TissueViewer:一个基于web的多路图像查看器。

David Gerardus Pieter van IJzendoorn, Magdalena Matusiak, Rob West, Matt van de Rijn
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引用次数: 0

摘要

动机:由空间生物学技术产生的数据集,如多重免疫荧光染色或组织切片的空间转录组学分析,携带着巨大的信息财富。有几个商业平台可以同时获取1-1000个不同的标记信号(例如,MIBI, CODEX, Orion, Nanostring CosMX SMI, Vizgen)。然而,由于这些数据集的规模很大,它们的查看和共享是缓慢的,费力的,并且需要大量的计算资源。结果:为了克服这些挑战,我们开发了TissueViewer,这是一种易于设置和使用的基于网络的查看器,旨在通过互联网以低带宽要求和高速提供高分辨率图像。可用性:TissueViewer可以在GitHub上使用,也可以在TissueViewer.org平台上使用,读者可以上传自己的数据,限制为50gb,与同事分享。补充信息:补充数据可在生物信息学在线获取。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
TissueViewer: a web-based multiplexed image viewer.

Motivation: Datasets generated by spatial biology techniques such as multiplex immunofluorescence staining or spatial transcriptomics profiling of histologic sections carry a tremendous wealth of information. Several commercial platforms exist that can simultaneously acquire 1-1000 distinct marker signals (e.g. MIBI, CODEX, Orion, Nanostring CosMX SMI, Vizgen). However, due to the large size of these datasets, their viewing and sharing are slow, laborious, and require extensive computational resources.

Results: To overcome these challenges, we developed TissueViewer, an easy to setup and use web-based viewer designed to deliver high-resolution images over the internet with low bandwidth requirements and at high speed.

Availability and implementation: TissueViewer is available on GitHub (https://github.com/davidvi/tissueviewer) and can be used on the TissueViewer.org platform, where readers can upload their own data with a limit of 50 GB to share with colleagues.

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