XeniumIO
This is the development version of XeniumIO; for the stable release version, see XeniumIO.
Import and represent Xenium data from the 10X Xenium Analyzer
Bioconductor version: Development (3.23)
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.
Author: Marcel Ramos [aut, cre]
, Dario Righelli [ctb], Estella Dong [ctb]
Maintainer: Marcel Ramos <marcel.ramos at sph.cuny.edu>
citation("XeniumIO")):
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("XeniumIO")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | DataImport, Infrastructure, SingleCell, Software, Spatial |
| Version | 1.1.3 |
| In Bioconductor since | BioC 3.21 (R-4.5) (0.5 years) |
| License | Artistic-2.0 |
| Depends | TENxIO, R (>= 4.5.0) |
| Imports | BiocBaseUtils, BiocGenerics, BiocIO, jsonlite, methods, S4Vectors, SingleCellExperiment, SpatialExperiment, SummarizedExperiment, VisiumIO |
| System Requirements | |
| URL | https://github.com/waldronlab/XeniumIO |
| Bug Reports | https://github.com/waldronlab/XeniumIO/issues |
See More
| Suggests | arrow, BiocFileCache, BiocStyle, knitr, rmarkdown, tinytest |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/XeniumIO |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/XeniumIO |
| Package Short Url | https://bioconductor.org/packages/XeniumIO/ |
| Package Downloads Report | Download Stats |