A Parallel Distributed-Memory Particle Method Enables Acquisition-Rate Segmentation of Large Fluorescence Microscopy Images
Fig 25
Application of the present implementation to acquisition-rate segmentation of a 3D light-sheet microscopy image using a piecewise constant (PC) image model.
All 3D visualizations were done using ClearVolume [39]. (a) Raw image showing a Drosophila melanogaster embryo at cellular blastoderm stage with fluorescent histone marker (image: Dr. Pavel Tomancak, MPI-CBG). In addition to the nuclei, there are fluorescent beads embedded around the sample as fiducial markers for multi-view fusion and registration [3]. (b) Segmentation result using the present distributed implementation of DRC with the PC image model distributed across 128 processors. The total time to compute the segmentation was 60 seconds, while the microscope acquired a 3D image every 90 seconds. (c) Example of a sub-image from one of the processors. (d) Corresponding part of the segmentation as computed by that processor.