fidoptStarDist (H&E)
StarDist's pretrained 2D_versatile_he, nuclei as star-convex polygons, trained on MoNuSeg 2018 and TNBC, run as the README runs a pretrained model, every nucleus one label.
SegmentationCPUversion stardist 0.9.2, model 2D_versatile_he of the stardist-models release v0.1 (sha256 f1696ef0)HISTOLOGYBSD-3-Clause
Run it
With its KonfAI app, at the benchmark's settings (the fidopt app repositories are private for now: a Hugging Face token with access opens them):
pip install konfai-apps konfai-apps infer fideus-labs/fidopt-segmentation:StarDist_HE -i image.nii.gz -o out
The app on Hugging Face: its model, its settings and how it is scored.
Results
| Dataset | # | Read by | Score | Failed | Time s |
|---|---|---|---|---|---|
| NuInsSeg, nuclei outlined by hand on H&E | Dice | 0.524 | 0 | 12 |
- Reference
- Schmidt et al., MICCAI 2018; Weigert and Schmidt, ISBI 2022