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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 (3.19)

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] , Aleksander Chlebowski [aut], Aaron Lun [aut], Shiqi Xie [ctb], Tomasz Wlodarczyk [aut]

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

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


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

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

scMultiome tutorial HTML R Script
Reference Manual PDF


biocViews CellCulture, ExperimentData, ExperimentHub, ExpressionData, GEO, Homo_sapiens_Data, PackageTypeData, SequencingData, SingleCellData, Tissue
Version 1.3.0
License CC BY-SA 4.0
Depends AnnotationHub, ExperimentHub(>= 2.8.1), MultiAssayExperiment, SingleCellExperiment, SummarizedExperiment
Imports AzureStor, DelayedArray, GenomicRanges, HDF5Array, S4Vectors, checkmate, methods, rhdf5
System Requirements
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Suggests BiocGenerics, IRanges, Matrix, knitr, rmarkdown, rstudioapi, testthat (>= 3.0.0), devtools, BiocStyle, ExperimentHubData
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Package Archives

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

Source Package scMultiome_1.3.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone https://git.bioconductor.org/packages/scMultiome
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/scMultiome
Package Short Url https://bioconductor.org/packages/scMultiome/
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