RhizoScan

RhizoScan provide a set of tool to analyse 2D images of root system.

What is RhizoScan ?

The main goal is to allow extraction of Root System Architecture (RSA) as Multiscale Tree Graph (MTG)

from images and image sets. It also provides typical mesurement analysis, such as root axes length (primary, secondary, total) and comparative plots.

Requirements

• NumPy
• SciPy
• Matplotlib
• Scikit-image
• Scikit-learn
• PIL or Pillow
• OpenCV
• VPlants.PointReconstruction
• OpenAlea.MTG (https://github.com/openalea/mtg)
• OpenAlea.Visualea (https://github.com/openalea/openalea)
• OpenAlea.VPLTK (https://github.com/openalea/openalea)
• OpenAlea.grapheditor (https://github.com/openalea/openalea)
• OpenAlea.deploy (https://github.com/openalea/deploy)
• OpenAlea.core (https://github.com/openalea/core)
• TreeEditor (https://github.com/openalea-incubator/treeeditor)
• RSML-conversion-tools (https://github.com/openalea/RSML)

Installation

python setup.py install

Documentation

http://rhizoscan.readthedocs.io

License

RhizoScan is released under a Cecill-C license.

Authors

Julien Diener (https://github.com/julien-diener)