utraf-pasteur-institute/CellWalker-blender

Blender add-on of CellWalker: Morphometric tools for three-dimensional images

CellWalker

Description

CellWalker-blender is a Blender Add-on which forms the second part of the CellWalker pipeline (Click here for the first part). It is designed for morphometric characterization of objects obtained from 2D/3D mircoscopy images.

Getting Started

Instructions for installation and usage can be found in the User Guide

Content

• Dependencies
• Installation

• Morphometric Tools

  • Surface and Volume
  • Centerline and cross-section
  • Angular distribution
  • Skeletonization
  • Distance

• Tutorial

  • Image Segmentation
    • Pre-processing mask
    • Image segmentation 2D UNET
    • Visualization
  • Morphological analysis in Blender
    • Importing objects
    • Surface and volume
    • Cross-sectioning and cross-section properties
    • Distance Tool
    • Skeletonization
    • Angular distribution of objects

• Study Case

  • Segmentation and object reconstruction
  • Morphological Analysis
    • Intercellular Connection Analysis
    • Protrusion Analysis
    • Intracellular Components Analysis
  • Results
    • Intercellular Connection Analysis
    • Protrusion Analysis
    • Intracellular Components Analysis

Authors

Harsharvardhan Khare (Contact: https://www.linkedin.com/in/harshavardhankhare/)
Nathaly Dongo Mendoza (Contact: https://www.linkedin.com/in/nathaly-dongo-mendoza/)