scMultiome

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

Collection of Public Single-Cell Multiome (scATAC + scRNAseq) Datasets

Bioconductor version: Development (3.21)

Single cell multiome data, containing chromatin accessibility (scATAC-seq) and gene expression (scRNA-seq) information analyzed with the ArchR package and presented as MultiAssayExperiment objects.

Author: Xiaosai Yao [cre, aut] (ORCID: ), Aleksander Chlebowski [aut], Aaron Lun [aut], Shiqi Xie [ctb], Tomasz Włodarczyk [aut]

Maintainer: Xiaosai Yao <xiaosai.yao at gmail.com>

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

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("scMultiome")

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("scMultiome")

scMultiome tutorial	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	CellCulture, ExperimentData, ExperimentHub, ExpressionData, GEO, Homo_sapiens_Data, PackageTypeData, SequencingData, SingleCellData, Tissue
Version	1.7.0
License	CC BY-SA 4.0
Depends	AnnotationHub, ExperimentHub(>= 2.8.1), MultiAssayExperiment, SingleCellExperiment, SummarizedExperiment
Imports	AzureStor, GenomicRanges, HDF5Array, S4Vectors, checkmate, methods, rhdf5, alabaster.matrix
System Requirements
URL

Suggests	BiocGenerics, IRanges, Matrix, knitr, rmarkdown, rstudioapi, testthat (>= 3.0.0), devtools, BiocStyle, ExperimentHubData
Linking To
Enhances
Depends On Me
Imports Me	epiregulon
Suggests Me	epiregulon.extra
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	scMultiome_1.7.0.tar.gz
Windows Binary (x86_64)
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/scMultiome
Source Repository (Developer Access)	git clone [email protected]:packages/scMultiome
Package Short Url	https://bioconductor.org/packages/scMultiome/
Package Downloads Report	Download Stats