Segment Anything in Medical Images and Videos: Benchmark and Deployment

• DOI: 10.48550/arxiv.2408.03322
• Publication Date: 2024-01-01
• Authors: Ma, Jun; Kim, Sumin; Li, Feifei; Baharoon, Mohammed; Asakereh, Reza; Lyu, Hongwei; Wang, Bo
• Keywords: FOS: Computer and information sciences; Computer Vision and Pattern Recognition (cs.CV); Image and Video Processing (eess.IV); Computer Science - Computer Vision and Pattern Recognition; FOS: Electrical engineering, electronic engineering, information engineering; Electrical Engineering and Systems Science - Image and Video Processing

Recent advances in segmentation foundation models have enabled accurate and efficient segmentation across a wide range of natural images and videos, but their utility to medical data remains unclear. In this work, we first present a comprehensive benchmarking of the Segment Anything Model 2 (SAM2) across 11 medical image modalities and videos and point out its strengths and weaknesses by comparing it to SAM1 and MedSAM. Then, we develop a transfer learning pipeline and demonstrate SAM2 can be quickly adapted to medical domain by fine-tuning. Furthermore, we implement SAM2 as a 3D slicer plugin and Gradio API for efficient 3D image and video segmentation. The code has been made publicly available at \url{https://github.com/bowang-lab/MedSAM}.