![]() Zernike shape decomposition of the nuclei. If I understand the CellProfiler Wiki correctly, the closer the Phase is to 1, the more polarised the cell. ![]() ImageJs traditional strength is in single-image processing and investigation, while CellProfiler is designed for building large-scale, modular analysis pipelines. microscopy has been used since 1942 in microscopy, when F.Zernike 12. Types of image features included cell size. ImageJ and CellProfiler have long been leading open-source platforms in the field of bioimage analysis. from phase contrast cell images using CellProfiler, an open source image. I really think for the most part you want to avoid assigning any “human-intuitable-values” to your Zernikes, other than “they represent subtle descriptors of shape”- they’re really most useful for either a) reconstructing shapes (like in the paper I linked) or b) just feeding into an overall unbiased feature model for doing morphological profiling. This includes many standard features 39,40, but also complex measurements like Zernike shape features 41, and Haralick and Gabor texture features. A total of 9,879 quantitative features were extracted from each image tile with CellProfiler 42,43. If I understand the CellProfiler Wiki correctly, the closer the Phase is to 1, the more polarised the cell.įor some of the Zernikes, that will be true, for others not. My understanding there is that the higher the value for any given zernike, the closer that the object matches the red/gray areas- IE a ring-like object will have a low 2_0 value (where value concentrates in the center) but a high 4_0 value (which is low in the center but high in a ring). These measures are often complemented by fluorescence readouts of protein expressions, together with intensity patterns and localization within cells. You definitely want to use the wikipedia-type model, as you’ll notice the zernikes are given with 2 metrics (ie not 1, 2, 3, but 1_1, 5_3, etc). Would you say that “Zernike Phase” is describing the amount of signal in the light grey area in the upper panels (Order) or in the red part of the disk in your Wikipedia panel?
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