spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data

Abstract

MotivationSpatially-resolved transcriptomics has now enabled the quantification of high-throughput and transcriptome-wide gene expression in intact tissue while also retaining the spatial coordinates. Incorporating the precise spatial mapping of gene activity advances our understanding of intact tissuespecific biological processes. In order to interpret these novel spatial data types, interactive visualization tools are necessary. ResultsWe describe spatialLIBD, an R/Bioconductor package to interactively explore spatially-resolved transcriptomics data generated with the 10x Genomics Visium platform. The package contains functions to interactively access, visualize, and inspect the observed spatial gene expression data and data-driven clusters identified with supervised or unsupervised analyses, either on the users computer or through a web application. AvailabilityspatialLIBD is available at bioconductor.org/packages/spatialLIBD. Supplementary informationSupplementary data are available at Bioinformatics online.