Cell outline segmentation

MATLAB Toolbox for cell-outline segmentation in phase-contrast images

A MATLAB implementation of the algorithm for segmenting and tracking high-resolution cell outlines from phase-contrast movies can be downloaded here. The toolbox was written by Mark Ambuehl as part of his PhD project at the LCB (EPFL) and the MOSAIC Group.


The method and algorithm implemented in this toolbox are described in the following publication:

M. E. Ambühl, C. Brepsant, J.-J. Meister, A. B. Verkhovsky, and I. F. Sbalzarini. High-resolution cell outline segmentation and tracking from phase-contrast microscopy images. J. Microsc., 245(2):161–170, 2012. (PDF)


In order to ensure financial support for our project and allow further development of this software, please cite above publications in all your documents and manuscripts that made use of this software. Thanks a lot!


IN NO EVENT SHALL THE MOSAIC GROUP BE LIABLE TO ANY PARTY FOR DIRECT, INDIRECT, SPECIAL, INCIDENTAL, OR CONSEQUENTIAL DAMAGES, INCLUDING LOST PROFITS, ARISING OUT OF THE USE OF THIS SOFTWARE AND ITS DOCUMENTATION, EVEN IF THE MOSAIC GROUP HAS BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. THE MOSAIC GROUP SPECIFICALLY DISCLAIMS ANY WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE. THE SOFTWARE PROVIDED HEREUNDER IS ON AN "AS IS" BASIS, AND THE MOSAIC GROUP HAS NO OBLIGATIONS TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS, OR MODIFICATIONS.