kissDE

DOI: 10.18129/B9.bioc.kissDE  

Retrieves Condition-Specific Variants in RNA-Seq Data

Bioconductor version: Release (3.16)

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 "4.2") 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 1.18.0
In Bioconductor since BioC 3.7 (R-3.5) (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_1.18.0.tar.gz
Windows Binary kissDE_1.18.0.zip
macOS Binary (x86_64) kissDE_1.18.0.tgz
macOS Binary (arm64) kissDE_1.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/kissDE
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/kissDE
Bioc Package Browser https://code.bioconductor.org/browse/kissDE/
Package Short Url https://bioconductor.org/packages/kissDE/
Package Downloads Report Download Stats

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