DeutJ: An ImageJ Plugin for Improved Automatic Masking and Segmentation of Images from Confocal Microscopy

Due to advances to microscopic imaging, there are a plethora of biological molecules that can now be tagged and subsequentially imaged from almost any cell, organism, or tissue. However, the ability for software to analyze these images remains to be a challenge. ImageJ is an open source software that allows for processing of these images, but faces challenges when dealing with images that show weak contrast between objects of interest and background. DeutJ is an ImageJ plugin that color-corrects and brightness-corrects gradients that inhbit segmentation in confocal microscopy images. It can analyze hundreds of images from a given folder and produces binary mask images that are superior to existing ImageJ functions.