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

A single-cell RNAseq Shiny app-package

Bioconductor version: Development (3.20)

The scRNAseqApp is a Shiny app package designed for interactive visualization of single-cell data. It is an enhanced version derived from the ShinyCell, repackaged to accommodate multiple datasets. The app enables users to visualize data containing various types of information simultaneously, facilitating comprehensive analysis. Additionally, it includes a user management system to regulate database accessibility for different users.

Author: Jianhong Ou [aut, cre]

Maintainer: Jianhong Ou <jianhong.ou at>

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


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:

scRNAseqApp Vignette HTML R Script
Reference Manual PDF


biocViews RNASeq, SingleCell, Software, Visualization
Version 1.5.7
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License GPL-3
Depends R (>= 4.3.0)
Imports bibtex, bslib, circlize, ComplexHeatmap, data.table, DBI, DT, GenomicRanges, GenomeInfoDb, ggdendro, ggforce, ggplot2, ggrepel, ggridges, grDevices, grid, gridExtra, htmltools, IRanges, jsonlite, magrittr, methods, patchwork, plotly, RColorBrewer, RefManageR, rhdf5, Rsamtools, RSQLite, rtracklayer, S4Vectors, scales, scrypt, Seurat, SeuratObject, shiny, shinyhelper, shinymanager, slingshot, SingleCellExperiment, sortable, stats, tools, xfun, xml2, utils
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Suggests rmarkdown, knitr, testthat, BiocStyle
Linking To
Enhances celldex, future, SingleR, SummarizedExperiment, tricycle
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Package Archives

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

Source Package scRNAseqApp_1.5.7.tar.gz
Windows Binary
macOS Binary (x86_64) scRNAseqApp_1.5.7.tgz
macOS Binary (arm64) scRNAseqApp_1.5.7.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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