SciPathJ Segmentation and Classification Pipeline for Tissue Histopathology
An open-source software for automated tissue segmentation and cell classification from H&E stained histology images. Designed for researchers, by researchers.
Key Features
Powerful tools for histopathology image analysis
Automated Segmentation
Automatically segment cells, nuclei, cytoplasm, and vessels from H&E stained microscopy images with high precision.
Cell Classification
Define custom cell classes and train XGBoost models to classify all cells in your segmented dataset.
Comprehensive Features
Extract 150+ features including shape, size, and stain color information exported to CSV format.
ImageJ Compatible
Fully functional standalone or as an ImageJ/Fiji plugin for seamless integration into your workflow.
About SciPathJ
SciPathJ (Segmentation and Classification of Images - Pipeline for the Analysis of Tissue Histopathology) is a Java software that automates the analysis of H&E-stained microscopy images.
It processes individual images or entire folders by segmenting cells, nuclei, cytoplasm, and vessels. The software saves comprehensive measurements including shape, size, and stain color information to CSV format.
Users can define custom cell classes and train XGBoost models to classify all cells in the segmented dataset. The program is fully functional standalone, but also compatible with ImageJ/Fiji for seamless integration into existing workflows.
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Ready to Get Started?
Download SciPathJ and start analyzing your histology images today.