Segmentation and modelling of hela nuclear envelope

This paper describes an algorithm to segment the 3D nuclear envelope of HeLa cancer cells from electron microscopy images and model the volumetric shape of the nuclear envelope against an ellipsoid. The algorithm was trained on a single cell and then tested in six separate cells. To assess the algorithm, Jaccard similarity index and Hausdorff distance against a manually-delineated gold standard were calculated on two cells. The mean Jaccard value and Hausdorff distance that the segmentation achieved for central slices were 98% and 4 pixels for the first cell and 94% and 13 pixels for the second cell and outperformed segmentation with active contours. The modelling projects a 3D to a 2D surface that summarises the complexity of the shape in an intuitive result. Measurements extracted from the modelled surface may be useful to correlate shape with biological characteristics. The algorithm is unsupervised, fully automatic, fast and processes one image in less than 10 seconds. Code and data are freely available at https://github.com/reyesaldasoro/Hela-Cell-Segmentation and http://dx.doi.org/10.6019/EMPIAR-10094

Superquadrics for segmentation and modeling range data

We present a novel approach to reliable and efficient recovery of part-descriptions in terms of superquadric models from range data. We show that superquadrics can directly be recovered from unsegmented data, thus avoiding any presegmentation steps (e.g., in terms of surfaces). The approach is based on the recover-andselect paradigm. We present several experiments on real and synthetic range images, where we demonstrate the stability of the results with respect to viewpoint and noise