This section lists the packages integrated in the OpenAlea environment. Each package has its own page with a basic presentation and some notes to install and use the package.

• OpenAlea sphinx documentation : Core, VisuAlea, Standard Library, SconsX…
• see also OpenAlea package list

• VPlants : set of packages to analyse, model and simulate plant architecture and its development at different scales (tissue, organ, axis and plant). These packages are developed by the Virtual Plants team. VPlants is the successor of the AMAPmod software.

• Alinea : set of packages to simulate ecophysiological and agronomical processes (crop 3D development, light distribution, interactions with diseases…). These packages have been developed during the Alinea project, that joined different INRA teams and VPlants to set up a kernel collection of models adapted to this problematic.

• drop : Rain interception on banana plants.

• STSE : Spatio-temporal simulation environment (STSE) is set of open-source tools used to perform spatio-temporal simulations in discret structures. The framework contains modules to represent, analyse, and model spatial distributions of species in static and dynamic (e.g. growing) structures. The biological application of the package allows for simulation of morphogens at cellular/tissue level together with the digitization of microscopy images.

• MARS-ALT is a generic method for multi angle reconstruction, cell segmentation and cell tracking using microscopy images.

• Python packages : useful python libraries and applications.