scRNAseqApp

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

A single-cell RNAseq Shiny app-package

Bioconductor version: Development (3.19)

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 duke.edu>

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

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("scRNAseqApp")

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

Documentation


Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	RNASeq, SingleCell, Software, Visualization
Version	1.3.25
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
System Requirements
URL	https://github.com/jianhong/scRNAseqApp
Bug Reports	https://github.com/jianhong/scRNAseqApp/issues

Suggests	rmarkdown, knitr, testthat, BiocStyle
Linking To
Enhances	celldex, future, SingleR, SummarizedExperiment, tricycle
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/scRNAseqApp
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/scRNAseqApp
Package Short Url	https://bioconductor.org/packages/scRNAseqApp/
Package Downloads Report	Download Stats