Due to the simple nature of this code, no copyright hough_threshold (value=0. Indeed, the resulting masks could be used as input ROIs for the ALDQ algorithm. Author: Olivier Burri, from a request of the Image.sc forum: This could be avoided by combining ALDQ, for instance, with the Voronoi ImageJ/Fiji plugin to detect cell boundary or by using machine learning algorithms to separate the cell body background from the coverslip background. HoughIncompleteCirclesSEM.ijm // Hough Transform to find circles, You are welcome to play around with the settings, but I think that this is the best I can offer. The result is a table with the sizes of the circles. For users - Fiji is easy to install and has an automatic update function, bundles a lot of plugins and offers comprehensive documentation. To find circle-like objects in the image, based on their Hough Score. Fiji is an image processing packagea batteries-included distribution of ImageJ2, bundling a lot of plugins which facilitate scientific image analysis. The idea is to use a Circular Hough transform, available here: The plugin bridges the gap between developers of deep-learning models and end-users in life-science applications. I have here a workflow that seems to to a good job, which in the end has nothing to do with my previous idea. DeepImageJ is a user-friendly plugin that enables the use of a variety of pre-trained neural networks in ImageJ and Fiji. Having said that, thanks for the hint on the Laplacian! Again for manual and visual quantification it is OK, but not for automated analyses… In the image you shared, if you had a tiff image, the segmentation would certainly be a lot better, because artifacts from the JPEG compression are exacerbating the noise. Dear would suggest that you forward the discussion we are having here to whomever provides the images, and state that providing images in jpeg format for automated quantification can lead to poor segmentation, leading to reviewers not accepting analysis workflows.
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