kissDE
This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see kissDE.
Retrieves Condition-Specific Variants in RNA-Seq Data
Bioconductor version: 3.7
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("kissDE")):
Installation
To install this package, start R (version "3.5") 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")| kissDE.pdf | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | AlternativeSplicing, DifferentialSplicing, ExperimentalDesign, GenomicVariation, RNASeq, Software, Transcriptomics |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.7 (R-3.5) (6 years) |
| License | GPL (>= 2) |
| Depends | |
| Imports | aod, Biobase, DESeq2, DSS, ggplot2, glmnet, gplots, graphics, grDevices, matrixStats, R.utils, stats, utils |
| System Requirements | |
| URL |
See More
| Suggests | BiocStyle, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | kissDE_1.0.0.tar.gz |
| Windows Binary | kissDE_1.0.0.zip |
| Mac OS X 10.11 (El Capitan) | kissDE_1.0.0.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 |
| Old Source Packages for BioC 3.7 | Source Archive |