DOI: 10.18129/B9.bioc.scATAC.Explorer  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see scATAC.Explorer.

A Collection of Single-cell ATAC Sequencing Datasets and Corresponding Metadata

Bioconductor version: 3.17

This package provides a tool to search and download a collection of publicly available single cell ATAC-seq datasets and their metadata. scATAC-Explorer aims to act as a single point of entry for users looking to study single cell ATAC-seq data. Users can quickly search available datasets using the metadata table and download datasets of interest for immediate analysis within R.

Author: Arrian Gibson-Khademi [aut, cre], Erik Christensen [aut], Parisa Shooshtari [aut]

Maintainer: Arrian Gibson-Khademi <agibsonk at>

Citation (from within R, enter citation("scATAC.Explorer")):


To install this package, start R (version "4.3") and enter:

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


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:



HTML R Script scATAC.Explorer
PDF   Reference Manual
Text   NEWS


biocViews ExperimentData, ExpressionData, GEO, Genome, PackageTypeData, SequencingData, SingleCellData, Tissue
Version 1.6.0
License Artistic-2.0
Depends R (>= 4.1), SingleCellExperiment, BiocFileCache, data.table, utils, S4Vectors
Imports methods, Matrix
Suggests BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0)
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package scATAC.Explorer_1.6.0.tar.gz
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository git clone
Source Repository (Developer Access) git clone
Package Short Url
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: