TENxVisiumData

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13

Visium spatial gene expression data by 10X Genomics

Bioconductor version: Release (3.23)

Collection of Visium spatial gene expression datasets by 10X Genomics, formatted into objects of class SpatialExperiment. Data cover various organisms and tissues, and include: single- and multi-section experiments, as well as single sections subjected to both whole transcriptome and targeted panel analysis. Datasets may be used for testing of and as examples in packages, for tutorials and workflow demonstrations, or similar purposes.

Author: Helena L. Crowell [aut, cre] ORCID: 0000-0002-4801-1767

Maintainer: Helena L. Crowell <helena at crowell.eu>

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

Helena L. Crowell. TENxVisiumData: Visium spatial gene expression data by 10X Genomics. doi:10.18129/B9.bioc.TENxVisiumData, R package version 1.20.0, https://bioconductor.org/packages/TENxVisiumData.

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("TENxVisiumData")

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("TENxVisiumData")

TENxVisiumData	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, Mus_musculus_Data, ReproducibleResearch
Version	1.20.0
In Bioconductor since	BioC 3.13 (R-4.1) (5.5 years)
License	MIT + file LICENSE
Depends	ExperimentHub, SpatialExperiment
Imports	utils
System Requirements
URL	https://github.com/helenalc/TENxVisiumData
Bug Reports	https://github.com/helenalc/TENxVisiumData/issues

Suggests	BiocStyle, knitr, rmarkdown
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me	GSVA, SPOTlight
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	TENxVisiumData_1.20.0.tar.gz
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/TENxVisiumData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/TENxVisiumData
Package Short Url	https://bioconductor.org/packages/TENxVisiumData/
Package Downloads Report	Download Stats