To install this package, start R and enter:

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

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

IntEREst

DOI: 10.18129/B9.bioc.IntEREst    

Intron-Exon Retention Estimator

Bioconductor version: Release (3.5)

This package performs Intron-Exon Retention analysis on RNA-seq data (.bam files).

Author: Ali Oghabian <Ali.Oghabian at Helsinki.Fi>, Dario Greco <dario.greco at helsinki.fi>, Mikko Frilander <Mikko.Frilander at helsinki.fi>

Maintainer: Ali Oghabian <Ali.Oghabian at Helsinki.Fi>, Mikko Frilander <Mikko.Frilander at helsinki.fi>

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

Installation

To install this package, start R and enter:

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

Documentation

HTML R Script IntEREst, Intron Exon Retention Estimator
PDF   Reference Manual

Details

biocViews Alignment, AlternativeSplicing, Coverage, DifferentialExpression, DifferentialSplicing, Normalization, RNASeq, Sequencing, Software
Version 1.0.0
In Bioconductor since BioC 3.5 (R-3.4) (< 6 months)
License GPL-2
Depends R (>= 3.4), GenomicRanges, Rsamtools, SummarizedExperiment, edgeR, S4Vectors
Imports seqLogo, Biostrings, GenomicFeatures, IRanges, seqinr, limma, graphics, grDevices, stats, utils, grid, methods, DBI, RMySQL, GenomicAlignments, BiocParallel, BiocGenerics
LinkingTo
Suggests clinfun, knitr, BSgenome.Hsapiens.UCSC.hg19
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 IntEREst_1.0.0.tar.gz
Windows Binary IntEREst_1.0.0.zip
Mac OS X 10.11 (El Capitan) IntEREst_1.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/IntEREst
Package Short Url http://bioconductor.org/packages/IntEREst/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: