README.md

---
annotations_creators: []
language: en
size_categories:
- n<1K
task_categories: []
task_ids: []
pretty_name: btcv
tags:
- Med-SAM2
- Medical-SAM2
- btcv
- ct
- fiftyone
- fiftyone
- medical
- sam2
- scan
- segmentation
- video
description: The "Beyond the Cranial Vault" (BTCV) dataset used by Medical-SAM2 paper.
  Treats CT scans as a video samples for fine-tuning the Semgent-Anything-2 model.
dataset_summary: '


  ![image/png](dataset_preview.png)



  This is a [FiftyOne](https://github.com/voxel51/fiftyone) dataset with 30 video samples.


  ## Installation


  If you haven''t already, install FiftyOne:


  ```bash

  pip install -U fiftyone

  ```


  ## Usage


  ```python

  import fiftyone as fo

  from fiftyone.utils.huggingface import load_from_hub


  # Load the dataset

  # Note: other available arguments include ''max_samples'', etc

  dataset = load_from_hub("Voxel51/BTCV-CT-as-video-MedSAM2-dataset")


  # Launch the App

  session = fo.launch_app(dataset)

  ```

  '
---

# Dataset Card for btcv

<!-- Provide a quick summary of the dataset. -->




![image/png](dataset_preview.png)


This is a [FiftyOne](https://github.com/voxel51/fiftyone) dataset with 30 video samples.

## Installation

If you haven't already, install FiftyOne:

```bash
pip install -U fiftyone
```

## Usage

```python
import fiftyone as fo
from fiftyone.utils.huggingface import load_from_hub

# Load the dataset
# Note: other available arguments include 'max_samples', etc
dataset = load_from_hub("Voxel51/BTCV-CT-as-video-MedSAM2-dataset")

# Launch the App
session = fo.launch_app(dataset)
```


## Dataset Details

### Dataset Description

<!-- Provide a longer summary of what this dataset is. -->

This dataset is the "Beyond the Cranial Vault" (BTCV) dataset used by Medical-SAM2 paper. Med-SAM2 fine-tunes the Segment Anything Model 2 on to accurately segment CT-scan imagery.
The paper "adopts the philosophy of taking medical images as videos"; so, the images have been converted into videos, and maybe easily resampled into frames using `dataset.to_frames(sample_frames=True)`.

- **Curated by:** [Synapse](https://www.synapse.org/Synapse:syn3193805/wiki/89480)
- **Shared by [optional]:** [Jiayuan Zhu](https://huggingface.co/datasets/jiayuanz3/btcv/tree/main) and [Med-SAM2 Authors](https://github.com/MedicineToken/Medical-SAM2)

### Dataset Sources [optional]

<!-- Provide the basic links for the dataset. -->

- **Med-SAM2 Github Repository:** [MedicineToken/Medical-SAM2](https://github.com/MedicineToken/Medical-SAM2)
- **Paper:** [Medical SAM 2: Segment medical images as video via Segment Anything Model 2](https://arxiv.org/abs/2408.00874)
- **Data Repository:** [Med-SAM2 preprocessed dataset on HF](https://huggingface.co/datasets/jiayuanz3/btcv/tree/main)
- **Demo [optional]:** [Coming Soon...]

## Uses

<!-- Address questions around how the dataset is intended to be used. -->

### Direct Use

<!-- This section describes suitable use cases for the dataset. -->

[More Information Needed]

### Out-of-Scope Use

<!-- This section addresses misuse, malicious use, and uses that the dataset will not work well for. -->

[More Information Needed]

## Dataset Structure

<!-- This section provides a description of the dataset fields, and additional information about the dataset structure such as criteria used to create the splits, relationships between data points, etc. -->

[More Information Needed]

## Dataset Creation

### Curation Rationale

<!-- Motivation for the creation of this dataset. -->

[More Information Needed]

### Source Data

<!-- This section describes the source data (e.g. news text and headlines, social media posts, translated sentences, ...). -->

#### Data Collection and Processing

<!-- This section describes the data collection and processing process such as data selection criteria, filtering and normalization methods, tools and libraries used, etc. -->

[More Information Needed]

#### Who are the source data producers?

<!-- This section describes the people or systems who originally created the data. It should also include self-reported demographic or identity information for the source data creators if this information is available. -->

[More Information Needed]

### Annotations [optional]

<!-- If the dataset contains annotations which are not part of the initial data collection, use this section to describe them. -->

#### Annotation process

<!-- This section describes the annotation process such as annotation tools used in the process, the amount of data annotated, annotation guidelines provided to the annotators, interannotator statistics, annotation validation, etc. -->

[More Information Needed]

#### Who are the annotators?

<!-- This section describes the people or systems who created the annotations. -->

[More Information Needed]

#### Personal and Sensitive Information

<!-- State whether the dataset contains data that might be considered personal, sensitive, or private (e.g., data that reveals addresses, uniquely identifiable names or aliases, racial or ethnic origins, sexual orientations, religious beliefs, political opinions, financial or health data, etc.). If efforts were made to anonymize the data, describe the anonymization process. -->

[More Information Needed]

## Bias, Risks, and Limitations

<!-- This section is meant to convey both technical and sociotechnical limitations. -->

[More Information Needed]

### Recommendations

<!-- This section is meant to convey recommendations with respect to the bias, risk, and technical limitations. -->

Users should be made aware of the risks, biases and limitations of the dataset. More information needed for further recommendations.

## Citation [optional]

<!-- If there is a paper or blog post introducing the dataset, the APA and Bibtex information for that should go in this section. -->

**BibTeX:**

[More Information Needed]

**APA:**

[More Information Needed]

## Glossary [optional]

<!-- If relevant, include terms and calculations in this section that can help readers understand the dataset or dataset card. -->

[More Information Needed]

## Dataset Card Authors

- [Evatt Harvey-Salinger](https://huggingface.co/evatt-harvey-salinger)