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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Raphael Perez, Rémi Vezy, Romain Bordon, Thomas Laisné, Sandrine Roques, et al.. Combining modeling and experimental approaches for developing rice–oil palm agroforestry systems. Journal of Experimental Botany, In press, pp.erae137. ⟨10.1093/jxb/erae137⟩. ⟨hal-04580715⟩
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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