MIST: A Simple and Scalable End-To-End 3D Medical Imaging Segmentation Framework
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arXiv
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| Autori principali: | , , , , , , , , , |
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| Natura: | Preprint |
| Pubblicazione: |
2024
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| Soggetti: | |
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| author | Celaya, Adrian Lim, Evan Glenn, Rachel Mi, Brayden Balsells, Alex Schellingerhout, Dawid Netherton, Tucker Chung, Caroline Riviere, Beatrice Fuentes, David |
| author_facet | Celaya, Adrian Lim, Evan Glenn, Rachel Mi, Brayden Balsells, Alex Schellingerhout, Dawid Netherton, Tucker Chung, Caroline Riviere, Beatrice Fuentes, David |
| contents | Medical imaging segmentation is a highly active area of research, with deep learning-based methods achieving state-of-the-art results in several benchmarks. However, the lack of standardized tools for training, testing, and evaluating new methods makes the comparison of methods difficult. To address this, we introduce the Medical Imaging Segmentation Toolkit (MIST), a simple, modular, and end-to-end medical imaging segmentation framework designed to facilitate consistent training, testing, and evaluation of deep learning-based medical imaging segmentation methods. MIST standardizes data analysis, preprocessing, and evaluation pipelines, accommodating multiple architectures and loss functions. This standardization ensures reproducible and fair comparisons across different methods. We detail MIST's data format requirements, pipelines, and auxiliary features and demonstrate its efficacy using the BraTS Adult Glioma Post-Treatment Challenge dataset. Our results highlight MIST's ability to produce accurate segmentation masks and its scalability across multiple GPUs, showcasing its potential as a powerful tool for future medical imaging research and development. |
| format | Preprint |
| id |
arxiv_https___arxiv_org_abs_2407_21343 |
| institution | arXiv |
| publishDate | 2024 |
| record_format | arxiv |
| spellingShingle | MIST: A Simple and Scalable End-To-End 3D Medical Imaging Segmentation Framework Celaya, Adrian Lim, Evan Glenn, Rachel Mi, Brayden Balsells, Alex Schellingerhout, Dawid Netherton, Tucker Chung, Caroline Riviere, Beatrice Fuentes, David Image and Video Processing Artificial Intelligence Computer Vision and Pattern Recognition Machine Learning Medical imaging segmentation is a highly active area of research, with deep learning-based methods achieving state-of-the-art results in several benchmarks. However, the lack of standardized tools for training, testing, and evaluating new methods makes the comparison of methods difficult. To address this, we introduce the Medical Imaging Segmentation Toolkit (MIST), a simple, modular, and end-to-end medical imaging segmentation framework designed to facilitate consistent training, testing, and evaluation of deep learning-based medical imaging segmentation methods. MIST standardizes data analysis, preprocessing, and evaluation pipelines, accommodating multiple architectures and loss functions. This standardization ensures reproducible and fair comparisons across different methods. We detail MIST's data format requirements, pipelines, and auxiliary features and demonstrate its efficacy using the BraTS Adult Glioma Post-Treatment Challenge dataset. Our results highlight MIST's ability to produce accurate segmentation masks and its scalability across multiple GPUs, showcasing its potential as a powerful tool for future medical imaging research and development. |
| title | MIST: A Simple and Scalable End-To-End 3D Medical Imaging Segmentation Framework |
| topic | Image and Video Processing Artificial Intelligence Computer Vision and Pattern Recognition Machine Learning |
| url | https://arxiv.org/abs/2407.21343 |