XeniumIO
Import and represent Xenium data from the 10X Xenium Analyzer
Bioconductor version: 3.24 · Package version: 1.5.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
The package allows users to readily import spatial data obtained from the 10X Xenium Analyzer pipeline. Supported formats include 'parquet', 'h5', and 'mtx' files. The package mainly represents data as SpatialExperiment objects.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("XeniumIO")Details
| Maintainer | Marcel Ramos <marcel.ramos@sph.cuny.edu> |
| Author | Marcel Ramos [aut, cre] (ORCID: <https://orcid.org/0000-0002-3242-0582>), Dario Righelli [ctb], Estella Dong [ctb], NCI [fnd] (GrantNo.: U24CA289073) |
| License | Artistic-2.0 |
| URL | https://github.com/waldronlab/XeniumIO |
| Bug Reports | https://github.com/waldronlab/XeniumIO/issues |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DataImport, Infrastructure, SingleCell, Software, Spatial |
| Package Short Url | https://bioconductor.org/packages/XeniumIO/ |
Citation
From within R, enter citation("XeniumIO"):
Marcel Ramos. XeniumIO: Import and represent Xenium data from the 10X Xenium Analyzer. doi:10.18129/B9.bioc.XeniumIO, R package version 1.5.0, https://bioconductor.org/packages/XeniumIO.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | XeniumIO_1.5.0.tar.gz |
| Windows binary (x86_64) | XeniumIO_1.5.0.zip |
| macOS binary (arm64) | XeniumIO_1.5.0.tgz |
| macOS binary (x86_64) | XeniumIO_1.5.0.tgz |
Dependencies
Depends: TENxIO, R (>= 4.5.0)
Imports: BiocBaseUtils, BiocGenerics, BiocIO, jsonlite, methods, S4Vectors, SingleCellExperiment, SpatialExperiment, SummarizedExperiment, VisiumIO (>= 1.7.5)
Suggests: arrow, BiocFileCache, BiocStyle, knitr, rmarkdown, tinytest