An Interactive and Scalable Spot Detection Plugin

Highly-plexed single molecule localization (e.g. multiplexed RNA-FISH) and single particle tracking microscopy experiments rely on the accurate detection of fluorescence spots. Often, the physics of image formation is ignored in favor of standard image processing algorithms. By explicitly accounting for image formation, researchers can calculate the probability that detections are real and specific. Beyond the benefits of a physics-driven approach, there isn’t yet a napari plugin that can help users optimize spot detection before analysis. 

This project seeks to adapt physics-first algorithms into a napari plugin, with the goal of increasing functionality, accuracy and repeatability for users.