论文标题
半自动生成紧密的二进制掩模和非凸层等等值，用于定量分析3D生物样品
Semi-Automatic Generation of Tight Binary Masks and Non-Convex Isosurfaces for Quantitative Analysis of 3D Biological Samples
论文作者
论文摘要
当前的体内显微镜可以使我们的完整生物体的详细时空成像（3D+T）详细介绍，并为其在细胞水平上的发育提供了见解。即使成像速度和质量稳步改善，完全自动化的分割和分析方法通常不够准确。在想象大型样品（100UM -1mm）并深处的样品中，尤其如此。果蝇胚胎发生被广泛用作发育范式，提出了这一挑战的例子，尤其是在细胞轮廓需要成像的情况下 - 在其他系统中也是一般挑战。为了处理果蝇胚胎的3D+t灯页显微镜图像时，我们开发了一系列半自动开源工具。提出的方法包括半自动掩蔽过程，非凸3D等曲面自动投影到2D表示以及细胞分割和跟踪。
Current in vivo microscopy allows us detailed spatiotemporal imaging (3D+t) of complete organisms and offers insights into their development on the cellular level. Even though the imaging speed and quality is steadily improving, fully-automated segmentation and analysis methods are often not accurate enough. This is particularly true while imaging large samples (100um - 1mm) and deep inside the specimen. Drosophila embryogenesis, widely used as a developmental paradigm, presents an example for such a challenge, especially where cell outlines need to imaged - a general challenge in other systems as well. To deal with the current bottleneck in analyzing quantitatively the 3D+t light-sheet microscopy images of Drosophila embryos, we developed a collection of semi-automatic open-source tools. The presented methods include a semi-automatic masking procedure, automatic projection of non-convex 3D isosurfaces to 2D representations as well as cell segmentation and tracking.
