scRNAseqApp

This is the released version of scRNAseqApp; for the devel version, see scRNAseqApp.

A single-cell RNAseq Shiny app-package

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DOI: 10.18129/B9.bioc.scRNAseqApp

Bioconductor version: Release (3.22)

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] ORCID iD ORCID: 0000-0002-8652-2488

Maintainer: Jianhong Ou <jou at morgridge.org>

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

Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("scRNAseqApp")

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("scRNAseqApp")

scRNAseqApp Vignette HTML R Script

Reference Manual PDF

NEWS Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews RNASeq, SingleCell, Software, Visualization

Version 1.10.0

In Bioconductor since BioC 3.17 (R-4.3) (2.5 years)

License GPL-3

Depends R (>= 4.3.0)

Imports bibtex, bslib, circlize, ComplexHeatmap, colourpicker, data.table, DBI, DT, fs, GenomicRanges, GenomeInfoDb, ggdendro, ggforce, ggplot2, ggrepel, ggridges, grDevices, grid, gridExtra, htmltools, IRanges, jsonlite, Matrix, magrittr, methods, patchwork, plotly, RColorBrewer, RefManageR, reshape2, 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, shinytest2

Linking To

Enhances celldex, future, SingleR, SummarizedExperiment, tricycle

Depends On Me

Imports Me

Suggests Me

Links To Me

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Package Archives

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

Source Package scRNAseqApp_1.10.0.tar.gz

Windows Binary (x86_64) scRNAseqApp_1.9.10.zip (64-bit only)

macOS Binary (x86_64) scRNAseqApp_1.10.0.tgz

macOS Binary (arm64) scRNAseqApp_1.10.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/scRNAseqApp

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/scRNAseqApp

Bioc Package Browser https://code.bioconductor.org/browse/scRNAseqApp/

Package Short Url https://bioconductor.org/packages/scRNAseqApp/

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