switchde

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

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4

Switch-like differential expression across single-cell trajectories

Bioconductor version: Release (3.23)

Inference and detection of switch-like differential expression across single-cell RNA-seq trajectories.

Author: Kieran Campbell [aut, cre]

Maintainer: Kieran Campbell <kieranrcampbell at gmail.com>

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

Kieran Campbell. switchde: Switch-like differential expression across single-cell trajectories. doi:10.18129/B9.bioc.switchde, R package version 1.38.0, https://bioconductor.org/packages/switchde.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("switchde")

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("switchde")

An overview of the switchde package	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DifferentialExpression, GeneExpression, ImmunoOncology, RNASeq, Regression, SingleCell, Software, Transcriptomics
Version	1.38.0
In Bioconductor since	BioC 3.4 (R-3.3) (10 years)
License	GPL (>= 2)
Depends	R (>= 3.4), SingleCellExperiment
Imports	SummarizedExperiment, dplyr, ggplot2, methods, stats
System Requirements
URL	https://github.com/kieranrcampbell/switchde
Bug Reports	https://github.com/kieranrcampbell/switchde

Suggests	knitr, rmarkdown, BiocStyle, testthat, numDeriv, tidyr
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	switchde_1.38.0.tar.gz
Windows Binary (x86_64)	switchde_1.38.0.zip
macOS Binary (big-sur-x86_64)	switchde_1.38.0.tgz
macOS Binary (sonoma-arm64)	switchde_1.38.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/switchde
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/switchde
Package Short Url	https://bioconductor.org/packages/switchde/
Package Downloads Report	Download Stats