Imagej Plugin [verified] | Itcn

: Select "Detect Dark Peaks" (if inverted) and click "Count." ImageJ will generate a results table and a marked image showing where each nucleus was detected. Modern Alternatives

The ITCN plugin has found applications in various biological and medical research fields: itcn imagej plugin

| Problem | Manifestation | Workaround | |---------|---------------|-------------| | | Fewer nuclei counted on dim side | Apply Process > Subtract Background (rolling ball radius = 2x nucleus width) before ITCN | | Highly clumped nuclei (e.g., liver sections) | Undercounting by 20–40% | Use Plugins > Segmentation > Watershed before ITCN, or switch to StarDist (deep learning) | | Non-spherical nuclei (e.g., smooth muscle) | Overcounts (splits elongated nuclei) | Use manual thresholding + Analyze Particles with circularity filter (0.6–1.0) | | Very low SNR | False positives from noise | Apply Process > Filters > Median (radius 2) pre-filtering | : Select "Detect Dark Peaks" (if inverted) and click "Count