Automated

U-Net segmentation as presented in Reference Publication. The model predicts three classes: background, edge and foreground. The model was trained with Kaggle Data Science Bowl (DSB) 2018 training set.

Nuclei Segmentation using Deep Learning for individual cell analysis (DeepCell).

3D spot detection using the Determinant of Hessian (DoH) and the detection of 3D minima.

Spot detection in 3D images by Wavelet Adaptive Threshold in Icy.

This workflow detects spots in a 2D image by filtering the image by Laplacian of Gaussian (user defined radius), thresholding (user defined threshold) and finding local intensity maxima in mask distance map (Dmap).