tidySingleCellExperiment

DOI: 10.18129/B9.bioc.tidySingleCellExperiment  

Brings SingleCellExperiment to the Tidyverse

Bioconductor version: Release (3.17)

tidySingleCellExperiment is an adapter that abstracts the 'SingleCellExperiment' container in the form of a tibble and allows the data manipulation, plotting and nesting using 'tidyverse'.

Author: Stefano Mangiola [aut, cre]

Maintainer: Stefano Mangiola <mangiolastefano at gmail.com>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("tidySingleCellExperiment")

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("tidySingleCellExperiment")

 

HTML	R Script	Overview of the tidySingleCellExperiment package
PDF		Reference Manual

Details

biocViews	AssayDomain, Clustering, DifferentialExpression, GeneExpression, Infrastructure, Normalization, QualityControl, RNASeq, Sequencing, Software
Version	1.10.0
In Bioconductor since	BioC 3.12 (R-4.0) (3 years)
License	GPL-3
Depends	R (>= 4.1.0), ttservice, SingleCellExperiment
Imports	SummarizedExperiment, dplyr, tibble, tidyr, ggplot2, plotly, magrittr, rlang, purrr, lifecycle, methods, utils, S4Vectors, tidyselect, ellipsis, vctrs, pillar, stringr, cli, fansi, Matrix
LinkingTo
Suggests	BiocStyle, testthat, knitr, markdown, SingleCellSignalR, SingleR, scater, scran, tidyHeatmap, igraph, GGally, uwot, celldex, dittoSeq, EnsDb.Hsapiens.v86
SystemRequirements
Enhances
URL	https://github.com/stemangiola/tidySingleCellExperiment
BugReports	https://github.com/stemangiola/tidySingleCellExperiment/issues
Depends On Me
Imports Me
Suggests Me	sccomp
Links To Me
Build Report

Package Archives

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

Source Package	tidySingleCellExperiment_1.10.0.tar.gz
Windows Binary	tidySingleCellExperiment_1.10.0.zip
macOS Binary (x86_64)	tidySingleCellExperiment_1.10.0.tgz
macOS Binary (arm64)	tidySingleCellExperiment_1.10.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/tidySingleCellExperiment
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/tidySingleCellExperiment
Bioc Package Browser	https://code.bioconductor.org/browse/tidySingleCellExperiment/
Package Short Url	https://bioconductor.org/packages/tidySingleCellExperiment/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.17	Source Archive