Spatial3DTissueJ - 3D Spatial Tissue Organization Analysis Plugin

We provide a toolbox to segment and analyze tissues in 3D.
Tissue Analysis Plugin is a toolbox which allow to analyze
cells and nuclei and explore the spatial structure of tissue.
This toolbox is developed by Thomas's group.
The goal is to suggest a workflow in order to choose a set of
optimal methodologies for quantification and modeling of tissue
organization based on 2D/3D microscopy images.

This ImageJ plugin toolbox is easy access to biologist.
The tissue toolbox was used to analyze endocrine cells in a paper:
“A novel toolbox to investigate tissue spatial organization
applied to the study of the islets of Langerhans”.(Scientific Reports)
http://www.nature.com/articles/srep44261
Hoa Tran, Arrj Rafael, Berr Per-Olof, and Boudier Thomas
Image and Pervasive Access Lab IPAL
Email: [email protected] or [email protected]

Later, this plugin was used to analyze islets and explore the capacity of delta cell regulation in this paper: "Structural basis for delta cell paracrine regulation in pancreatic islets" https://www.nature.com/articles/s41467-019-11517-x. Rafael et al.

A wiki documentation for this toolbox is at:
https://imagejdocu.tudor.lu/plugin/3d/tissue_organization_toolbox/start