OpenAlea.HydroRoot

Software

Authors

• Christophe Pradal
• Yann Boursiac
• Mikael Lucas
• Fabrice Bauget
• Christophe Godin
• Christophe Maurel

Institutes

CIRAD / INRA / inria / CNRS

Status

Python package

License

CecILL-C

URL : http://openalea.rtfd.io

About

Description

OpenAlea.HydroRoot is a hydraulic root architecture modelling and a root architecture system generator package.

Content

The OpenAlea.HydroRoot package contains a root architecture simulation model coupled with an hydraulic solver.

Example

Heat map representaion of the incoming local radial flows on an arabidopsis root. 

Installation

Conda Installation

conda create -n hydroroot -c conda-forge -c openalea3 openalea.hydroroot

Requirements

• openalea.mtg
• openalea.plantgl
• openalea.visualea
• RSML
• pandas > 0.17
• numpy
• scipy

Usage

see the jupyter notebook figures_tables.ipynb for examples. This notebook is aimed to run different simulations to
generate figures and tables illustrating the HydroRoot capabilities.

Documentation

https://hydroroot.rtfd.io

Citations

If you use Hydroroot for your research, please cite:

1. Yann Boursiac, Christophe Pradal, Fabrice Bauget, Mikaël Lucas, Stathis Delivorias, Christophe Godin, Christophe Maurel, Phenotyping and modeling of root hydraulic architecture reveal critical determinants of axial water transport, Plant Physiology, Volume 190, Issue 2, October 2022, Pages 1289–1306, https://doi.org/10.1093/plphys/kiac281
2. Fabrice Bauget, Virginia Protto, Christophe Pradal, Yann Boursiac, Christophe Maurel, A root functional-structural model allows to assess effects of water deficit on water and solute transport parameters, Journal of Experimental Botany, 2022;, erac471, https://doi.org/10.1093/jxb/erac471