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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 (3.19)

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")):

Installation

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

Details

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
URL
See More
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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