论文标题

CORVO:在虚拟现实中可视化细胞X的单细胞数据集

Corvo: Visualizing CellxGene Single-Cell Datasets in Virtual Reality

论文作者

Hyman, Luke, Sbalzarini, Ivo F., Quake, Stephen, Günther, Ulrik

论文摘要

Cellxgene项目已使科学界可以访问单细胞数据,从而为超过500个带注释的数据集提供了基于浏览的无代码分析的工具。但是,单细胞数据需要减少尺寸才能可视化,而2D嵌入并不能充分利用三维人类的空间理解和认知。与可能隐藏基因表达模式的2D可视化相比,3D虚拟现实可能使研究人员能够更好地利用数据集中包含的信息。为此,我们将\ emph {Corvo}是一种完全免费的开源软件工具,将Cellxgene单细胞数据集的可视化和分析用于3D虚拟现实。与Cellxgene类似,Corvo为最终用户采用了无代码方法,但也提供了多模式的用户输入以促进快速导航和分析,并且与现有的Python数据科学生态系统互操作。在本文中,我们解释了Corvo的设计目标,详细介绍了其对虚拟现实可视化和单细胞数据分析的方法,并简要讨论了局限性和未来的扩展。

The CellxGene project has enabled access to single-cell data in the scientific community, providing tools for browsed-based no-code analysis of more than 500 annotated datasets. However, single-cell data requires dimensional reduction to visualize, and 2D embedding does not take full advantage of three-dimensional human spatial understanding and cognition. Compared to a 2D visualization that could potentially hide gene expression patterns, 3D Virtual Reality may enable researchers to make better use of the information contained within the datasets. For this purpose, we present \emph{Corvo}, a fully free and open-source software tool that takes the visualization and analysis of CellxGene single-cell datasets to 3D Virtual Reality. Similar to CellxGene, Corvo takes a no-code approach for the end user, but also offers multimodal user input to facilitate fast navigation and analysis, and is interoperable with the existing Python data science ecosystem. In this paper, we explain the design goals of Corvo, detail its approach to the Virtual Reality visualization and analysis of single-cell data, and briefly discuss limitations and future extensions.

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