SFEData

Example SpatialFeatureExperiment datasets

Bioconductor version: Release (3.19)

Example spatial transcriptomics datasets with Simple Feature annotations as SpatialFeatureExperiment objects. Technologies include Visium, slide-seq, Nanostring CoxMX, Vizgen MERFISH, and 10X Xenium. Tissues include mouse skeletal muscle, human melanoma metastasis, human lung, breast cancer, and mouse liver.

Author: Lambda Moses [aut, cre] , Alik Huseynov [aut] , Kayla Jackson [aut] , Lior Pachter [aut, ths]

Maintainer: Lambda Moses <dlu2 at caltech.edu>

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

Installation

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


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

BiocManager::install("SFEData")

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("SFEData")

Example SpatialFeatureExperiment datasets	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, Mus_musculus_Data, SingleCellData, SpatialData, Tissue
Version	1.6.0
License	Artistic-2.0
Depends
Imports	BiocFileCache, AnnotationHub, ExperimentHub, utils
System Requirements
URL	https://github.com/pachterlab/SFEData
Bug Reports	https://github.com/pachterlab/SFEData/issues

Suggests	BiocStyle, knitr, rmarkdown, SeuratObject, SpatialFeatureExperiment, testthat (>= 3.0.0)
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me	SpatialFeatureExperiment, Voyager
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	SFEData_1.6.0.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/SFEData
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/SFEData
Package Short Url	https://bioconductor.org/packages/SFEData/
Package Downloads Report	Download Stats