tidySingleCellExperiment

This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see tidySingleCellExperiment.

Brings SingleCellExperiment to the Tidyverse


Bioconductor version: 3.13

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

Author: Stefano Mangiola [aut, cre]

Maintainer: Stefano Mangiola <mangiolastefano at gmail.com>

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

Installation

To install this package, start R (version "4.1") 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")
Overview of the tidySingleCellExperiment package HTML R Script
Reference Manual PDF

Details

biocViews AssayDomain, Clustering, DifferentialExpression, GeneExpression, Infrastructure, Normalization, QualityControl, RNASeq, Sequencing, Software
Version 1.2.1
In Bioconductor since BioC 3.12 (R-4.0) (3.5 years)
License GPL-3
Depends R (>= 4.0.0), SingleCellExperiment
Imports SummarizedExperiment, dplyr, tibble, tidyr, ggplot2, plotly, magrittr, rlang, purrr, lifecycle, methods, utils, S4Vectors, tidyselect, ellipsis, pillar, stringr, cli, fansi
System Requirements
URL https://github.com/stemangiola/tidySingleCellExperiment
Bug Reports https://github.com/stemangiola/tidySingleCellExperiment/issues
See More
Suggests BiocStyle, testthat, knitr, markdown, SingleCellSignalR, SingleR, scater, scran, tidyHeatmap, igraph, GGally, Matrix, uwot, celldex, dittoSeq, EnsDb.Hsapiens.v86
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
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Build Report Build Report

Package Archives

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

Source Package tidySingleCellExperiment_1.2.1.tar.gz
Windows Binary tidySingleCellExperiment_1.2.1.zip
macOS 10.13 (High Sierra) tidySingleCellExperiment_1.2.1.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 3.13 Source Archive