Steer&Detect on Images 14 Nov 2017
First steps toward fast PET reconstruction30 May 2017
Lipid membranes and surface reconstruction - a biologically inspired method for 3D segmentation16 May 2017
We present a direct 3D surface segmentation method, inspired from lipid membrane physics. Contrary to level-set or mesh-based methods, the segmented surface is defined by a set of independent “lipid” particles that have a position and a normal vector. "Lipids", that are also called surfels, exert a force along their normal vector to adapt to the underlying 3D image (data attachment term). Surface integrity is maintained by local surfels interactions which also allow for topological changes (surface merging or splitting). Segmentation of multiple self-excluding volumes is easily implemented by keeping only repulsive terms between different classes of surfels. We implemented this method into a scriptable ImageJ plugin, and parallelized time critical steps with CUDA. Using a standard desktop computer, we report the segmentation of - 3D tissue from confocal images (~ 800 cells) - human brain surface from MRI sections - and Endoplasmic Reticulum from FIB-SEM data. With a standard desktop computer, this method converges within minutes for ~500k particles. (demo video : https://www.youtube.com/watch?v=TBODq6dVczM).
Chasing Mycobacteria10 Apr 2017
SIGGRAPH ASIA 201601 Nov 2016
Lévy's Persian summers18 Oct 2016
Algorithmic Aspects of Compressive Sensing03 Oct 2016