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The analysis of microscopy image has been the basis to our current understanding of the cellular growth and morphogenesis. The quantitative evaluation of morphological changes in the biological processes is therefore important to characterize cell structures. Here we present an image analysis tool DSeg to overcome the difficulties in finding complicated elongated cell shapes by using time-lapse data and cell morphological constraints. A fast binary level-set based algorithm is implemented for extracting object contour and refining shapes. The software is implemented in MATLAB for segmenting and tracking of cell contours from various microscopy systems.
Video instructions:
https://www.youtube.com/embed/qMbM0shkk7A?rel
Lastest updates: 20190930
DSeg: A dynamic segmentation program to extract backbone patterns for filamentous bacteria and hyphae structures,(2018).
Hanqing Zhang,Niklas Soderholm, Linda Sandblad, Krister Wiklund, Magnus Andersson*
Features
- Image segmentation tool based on level-set method
- Persistence length estimation
- MATLAB based GUI
- Analysis for both microscopy video and image data
- Capable of extracting backbone patterns for filamentous bacteria and hyphae structures
- Suitable for analyzing time-lapse bacteria growth data , or tracking slow moving elongated objects with shape deformations.
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