AMAPstudio: An editing and simulation software suite for plants architecture modelling

Ecological Modelling

Volumn 290, Issue C, 2014, Pages 3-10

  Griffon, Sébastien ^a   de Coligny, François ^a  

^a UMR AMAP   (France)

Author keywords

3D; Framework; Modelling; Plant architecture; Simulation; Software

Indexed keywords

KNOWLEDGE MANAGEMENT; MODELS; OPEN SOURCE SOFTWARE; OPEN SYSTEMS; SOFTWARE ENGINEERING; TOPOLOGY; TREES (MATHEMATICS);

FRAMEWORK; FREE OPEN SOURCE SOFTWARES; KNOWLEDGE TRANSFER; PLANT ARCHITECTURE; SIMPLE ANALYSIS; SIMULATION; SIMULATION SOFTWARE; STATISTICAL COMPUTING;

COMPUTER SOFTWARE;

ECOLOGICAL MODELING; GRAPHICAL METHOD; GROWTH MODELING; PLANT ARCHITECTURE; SOFTWARE; STATISTICAL ANALYSIS; THREE-DIMENSIONAL MODELING;

EID: 85027950546     PISSN: 03043800     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ecolmodel.2013.10.037     Document Type: Article

References (38)

1. Barczi J.-F., Rey H., Caraglio Y., de Reffye P., Barthélémy D., Dong Q., Fourcaud T. AMAPsim: an integrative whole-plant architecture simulator based on botanical knowledge. Annals of Botany 2008, 101:1125-1138.
2. Barthélémy D., Caraglio Y. Plant architecture: a dynamic, multilevel and comprehensive approach to plant form, structure and ontogeny. Annals of Botany 2007, 99:375-407.
3. Barthélémy D., Caraglio Y., Costes E. Architecture, gradients morphogénétiques et âge physiologique des végétaux. Modélisation et simulation de l'architecture des végétaux 1997, 89-234. Institut national de la recherche agronomique, Science Update, Paris. J. Bouchon, P. de Reffye, D. Barthélémy (Eds.).
4. Bergez J.-E., Chabrier P., Gary C., Jeuffroy M.H., Makowski D., Quesnel G., Ramat E., Raynal H., Rousse N., Wallach D., Debaeke P., Durand P., Duru M., Dury J., Faverdin M., Gascuel-Odoux C., Garcia F. An open platform to build, evaluate and simulate integrated models of farming and agro-ecosystems. Environmental Modelling and Software 2013, 39:39-44.
5. Charles-Dominique, T., Barczi, J.-F., Caraglio, Y., Griffon, S., de Coligny, F., Dauzat, J., Violle, C., Munoz, F. InsilEco: a new prospecting software to evaluate the ecological significance of plant architectural plasticity for light. Unpublished results.
6. Cournède P.-H., Guyard T., Bayol B., Griffon S., de Coligny F., Borianne P., Jaeger M., de Reffye P. A forest growth simulator based on functional-structural modelling of individual trees. Proceedings of the Third International Symposium on Plant Growth Modeling, Simulation, Visualization and Applications 2009.
7. Danjon F., Fourcaud T., Bert D. Root architecture and wind-firmness of mature Pinus pinaster. New Phytologist 2005, 168:387-400.
8. Dauzat J. Radiative transfer simulation on computer models of Elaeis guineensis. Oléagineux 1994, 49:8-90.
9. Dauzat J., Clouvel P., Luquet D., Martin P. Using virtual plants to analyse the light-foraging efficiency of a low-density cotton crop. Annals of Botany 2008, 101:1153-1166.
10. de Reffye P., Hu B.-G. Relevant qualitative and quantitative choices for building an efficient dynamic plant growth model: GreenLab case. Plant Growth Modeling and Applications (PMA03), Proceedings of the 2003 International Symposium on Plant Growth Modeling, Simulation, Visualization and Their Applications 2003, 87-107. B. Hu, M. Jaeger (Eds.).
11. de Reffye P., Edelin C., Françon J., Jaeger M., Puech C. Plant models faithful to botanical structure and development. Proceedings of the 15th Annual Conference on Computer graphics and interactive techniques 1988, 151-158.
12. de Reffye P., Lecoustre R., Dauzat J., Ouattara S., Flori A., N'Cho Y.-P. Modelling of plant architecture. Application to tropical agronomic perennial plants. Particular case of Palmaceae. Oléagineux 1989, 44:544-546.
13. de Reffye P., Dinouard P., Barthélémy D. Modélisation et simulation de l'architecture de l'Orme du Japon Zelkova serrata (Thunb.) Makino (Ulmaceae): la notion d'axe de référence. 2ème Colloque International sur l'Arbre, Montpellier (FRA) 9-14 September, 1990. Naturalia Monspeliensa 1991, Vol. Hors-série:251-266.
14. Dufour-Kowalski S., Courbaud B., Dreyfus P., Meredieu C., de Coligny F. Capsis: an open software framework and community for forest growth modelling. Annals of Forest Science 2012, 69:221-233.
15. Elhoumaizi M.-A., Lecoustre R., Oihabi A. Phyllotaxis and handedness in date palm (Phoenix dactylifera L.). Fruits 2002, 57:297-303.
16. Fabre J.-C., Louchart X., Moussa R., Dagès C., Colin F., Rabotin M., Raclot D., Lagacherie P., Voltz M. OpenFLUID: a software environment for modelling fluxes in landscapes. LANDMOD2010 2010.
17. Fortune S. A sweepline algorithm for Voronoi diagrams. Algorithmica 1987, 2:153-174.
18. Fourcaud T., Danjon F., Dupuy L. Numerical analysis of the anchorage of maritime pine trees in connection with root structure. Proceedings of the International Conference Wind Effect on Trees 2003, 323-330.
19. Fourcaud T., Zhang X.P., Stokes A., Slambers H., Korner C. Plant growth modelling and applications: the increasing importance of plant architecture in growth models. Annals of Botany 2008, 101:1053-1063.
20. Fournier C., Pradal C., Louarn G., Combes D., Christophe J., Luquet D., Boudon F., Chelle M. Building modular FSPM under OpenAlea: concepts and applications. Proceedings of the 6th International Workshop on Functional-Structural Plant Models 2010, 97-100.
21. Gamma E., Helm R., Johnson R., Vlissides J. Design Patterns: Elements of Reusable Object-Oriented Software 1995, Addison-Wesley, Boston.
22. Godin C., Caraglio Y. A multiscale model of plant topological structures. Journal of Theoretical Biology 1998, 191:1-46.
23. Godin C., Sinoquet H. Functional-structural plant modelling. New Phytology 2005, 166:705-708.
24. Griffon S., de Coligny F. AMAPstudio: a software suite for plants architecture modelling. Plant Growth Modeling, Simulation, Vizualization and Applications 2012, 141-147. IEEE Press, Beijing. M. Kang, Y. Dumont, Y. Guo (Eds.).
25. Hallé F., Oldeman R.A.A., Tomlinson P.B. Tropical Trees and Forests: An Architectural Analysis 1978, Springer-Verlag, Berlin.
26. Kniemeyer O., Kurth W. The modelling platform GroIMP and the programming language XL. Lecture Notes in Computer Science 2008, vol. 5088:570-572. Springer-Verlag, Berlin.
27. Lecoustre R., Elhoumaizi M.-A., Bouguedoura N., Ben Salah M., Littardi C. The Mocaf-Principes Project 2012, http://www.mocaf.net/.
28. Lintermann B., Deussen O. A modelling method and interface for creating plants. Computer Graphics Forum 1998, 17(1).
29. Palubicki W., Horel K., Longay S., Runions A., Lane B., Mech R., Prusinkiewicz P. Self-organizing tree models for image synthesis. ACM Transactions on Graphics 2009, 28:1-10.
30. Pradal C., Dufour-Kowalski S., Boudon F., Fournier C., Godin C. OpenAlea: a visual programming and component-based software platform for plant modelling. Functional Plant Biology 2008, 35:751-760.
31. Prusinkiewicz P. Modeling of spatial structure and development of plants: a review. Scientia Horticulturae 1998, 74(1-2):113-149.
32. Prusinkiewicz P., Lindenmayer A. The Algorithmic Beauty of Plants 1990, Springer-Verlag, New York, NY.
33. Rey H., Barczi J.-F., Jourdan C. DigR: how to model root system in its environment? 1 - the model. XVIII International Botanical Congress 2011.
34. Shinozaki K., Yoda K., Hozumi K., Kira T. A quantitative analysis of plant form-the pipe model theory. I. Basic analysis. Japanese Journal of Ecology 1964, 14:97-105.
35. Taugourdeau O., Barczi J.-F. Simulating the effect of extreme climatic events on tree architecture with a minimal FSPM. Proceedings of the 7th International Conference on Functional Structural Plant Models 2013, 288-290. P. Nygren, A. Lintunen, C. Godin, E. Nikinmaa, R. Sievänen (Eds.).
36. Taugourdeau O., Barczi J.-F., Caraglio Y. Simulation of morphogenetical gradients using a minimal functional-structural plant model (FSPM). Plant Growth Modeling, Simulation, Vizualization and Applications, Proceedings of the PMA12 2012, 379-387. IEEE Press, Shanghai, China. M. Kang, Y. Dumont, Y. Guo (Eds.).
37. Weber J., Penn J. Creation and rendering of realistic trees. Proceedings of the 22nd Annual Conference on Computer Graphics and Interactive Techniques 1995, 119-128.
38. Westoby M. A leaf-height-seed (LHS) plant ecology strategy scheme. Plant and Soil 1998, 199:213-227.