TissueViewer: A Web-Based Multiplexed Image Viewer

Abstract 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 TissueViewer is available on GitHub 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. Supplementary information Supplementary data are available at Bioinformatics online.