Whole-slide tissue segmentation
Tissue segmentation
across methods.
Segmenteer provides a common workflow for tissue segmentation on whole-slide images, optional evaluation, and visual inspection of results on any dataset.
One experiment keeps predictions, optional evaluation, and visual review aligned to the same slide cohort.
Interactive viewer
Inspect the experiment visually.
Browse slide thumbnails, toggle segmentation outlines, compare predictions, and add ground truth or metrics only when they are available.
Overview
A consistent experimental workflow.
Run segmentation on your WSI cohort, evaluate predictions when reference data are available, and inspect the same experiment visually with or without ground truth.
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Segment
Generate tissue-region predictions for the selected whole-slide images.
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Evaluate
Quantify prediction quality with reference annotations when available, or use reference-free metrics when they are not.
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Inspect
Review thumbnails and polygon outlines across slides; add ground truth and evaluation metrics when available.
Flexible use
Use Segmenteer on your own WSI cohort.
Segmenteer supports workflows ranging from predictions-only visual review to reference-based evaluation and benchmarking.
Start with whole-slide images and segmentation predictions. Add GeoJSON ground truth and evaluation metrics when available; the viewer remains useful with predictions alone.
Repository