ArticlemicroPublication biology2025
Multi-Channel Nuclear Analysis: An ImageJ/FIJI Plugin for Automated Nuclear Segmentation and Multi-Channel Fluorescence Analysis.
Article in microPublication biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Quantitative analysis of fluorescence microscopy images is essential for studying expression levels, subcellular localization and co-occurrence of proteins and other biomolecules. While several automated tools exist for specific applications, there remains a need for user-friendly, customizable tools that can analyze multi-channel fluorescence images with nuclear segmentation capabilities. Here we present Multi-Channel Nuclear Analysis, an open-source ImageJ/FIJI plugin that combines the robust nuclear segmentation capabilities of StarDist with versatile multi-channel analysis features. The tool provides a graphical user interface for configuring analysis parameters, processes multiple images in batch mode, and generates both individual and consolidated measurement tables to facilitate downstream analysis. A companion tool for merging separate channel files into multi-channel images extends compatibility to diverse microscopy systems. Together, these tools enable researchers without extensive programming experience to perform comprehensive quantitative analysis of nuclear-centered multi-channel fluorescence images.
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