Team, Visitors, External Collaborators
Overall Objectives
Research Program
Highlights of the Year
New Software and Platforms
New Results
Partnerships and Cooperations
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Section: New Software and Platforms


DRACO-STEM : Dual Reconstruction by Adjacency Complex Optimization & SAM Tissue Enhanced Mesh

Keywords: Meshing - Image segmentation - Computational biology - Optimization

Functional Description: Draco-stem provides a computational pipeline that allows going from multi-label segmented images of living tissue (typically resulting from a watershed segmentation of 3D microscopy image stacks) to topologically consistent, FEM-ready triangular meshes of all cell interfaces in the tissue.

It relies on an original topological optimization method that aims at reconstructing the simplicial complex of cellular adjacencies from the image, and on dualization and geometrical optimization to obtain a triangle mesh that satisfies simultaneously several quality criteria (triangle regularity, adequation to image, biological priors). The library provides implementations for 3D tissue reconstruction, single-layer 2.5D reconstruction and advanced 2D reconstruction.

Release Functional Description: * Major refactoring, python3 compatibility * Addition of Draco2D functionalities