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实时可视化:实时可视化倾斜光片显微镜数据,使用内存高效的转换算法

Zichen Wang^1,2, Hiroyuki Hakozaki^1,2, Gillian McMahon^1,2

¹Department of Pharmacology, University of California, San Diego, California, USA.

Journal of microscopy

|October 3, 2024

概括

一个新的WH-Transform算法将光板光显微镜 (LSFM) 数据预处理速度加快了10倍以上. 这使得在标准工作站上实时可视化大型4D数据集,从而彻底改变了生物成像.

科学领域:

生物医学成像技术生物医学成像技术
计算生物学计算生物学
显微镜技术显微镜技术

背景情况:

光片光显微镜 (LSFM) 能够实现高时间分辨率的4D成像.
倾斜样本扫描的LSFM技术,如iSPIM和LLSM,生成需要倾斜和旋转的数据.
目前用于LSFM数据的预处理方法是计算密集型和内存密集型,限制实时分析.

研究的目的:

为快速预处理大型LSFM数据集开发一个内存高效的算法.
为了减少数据预处理时间,并实现实时可视化4D显微镜数据.
为了克服与倾斜样本扫描LSFM数据相关的计算挑战.

主要方法:

开发了WH-Transform,一种新的,内存高效的转换算法.
实现了GPU加速,用于快速处理数据.
与传统方法和现有软件相比,WH-Transform进行了基准测试.

主要成果:

WH-Transform将大图像堆的预处理时间缩短了10倍以上.
该算法展示了线性运行时间复杂性,优于立方和二次方法.
一个2GB的3D卷在3秒内在带GPU的标准工作站上进行了预处理.
对人类肝细胞,肺和大脑器官的4D数据集实现了实时预处理和可视化.

结论:

WH-Transform显著加速LSFM数据预处理,使其具有内存效率和计算可行性.
该算法可以在标准硬件上实现实时数据可视化和分析.
这一进步通过提高可用性和工作流程,彻底改变了使用LSFM和类似显微镜的生物成像应用.

关键词:

算法开发开发的发展算法光显微镜的光显微镜.晶格光片显微镜的使用.光片显微镜光片显微镜显微镜数据处理数据处理显微镜可视化的可视化

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