chevreulShiny

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

Tools for managing SingleCellExperiment objects as projects

Bioconductor version: Release (3.21)

Tools for managing SingleCellExperiment objects as projects. Includes functions for analysis and visualization of single-cell data. Also included is a shiny app for visualization of pre-processed scRNA data. Supported by NIH grants R01CA137124 and R01EY026661 to David Cobrinik.

Author: Kevin Stachelek [aut, cre] ORCID: 0000-0003-2085-695X , Bhavana Bhat [aut]

Maintainer: Kevin Stachelek <kevin.stachelek at gmail.com>

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

Installation

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


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

BiocManager::install("chevreulShiny")

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("chevreulShiny")

Preprocessing	HTML	R Script
Shiny App	HTML	R Script
Reference Manual	PDF
NEWS	Text
LICENSE	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Coverage, DataImport, DimensionReduction, GeneExpression, Normalization, Preprocessing, QualityControl, RNASeq, Sequencing, SingleCell, Software, Transcription, Transcriptomics, Visualization
Version	1.0.0
In Bioconductor since	BioC 3.21 (R-4.5) (< 6 months)
License	MIT + file LICENSE
Depends	R (>= 4.5.0), SingleCellExperiment, shiny (>= 1.6.0), shinydashboard, chevreulProcess, chevreulPlot
Imports	alabaster.base, clustree, ComplexHeatmap, DataEditR (>= 0.0.9), DBI, dplyr, DT, EnhancedVolcano, fs, future, ggplot2, ggplotify, grDevices, methods, patchwork, plotly, purrr, rappdirs, readr, RSQLite, S4Vectors, scales, shinyFiles, shinyhelper, shinyjs, shinyWidgets, stats, stringr, tibble, tidyr, tidyselect, utils, waiter, wiggleplotr
System Requirements
URL	https://github.com/whtns/chevreulShiny https://whtns.github.io/chevreulShiny/
Bug Reports	https://github.com/cobriniklab/chevreulShiny/issues

Suggests	BiocStyle, knitr, RefManageR, rmarkdown, testthat (>= 3.0.0), EnsDb.Mmusculus.v79, EnsDb.Hsapiens.v86
Linking To
Enhances
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	chevreulShiny_1.0.0.tar.gz
Windows Binary (x86_64)	chevreulShiny_1.0.0.zip
macOS Binary (x86_64)	chevreulShiny_1.0.0.tgz
macOS Binary (arm64)	chevreulShiny_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/chevreulShiny
Source Repository (Developer Access)	git clone [email protected]:packages/chevreulShiny
Bioc Package Browser	https://code.bioconductor.org/browse/chevreulShiny/
Package Short Url	https://bioconductor.org/packages/chevreulShiny/
Package Downloads Report	Download Stats