用于空间分辨转录组学实验的高性能基于网络的交互式可视化工具。

Performant web-based interactive visualization tool for spatially-resolved transcriptomics experiments.

作者信息

Sriworarat Chaichontat, Nguyen Annie, Eagles Nicholas J, Collado-Torres Leonardo, Martinowich Keri, Maynard Kristen R, Hicks Stephanie C

机构信息

Department of Neuroscience, Johns Hopkins School of Medicine, Baltimore, MD, USA.

Lieber Institute for Brain Development, Johns Hopkins Medical Campus, Baltimore, MD, USA.

出版信息

bioRxiv. 2023 Feb 23:2023.01.28.525943. doi: 10.1101/2023.01.28.525943.

DOI:10.1101/2023.01.28.525943

PMID:36747726

原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9900917/

Abstract

High-resolution and multiplexed imaging techniques are giving us an increasingly detailed observation of a biological system. However, sharing, exploring, and customizing the visualization of large multidimensional images can be a challenge. Here, we introduce Samui, a performant and interactive image visualization tool that runs completely in the web browser. Samui is specifically designed for fast image visualization and annotation and enables users to browse through large images and their selected features within seconds of receiving a link. We demonstrate the broad utility of Samui with images generated with two platforms: Vizgen MERFISH and 10x Genomics Visium Spatial Gene Expression. Samui along with example datasets is available at https://samuibrowser.com.

摘要

高分辨率和多路复用成像技术使我们能够对生物系统进行越来越详细的观察。然而，共享、探索和定制大型多维图像的可视化可能是一项挑战。在这里，我们介绍了Samui，这是一个性能卓越且交互式的图像可视化工具，它完全在网络浏览器中运行。Samui专为快速图像可视化和注释而设计，使用户能够在收到链接后的几秒钟内浏览大型图像及其选定特征。我们用两个平台生成的图像展示了Samui的广泛实用性：Vizgen MERFISH和10x Genomics Visium空间基因表达。Samui以及示例数据集可在https://samuibrowser.com上获取。