README.md

metadata

license: other
task_categories:
  - image-segmentation
language:
  - en
  - zh
pretty_name: GenSegDataset Processed Medical Segmentation Backup

GenSegDataset

English

This repository is a processed backup of medical image segmentation datasets used by the SegGen/NPJ experiments.

Each *.tar archive expands to one dataset directory in the unified layout:

<dataset>/<protocol>/<split>/{images,masks}/
<dataset>/metadata.json
<dataset>/manifest.jsonl

The archives contain extracted and standardized PNG image/mask pairs. Splits are already prepared; users do not need to unzip original raw sources or create train/val/test splits again.

Before upload, each dataset was checked for:

• existing train/val/test split directories,
• images/ and masks/ pairing by filename stem,
• metadata.json,
• manifest.jsonl.

中文

本仓库是 SegGen/NPJ 实验使用的医学图像分割数据集的已处理备份。

每个 *.tar 解压后都是一个已经标准化好的数据集目录，统一结构如下：

<dataset>/<protocol>/<split>/{images,masks}/
<dataset>/metadata.json
<dataset>/manifest.jsonl

这些压缩包中保存的是已经解压、标准化并划分好的 PNG 图像/掩码对，不是原始 raw zip。使用时不需要重新解压原始数据，也不需要重新划分 train/val/test。

上传前已检查：

• 是否存在 train/val/test 划分目录；
• images/ 与 masks/ 是否按文件 stem 一一对应；
• 是否存在 metadata.json；
• 是否存在 manifest.jsonl。

Inventory / 数据清单

Dataset 数据集	Archive 压缩包	Server size 服务器大小	Total images 总图像数	Protocols train/val/test 划分
acdc_png	acdc_png.tar	61M	726	official:136/210/380
bus_bra	bus_bra.tar	171M	1875	official:1312/188/375
busi	busi.tar	17G	4535	fold01:545/78/157; fold02:545/78/157; fold03:546/78/156; fold04:547/78/155; fold05:547/78/155; synthonly:400/78/157
consep	consep.tar	88M	656	official:352/80/224
cvc_clinicdb	cvc_clinicdb.tar	938M	612	official:490/61/61
cvc_colondb	cvc_colondb.tar	50M	380	official:266/38/76
drive	drive.tar	1.8M	20	official:14/2/4
endoscene	endoscene.tar	107M	912	official:547/183/182
etis_larib	etis_larib.tar	30M	196	official:137/19/40
fives	fives.tar	311M	800	official:480/120/200
ham10000	ham10000.tar	1.7G	10015	holdout:7010/1002/2003
idridd_segmentation	idridd_segmentation.tar	3.6M	405	fold01:43/11/27; fold02:43/11/27; fold03:43/11/27; fold04:43/11/27; fold05:44/10/27
kvasir_seg	kvasir_seg.tar	17G	1000	official:800/100/100
medsegdb_isic2018	medsegdb_isic2018.tar	24G	5194	holdout:2582/369/737; synthonly:400/369/737
medsegdb_kits19	medsegdb_kits19.tar	1.3G	20080	fold01:2832/479/705; fold02:2966/231/819; fold03:3036/465/515; fold04:2854/286/876; fold05:2510/405/1101
monuseg	monuseg.tar	411M	816	official:496/96/224
pannuke_semantic	pannuke_semantic.tar	1.2G	23703	fold01:2722/2523/2656; fold02:2656/2722/2523; fold03:2523/2656/2722
ph2	ph2.tar	27M	200	holdout:140/20/40
refuge2	refuge2.tar	133M	1200	official:400/400/400
udiat	udiat.tar	17M	163	official:114/16/33

Task grouping / 任务分组

Modality 模态	Dataset(s) 数据集	Task 任务
Dermoscopy 皮肤镜	medsegdb_isic2018, ham10000, ph2	Skin lesion segmentation 皮肤病灶分割
Colonoscopy / Endoscopy 结肠镜/内镜	kvasir_seg, cvc_clinicdb, cvc_colondb, endoscene, etis_larib	Polyp segmentation 息肉分割
Breast ultrasound 乳腺超声	busi, bus_bra, udiat	Breast lesion segmentation 乳腺病灶分割
Fundus 眼底	fives, drive	Vessel segmentation 血管分割
Fundus 眼底	refuge2	Optic disc/cup segmentation 视盘/视杯分割
Fundus 眼底	idridd_segmentation	Diabetic retinopathy lesion / optic disc segmentation 糖网病灶/视盘分割
Histopathology 病理	pannuke_semantic	Semantic nuclei segmentation / cell typing 细胞核语义分割/分类
Histopathology 病理	monuseg, consep	Nuclei segmentation 细胞核分割
CT	medsegdb_kits19	Kidney/tumor foreground segmentation 肾/肿瘤前景分割
MRI	acdc_png	Cardiac structure segmentation 心脏结构分割

Notes / 备注

• HF_UPLOAD_INVENTORY.tsv contains the same split/count audit in tabular form.
• HF_UPLOAD_INVENTORY.tsv 中保存了同样的划分和数量审计表。
• Some older archives existed before this update; missing datasets were added from /home/wzhang/LSC/Dataset/Segmentation/processed_unified on 2026-07-01.
• 部分旧压缩包在本次更新前已经存在；本次已从服务器 processed_unified 目录补齐缺失数据集。