SFEData

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

Example SpatialFeatureExperiment datasets

Bioconductor version: Development (3.21)

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] (ORCID: ), Alik Huseynov [aut] (ORCID: ), Kayla Jackson [aut] (ORCID: ), Lior Pachter [aut, ths] (ORCID: )

Maintainer: Lambda Moses <dlu2 at caltech.edu>

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

Installation

To install this package, start R (version "4.5") and enter:


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

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

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	1.9.0
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	concordexR, SpatialFeatureExperiment, Voyager, xenLite
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	SFEData_1.9.0.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 [email protected]:packages/SFEData
Package Short Url	https://bioconductor.org/packages/SFEData/
Package Downloads Report	Download Stats