kissDE

This is the development version of kissDE; for the stable release version, see kissDE.

Retrieves Condition-Specific Variants in RNA-Seq Data

Bioconductor version: Development (3.19)

Retrieves condition-specific variants in RNA-seq data (SNVs, alternative-splicings, indels). It has been developed as a post-treatment of 'KisSplice' but can also be used with user's own data.

Author: Clara Benoit-Pilven [aut], Camille Marchet [aut], Janice Kielbassa [aut], Lilia Brinza [aut], Audric Cologne [aut], Aurélie Siberchicot [aut, cre], Vincent Lacroix [aut], Frank Picard [ctb], Laurent Jacob [ctb], Vincent Miele [ctb]

Maintainer: Aurélie Siberchicot <aurelie.siberchicot at univ-lyon1.fr>

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

Installation

To install this package, start R (version "4.4") and enter:


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("kissDE")

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	AlternativeSplicing, DifferentialSplicing, ExperimentalDesign, GenomicVariation, RNASeq, Software, Transcriptomics
Version	1.23.0
In Bioconductor since	BioC 3.7 (R-3.5) (6 years)
License	GPL (>= 2)
Depends
Imports	aods3, Biobase, DESeq2, DSS, ggplot2, gplots, graphics, grDevices, matrixStats, stats, utils, foreach, doParallel, parallel, shiny, shinycssloaders, ade4, factoextra, DT
System Requirements
URL	https://github.com/lbbe-software/kissDE

Suggests	BiocStyle, testthat
Linking To
Enhances
Depends On Me
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Build Report	Build Report

Package Archives

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

Source Package
Windows Binary
macOS Binary (x86_64)
macOS Binary (arm64)
Source Repository	git clone https://git.bioconductor.org/packages/kissDE
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/kissDE
Package Short Url	https://bioconductor.org/packages/kissDE/
Package Downloads Report	Download Stats