---
license: cc-by-sa-4.0
task_categories:
- image-segmentation
language:
- en
tags:
- medical
- image
- ct
- spine
- vertebrae
- segmentation
- landmarks
pretty_name: 'verse-lite'
size_categories:
- n<1K
---


## About
This is a preprocessed redistribution of [VerSe'19 + VerSe'20](https://github.com/anjany/verse), which is released under the `CC BY-SA 4.0` license.

**Dataset summary:** 325 spine CT scans with per-vertebra segmentation masks, and lumbar (L1-L5) centroid landmarks for 250 of them.

**Contents of this repository:**

- `Images/` — 325 files
- `Masks/` — 325 files

📝 Landmark annotations, visualization figures and the benchmark plan files live in 🔥[MedVision](https://huggingface.co/datasets/YongchengYAO/MedVision)🔥, where you can load the complete images and annotations from dataset configs.


## Relation to the source dataset

| | |
| --- | --- |
| In the source | 374 CT series across VerSe'19 + VerSe'20 |
| Excluded here | 30 `sub-gl*` scans (CC BY-NC-ND) and 19 duplicate `_split-verse<NNN>` series |
| **In this repo** | **325 `Images` + 325 `Masks`** |

The 30 `sub-gl*` scans are **excluded**: that imaging is released under `CC BY-NC-ND`, which forbids derivative works, so no derived annotation can be redistributed for them. A further 19 series are dropped by de-leaking — ~18 subjects were scanned as 2-3 separate `_split-verse<NNN>` series, and keeping them all would place the same spine in both the train and test split. 374 scans upstream -> 344 redistributable -> **325 shipped**.

**Why `-Lite`?** The suffix marks this as a *derived* redistribution rather than a copy of the source. These are **preprocessed** volumes — every case has been format-converted, geometry-normalised and reoriented to RAS+ — and for some sources cases or modalities are excluded as well (see the table above). Use it to reproduce MedVision, not as a substitute for the original release. See [Preprocessing](#preprocessing) below for exactly what was changed.


## Preprocessing

- Images and masks standardized to RAS+ orientation; masks cast to `uint16` on the image grid.

- Geometry is read via nibabel's `.affine`, which resolves from QFORM (VerSe files carry `sform_code=0, qform_code=1`, so reading SFORM directly would give a zero matrix).

- Vertebral centroids from the challenge `*_ctd.json` files are **voxel indices in the native orientation** (not world-mm); they are mapped through the native->world->RAS+ chain to 0-based indices in the shipped volume.

- macOS resource forks (`__MACOSX`, `._*`) in the source archives are filtered out.

📝 Field of view varies from cervical-only to whole-body, so only 250 of the 325 scans contain all of L1-L5. Those form the `Images-lumbar/` subset used by the biometry task.


## Segmentation Labels

```python
labels_map = {
    "1": "vertebra C1",
    "2": "vertebra C2",
    "3": "vertebra C3",
    "4": "vertebra C4",
    "5": "vertebra C5",
    "6": "vertebra C6",
    "7": "vertebra C7",
    "8": "vertebra T1",
    "9": "vertebra T2",
    "10": "vertebra T3",
    "11": "vertebra T4",
    "12": "vertebra T5",
    "13": "vertebra T6",
    "14": "vertebra T7",
    "15": "vertebra T8",
    "16": "vertebra T9",
    "17": "vertebra T10",
    "18": "vertebra T11",
    "19": "vertebra T12",
    "20": "vertebra L1",
    "21": "vertebra L2",
    "22": "vertebra L3",
    "23": "vertebra L4",
    "24": "vertebra L5",
    "25": "vertebra L6",
    "28": "vertebra T13"
}
```


## Landmarks

```python
landmarks_map = {
    "P1": "centroid of vertebra L1",
    "P2": "centroid of vertebra L2",
    "P3": "centroid of vertebra L3",
    "P4": "centroid of vertebra L4",
    "P5": "centroid of vertebra L5"
}
```


## News
- [25 Jul, 2026] Initial release. This dataset is integrated into 🔥[MedVision](https://huggingface.co/datasets/YongchengYAO/MedVision)🔥, where you can use these config names to load data in python:

  - `VerSe_BiometricsFromLandmarks_Task01_Sagittal_Test`
  - `VerSe_BiometricsFromLandmarks_Task01_Sagittal_Train`
  - `VerSe_BoxSize_Task01_Axial_Test`
  - `VerSe_BoxSize_Task01_Axial_Train`
  - `VerSe_BoxSize_Task01_Coronal_Test`
  - `VerSe_BoxSize_Task01_Coronal_Train`
  - `VerSe_BoxSize_Task01_Sagittal_Test`
  - `VerSe_BoxSize_Task01_Sagittal_Train`
  - `VerSe_MaskSize_Task01_Axial_Test`
  - `VerSe_MaskSize_Task01_Axial_Train`
  - `VerSe_MaskSize_Task01_Coronal_Test`
  - `VerSe_MaskSize_Task01_Coronal_Train`
  - `VerSe_MaskSize_Task01_Sagittal_Test`
  - `VerSe_MaskSize_Task01_Sagittal_Train`


## Data Usage Agreement
By using the dataset, you agree to the terms as follow.
- You must comply with the original `CC BY-SA 4.0` license terms of the source dataset.
- You are recommended to refer to the source of this dataset in any publication: `https://huggingface.co/datasets/YongchengYAO/VerSe-Lite`
- You must cite the original publication(s):
  - https://doi.org/10.1016/j.media.2021.102166


## Official Release
For more information, please go to the official site: https://github.com/anjany/verse


## Download from Huggingface
```python
# python
from huggingface_hub import snapshot_download
snapshot_download(repo_id="YongchengYAO/VerSe-Lite", repo_type='dataset', local_dir="/your/local/folder")
```