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TENxXeniumData

This is the development version of TENxXeniumData; for the stable release version, see TENxXeniumData.

Collection of Xenium spatial data by 10X genomics


Bioconductor version: Development (3.20)

Collection of Xenium spatial transcriptomics datasets provided by 10x Genomics, formatted into the Bioconductor classes, the SpatialExperiment or SpatialFeatureExperiment (SFE), to facilitate seamless integration into various applications, including examples, demonstrations, and tutorials. The constructed data objects include gene expression profiles, per-transcript location data, centroid, segmentation boundaries (e.g., cell or nucleus boundaries), and image.

Author: Matineh Rahmatbakhsh [aut, cre], Monica Ge [aut]

Maintainer: Matineh Rahmatbakhsh <matinerb.94 at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("TENxXeniumData")

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("TENxXeniumData")
TENxXeniumData HTML R Script
Reference Manual PDF
LICENSE Text

Details

biocViews ExperimentData, ExperimentHub, SpatialData
Version 1.1.0
License MIT + file LICENSE
Depends ExperimentHub
Imports SpatialExperiment, SpatialFeatureExperiment, BumpyMatrix, SummarizedExperiment, utils
System Requirements
URL https://github.com/mrbakhsh/TENxXeniumData
Bug Reports https://github.com/mrbakhsh/TENxXeniumData/issues
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Suggests BiocStyle, knitr, rmarkdown
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Package Archives

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

Source Package TENxXeniumData_1.1.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/TENxXeniumData
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TENxXeniumData
Package Short Url https://bioconductor.org/packages/TENxXeniumData/
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