STExplorer

The goal of STExplorer is to utilise Geography’s spatial data analysis techniques to perform spatially-aware analysis of spatial transcriptomics data.

Installation instructions

Get the latest stable R release from CRAN. Then install STExplorer from Bioconductor using the following code:

This option is still NOT available. Please use the GitHub installation from below. The package is Bioconductor-compatible and we are working towards submitting it to Bioconductor as soon as possible.

# if (!requireNamespace("BiocManager", quietly = TRUE)) {
#     install.packages("BiocManager")
# }
# 
# BiocManager::install("STExplorer")

And the development version from GitHub with:

BiocManager::install("LefterisZ/STExplorer")

Example

The package includes a comprehensive set of vignettes with a variety of examples and use cases. Please refer to the vignettes.

Citation

Below is the citation output from using citation('STExplorer') in R. Please run this yourself to check for any updates on how to cite STExplorer.

print(citation('STExplorer'), bibtex = TRUE)
#> <0-length citation>

Please note that the STExplorer was only made possible thanks to many other R and bioinformatics software authors, which are cited either in the vignettes and/or the paper(s) describing this package.

Code of Conduct

Please note that the STExplorer project is released with a Contributor Code of Conduct. By contributing to this project, you agree to abide by its terms.