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ShapeSpaceExplorer: Analysis of morphological transitions in migrating cells using similarity-based shape space mapping
The paper describes the development of ShapeSpaceExplorer, an interactive software package that makes it easy to analyse cell morphology without any prior knowledge of relevant shape features and in particular enables tracking how cell shape changes dynamically. At the core of our software is a new and efficient method to measure the similarity of two shapes. Pairwise distances from all shapes in the dataset are used to position each shape in a low-dimensional map of shape space. The user can explore this shape space and visualise average shapes from any region of interest, partition shape space to analyse shape distributions from different experimental conditions or measure the speed of shape changes between two regions of shape space. We also show that shape dynamics information is sufficient to predict when migrating cells change direction.
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