chevreulShiny

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

Tools for managing SingleCellExperiment objects as projects

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DOI: 10.18129/B9.bioc.chevreulShiny

Bioconductor version: Release (3.22)

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 iD 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

Reference Manual PDF

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 1.1.2

In Bioconductor since BioC 3.21 (R-4.5) (0.5 years)

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

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Package Archives

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

Source Package

Windows Binary (x86_64) chevreulShiny_1.1.2.zip

macOS Binary (x86_64)

macOS Binary (arm64)

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

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

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

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

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