kissDE

DOI: 10.18129/B9.bioc.kissDE    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see kissDE.

Retrieves Condition-Specific Variants in RNA-Seq Data

Bioconductor version: 3.15

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>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("kissDE")

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("kissDE")

 

PDF	R Script	kissDE.pdf
PDF		Reference Manual

Details

biocViews	AlternativeSplicing, DifferentialSplicing, ExperimentalDesign, GenomicVariation, RNASeq, Software, Transcriptomics
Version	1.16.0
In Bioconductor since	BioC 3.7 (R-3.5) (4.5 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
LinkingTo
Suggests	BiocStyle, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	kissDE_1.16.0.tar.gz
Windows Binary	kissDE_1.16.0.zip
macOS Binary (x86_64)	kissDE_1.16.0.tgz
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