurement of plant xylem water pressure using the high-capacity tensiometer and implications for the modelling of soil–atmosphere interaction. Geotechnique, 2021, 71 (5), pp.441-454. ⟨10.1680/jgeot.19.P.153⟩. ⟨hal-03222923⟩
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https://hal.inrae.fr/hal-03222923/file/Dainese_etal_Geotechnique_2021_71_5.pdf BibTex
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Philippe de Reffye, Baogang Hu, Mengzhen Kang, Véronique Letort, Marc Jaeger. Two decades of research with the GreenLab model in Agronomy. Annals of Botany, 2021, 127 (3), pp.281-295. ⟨10.1093/aob/mcaa172⟩. ⟨hal-02950606⟩
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Mengzhen Kang, Xiujuan Wang, Rui Qi, Zhi-Qi Jia, Philippe de Reffye, et al.. Analyzing and optimizing yield formation of tomato introgression lines using plant model. Euphytica, 2021, 217 (6), pp.100. ⟨10.1007/s10681-021-02834-8⟩. ⟨hal-03708831⟩
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Grégoire Leclerc, Pierre Bommel, Natacha Motisi, Rémi Vezy, Edwin Treminio, et al.. Coffee leaf rust (Hemeleia vastatrix) risk management in Central America: contribution of remote interactive simulations. Agronomie, Environnement & Sociétés, 2021, 11 (2), ⟨10.54800/roc535⟩. ⟨hal-03531784⟩
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https://hal.inrae.fr/hal-03531784/file/Leclerc_etal_Agronomie_2021_11_2.pdf BibTex
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Soualihou Soualiou, Zhiwei Wang, Weiwei Sun, Philippe de Reffye, Brian Collins, et al.. Functional–structural plant models mission in advancing crop science: opportunities and prospects. Frontiers in Plant Science, 2021, 12, pp.1-12. ⟨10.3389/fpls.2021.747142⟩. ⟨hal-03744298⟩
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https://hal.inrae.fr/hal-03744298/file/LouarG_FrontiersPlantSci_2021.pdf BibTex

Communication dans un congrès

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Eric Justes, Rémi Vezy, Sebastian Munz, Kirsten Paff, Laurent Bedoussac, et al.. Recent advances in intercropping modelling: the new version of the STICS soil-crop model simulates consistently a wide range of bi-specific annual intercrops.. Conference on Intercropping for sustainability. Research developments and their application, Association of Applied Biologists, Jan 2021, Online, France. ⟨hal-03121584⟩
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https://hal.inrae.fr/hal-03121584/file/Abstract_Intercropping-Conf-UK_Diversify__ReMIX_Jan2021_Justesal_Modelling-Intercropping_vf-1.pdf BibTex

2020

Article dans une revue

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Véronique Letort, Sylvie Sabatier, Michelle Pamelas Okoma, Marc Jaeger, Philippe de Reffye. Internal trophic pressure, a regulator of plant development? Insights from a stochastic functional–structural plant growth model applied to Coffea trees. Annals of Botany, 2020, 126 (4), pp.687-699. ⟨10.1093/aob/mcaa023⟩. ⟨hal-02945618⟩
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Virginie Moreaux, Simon Martel, Alexandre Bosc, Delphine Picart, David Achat, et al.. Energy, water and carbon exchanges in managed forest ecosystems: description, sensitivity analysis and evaluation of the INRAE GO+ model, version 3.0. Geoscientific Model Development Discussions, 2020, 13 (12), pp.5973-6009. ⟨10.5194/gmd-13-5973-2020⟩. ⟨hal-03051411⟩
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https://hal.inrae.fr/hal-03051411/file/gmd-13-5973-2020.pdf BibTex

Communication dans un congrès

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Jean-François Barczi, Yves Caraglio, Eric-André Nicolini, Hervé Rey, Alexandre de Haldat. Modelling and simulating tree growth dynamics including both shootand root compartments. The RoCoCau+TOY model. FSPM 2020 : Towards Computable Plants. 9th International Conference on Functional-Structural Plant models, Oct 2020, Hanovre, Germany. ⟨hal-03053696⟩
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https://hal.inrae.fr/hal-03053696/file/FSPM2020_Barczi_etal.pdf BibTex
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Samuel Buis, Patrice Lecharpentier, Rémi Vezy, Michel Giner. SticsRpacks: a set of packages for managing Stics from R. XIIth Stics users seminar, Jan 2020, Montpellier, France. ⟨hal-03546172⟩
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https://hal.inrae.fr/hal-03546172/file/Buis_etal__stics2020_final2.pdf BibTex
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Raphael P. A. Perez, Rémi Vezy, Loïc Brancheriau, Frédéric Boudon, Doni Artanto Raharjo, et al.. Toward a functional-structural model of oil palm accounting for architectural plasticity in response to planting density.. FSPM 2020 : Towards Computable Plants. 9th International Conference on Functional-Structural Plant models, Oct 2020, Hanovre, Germany. ⟨hal-03053584⟩
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https://hal.inrae.fr/hal-03053584/file/FSPM_2020_Perez_etal.pdf BibTex

Poster de conférence

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Loïc Brancheriau, Sylvie-Annabel Sabatier, Marc Jaeger, Nicolas Hemery, Christ Mougani, et al.. Modelling the Guayule plant growth and development with a Functional Structural Plant Model. FSPM 2020 : Towards Computable Plants. 9th International Conference on Functional-Structural Plant models, Oct 2020, Hanovre, Germany. ⟨hal-03056119⟩
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https://hal.inrae.fr/hal-03056119/file/FSPM2020_brancheriau_etal.pdf BibTex
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Marc Jaeger, Sylvie-Annabel Sabatier, Philippe de Reffye, Ali Abed Alsater, Loïc Brancheriau. Efficient stochastic Functional Structural sympodial Shrubs Modelling based on structural hierarchy. Application to Guayule. FSPM2020: Towards Computable Plants, Oct 2020, Leibniz, Germany. . ⟨hal-03105340⟩
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https://hal.inrae.fr/hal-03105340/file/FSPM2020_Jaeger_etal_virtual_plants.pdf BibTex
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Rémi Vezy, Raphael P. A. Perez, François Grand, Jean Dauzat. Light exchanges in discrete directions as an alternative to raytracing and radiosity. FSPM 2020 : Towards Computable Plants. 9th International Conference on Functional-Structural Plant models, Oct 2020, Hannover, Germany. ⟨hal-03105541⟩
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https://hal.inrae.fr/hal-03105541/file/Pages%20de%2038ef44_751a00f4e3944dc1994424549433e3a9.pdf BibTex