Cell Tracking using Coupled Active Surfaces for Nuclei and Membranes
Harvard Medical School
| Please use this identifier to cite or link to this publication: http://hdl.handle.net/10380/3055 |
Published in The Insight Journal - 2009 January - June.
Submitted by Kishore Mosaliganti on 05-08-2009.
An Insight Toolkit (ITK) processing framework for segmenting and tracking nuclei in time-lapse microscopy images using coupled active contours is presented in this paper. We implement the method of Dufour et al.[2] to segment and track cells in fluorescence microscopy images. The basic idea is to model the image as a constant intensity background with constant intensity foreground components. We utilizes our earlier submissions on the Chan and Vese algorithm [1] and its multiphase extension [5] to build our new tracking filter. The tracking filter itk::MultiphaseLevelSetTracking inputs a segmentation result (or a coarse estimate) from the previous time-point along with the feature image and generates a new segmentation output. By iteratively repeating this process across all time-points, real-time tracking is made possible. We include 2D/3D example code, parameter settings and show the results generated on a 2D zebrafish embryo image series.
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| Paper Id: | 642 |
| Categories: | Derivatives and Integrals, Level sets |
| Keywords: | Level sets,, cell tracking, segmentation, |
| Toolkit: | CMake, ITK (moved into the sandbox), CMake, ITK (moved into the sandbox) |
| Revision: | 1 (05-08-2009) |
| Status: | Open for public review |
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| Full download: | .zip |
| Paper: | view, .pdf |
| Source code : | Download |
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Associated Publications
| BioImage Suite: An integrated medical image analysis suite | ||
| MATITK: EXTENDING MATLAB WITH ITK | ||
| I-DO: A Deformable Organisms framework for ITK | ||







