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SpatialExperimentIO

This is the released version of SpatialExperimentIO; for the devel version, see SpatialExperimentIO.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21

Read in Xenium, CosMx, MERSCOPE or STARmapPLUS data as SpatialExperiment object

DOI: 10.18129/B9.bioc.SpatialExperimentIO

Bioconductor version: Release (3.23)

Read in imaging-based spatial transcriptomics technology data. Current available modules are for Xenium by 10X Genomics, CosMx by Nanostring, MERSCOPE by Vizgen, or STARmapPLUS from Broad Institute. You can choose to read the data in as a SpatialExperiment or a SingleCellExperiment object.

Author: Yixing E. Dong [aut, cre] ORCID: 0009-0003-5115-5686

Maintainer: Yixing E. Dong <estelladong729 at gmail.com>

Citation (from within R, enter citation("SpatialExperimentIO")):

Yixing E. Dong. SpatialExperimentIO: Read in Xenium, CosMx, MERSCOPE or STARmapPLUS data as SpatialExperiment object. doi:10.18129/B9.bioc.SpatialExperimentIO, R package version 1.4.0, https://bioconductor.org/packages/SpatialExperimentIO.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("SpatialExperimentIO")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("SpatialExperimentIO")

Details

Package Archives

Follow Installation instructions to use this package in your R session.