The STexampleData package contains a collection of spatial transcriptomics datasets, which have been formatted into the SpatialExperiment Bioconductor class, for use in examples, demonstrations, and tutorials. The datasets are from several different technological platforms and have been sourced from various publicly available sources. Several datasets include images and/or reference annotation labels.
The STexampleData package is available from Bioconductor.
A vignette containing examples and documentation is available from Bioconductor.
The release version of the STexampleData package can be installed from Bioconductor:
install.packages("BiocManager")
BiocManager::install("STexampleData")
The development version can be installed from the development version of Bioconductor (see Bioconductor website for details) or from GitHub:
install.packages("remotes")
remotes::install_github("lmweber/STexampleData")
- Righell D.*, Weber L.M.*, Crowell H.L.*, Pardo B., Collado-Torres L., Ghazanfar S., Lun A.T.L., Hicks S.C.*, and Risso D.* (2022). SpatialExperiment: infrastructure for spatially resolved transcriptomics data in R using Bioconductor. Bioinformatics, btac299.