Packages¶
Index
Name | Stars | Contributors | Downloads | License | Docs | Conda | |
---|---|---|---|---|---|---|---|
core | |||||||
eartrack | - | ||||||
hydroshoot | - | ||||||
lpy | |||||||
mtg | |||||||
phenomenal | - | ||||||
plantgl | - | ||||||
visualea | - | ||||||
weberpenn | - |
Modelling with OpenAlea¶
MTG¶
Multiscale Tree Graph datastructure and interfaces
MTG package aims to define :
- A share data structure for plant architecture representation.
- Read and write MTG files.
- Export to various graph format.
- Several algorithms for MTG.
Authors : Christophe Pradal, Christophe Godin
Institutes : Cirad, Inria
Source Code : Github
L-Py¶
Plant simulation using Lindenmayer Systems with Python
L-systems were conceived as a mathematical framework for modeling growth of plants. L-Py is a simulation software that mixes L-systems construction with the Python high-level modeling language.
Authors : Frédéric Boudon, Christophe Pradal, Thomas Cokelaer, Przemyslaw Prusinkiewicz, Christophe Godin
Institutes : Cirad, Inria, U. Calgary
Citation : Boudon et al., 2012, https://doi.org/10.3389/fpls.2012.00076
Source Code : Github
PlantGL¶
An open-source graphic toolkit for the creation, simulation and analysis of 3D virtual plants
Authors: Frédéric Boudon, Christophe Pradal, Christophe Nouguier, Jérôme Chopard, Christophe Godin
Institutes : Cirad, Inria
Citation : Pradal, Boudon et al., 2009, https://doi.org/10.1016/j.gmod.2008.10.001
Source Code : Github
OpenAlea Framework¶
OpenAlea Framework is able to discover and manage packages and logical components, build and evaluate dataflows and Generate final applications
Authors : Christophe Pradal, Samuel Dufour-Kowalski, Frédéric Boudon, Christian Fournier, Christophe Godin
Institutes : Cirad, Inria, INRA
Citation : Pradal et al., 2008, https://doi.org/10.1071/FP08084
Source Code : Github
Plant Models¶
WeberPenn¶
An extension of the Weber & Penn model for OpenAlea
Authors : Christophe Pradal
Institutes : Cirad
Original Article : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.380.2046
Source Code : Github
Plant Biophysics¶
Hydroshoot¶
Hydroshoot model for 3D hydraulic architecture simulation
HydroShoot is a functional-structural plant modelling package taking into account hydraulic architecture and leaves energy budget and gas exchange.
Authors : Rami Albasha, Christian Fournier, Christophe Pradal
Institutes : INRA, Cirad
Citation : Albasha et al., 2019, https://doi.org/10.1093/insilicoplants/diz007
Source Code : Github
Phenotyping¶
Phenomenal¶
3D reconstruction from high-throughput plant phenotyping images
Plant high-throughput phenotyping aims at capturing the genetic variability of plant response to environmental factors for thousands of plants, hence identifying heritable traits for genomic selection and predicting the genetic values of allelic combinations in different environments.
Authors : Simon Artzet, Christian Fournier, Christophe Pradal, Nicolas Brichet, Jerome Chopard, Michael Mielewczik
Institutes : INRA, Cirad
Source Code : Github
EarTrack¶
EarTrack is an imaging library to detect and track future position of ears on maize plants
Authors : Nicolas Brichet, Christian Fournier, Simon Artzet, Christophe Pradal,
Institutes : INRA, Cirad
Citation : Brichet et al., 2017, https://doi.org/10.1186/s13007-017-0246-7
Source Code : Github