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README.md
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---
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license: cc-by-nc-4.0
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tags: [medical-imaging, segmentation, benchmark]
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---
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# GenSeg-Baselines
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Baseline benchmark for 2D medical image segmentation: **8 methods x 10 datasets x 3 seeds/folds, 7 metrics**.
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Companion to the [GenSegDataset](https://huggingface.co/datasets/MaybeRichard/GenSegDataset).
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**Methods:** UNet, UNet++, DeepLabV3+ (ResNet-50/ImageNet), Attention-UNet (scratch),
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TransUNet (R50-ViT-B/16), Swin-UNet (Swin-Tiny), nnU-Net v2 (250ep), U-Mamba (UMambaBot, 100ep).
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**Datasets:** cvc_clinicdb, kvasir_seg, fives, busi, refuge2, acdc, idridd, pannuke, isic2018, kits19.
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**Metrics:** Dice, IoU, HD95, ASSD, Sensitivity, Specificity, Precision (+ efficiency).
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## Layout
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- `code/` - baseline framework (train/test/aggregate), scripts, conda envs. *(Generative SegGen code excluded.)*
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- `results/` - per-run `metrics.json` + aggregated `summary.{html,csv,md,tex}` + `efficiency.md`.
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- `weights/` - curated checkpoints: best seed per (dataset, arch) for framework; best fold for nnU-Net / U-Mamba.
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## Note
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These are the **256-px baseline** (confirmed). A resolution-fair re-evaluation (conv methods retrained at a
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higher per-dataset resolution; all methods scored at a common R so HD95 is comparable) is in progress and
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will be added later.
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