SpatialView: An interactive web application forvisualization of multiple samples in spatialtranscriptomics experiments

Abstract

Spatial transcriptomics (ST) experiments provide spatially localized measurements of genome-wide gene expression allowing for an unprecedented opportunity to investigate cellular heterogeneity and organization within a tissue. Statistical and computational frameworks exist that implement robust methods for pre-processing and analyzing data in ST experiments. However, the lack of an interactive suite of tools for visualizing ST data and results currently limits the full potential of ST experiments. To fill this gap, we developed SpatialView, an open-source web browser-based interactive application for visualizing data and results from multiple 10x Genomics ST experiments. We anticipate SpatialView will be useful to a broad array of clinical and basic science investigators utilizing ST to study disease. AvailabilitySpatialView is available at https://github.com/kendziorski-lab/SpatialView ; a demo application is available at https://www.biostat.wisc.edu/~kendzior/spatialviewdemo/ Contactcmohanty2@wisc.edu, ckendziorski@wisc.edu Supplementary informationSupplementary data are available at Bioinformatics online.