To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DRIMSeq")

In most cases, you don't need to download the package archive at all.

DRIMSeq

   

This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see DRIMSeq.

Differential splicing and sQTL analyses with Dirichlet-multinomial model in RNA-Seq

Bioconductor version: 3.4

The package provides two frameworks. One for the differential splicing analysis between different conditions and one for the sQTL analysis. Both are based on modeling the counts of genomic features (i.e., transcripts, exons or exonic bins) with Dirichlet-multinomial distribution. The package also makes available functions for visualization and exploration of the data and results.

Author: Malgorzata Nowicka [aut, cre]

Maintainer: Malgorzata Nowicka <gosia.nowicka at uzh.ch>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("DRIMSeq")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("DRIMSeq")

 

PDF R Script Differential splicing and sQTL analyses in RNA-seq with 'DRIMSeq' package
PDF   Reference Manual
Text   NEWS

Details

biocViews AlternativeSplicing, DifferentialExpression, DifferentialSplicing, GeneExpression, Genetics, MultipleComparison, RNASeq, SNP, Sequencing, Software, WorkflowStep
Version 1.2.0
In Bioconductor since BioC 3.3 (R-3.3) (1 year)
License GPL (>= 3)
Depends R (>= 3.3.0)
Imports GenomicRanges, IRanges, S4Vectors, BiocGenerics, methods, BiocParallel, edgeR, utils, stats, grDevices, ggplot2, reshape2
LinkingTo
Suggests PasillaTranscriptExpr, GeuvadisTranscriptExpr, grid, BiocStyle, knitr, testthat
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source DRIMSeq_1.2.0.tar.gz
Windows Binary DRIMSeq_1.2.0.zip
Mac OS X 10.9 (Mavericks) DRIMSeq_1.2.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/DRIMSeq/tree/release-3.4
Package Short Url http://bioconductor.org/packages/DRIMSeq/
Package Downloads Report Download Stats

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