IntEREst

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see IntEREst.

Intron-Exon Retention Estimator

Bioconductor version: 3.8

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")):

To install this package, start R (version "3.5") and enter:


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

For older versions of R, please refer to the appropriate Bioconductor release.

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

browseVignettes("IntEREst")

IntEREst, Intron Exon Retention Estimator HTML R Script

Reference Manual PDF

NEWS Text

Version 1.6.2

In Bioconductor since BioC 3.5 (R-3.4) (7 years)

License GPL-2

Imports seqLogo, Biostrings, GenomicFeatures, IRanges, seqinr, graphics, grDevices, stats, utils, grid, methods, DBI, RMySQL, GenomicAlignments, BiocParallel, BiocGenerics, DEXSeq, DESeq2

System Requirements

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Suggests clinfun, knitr, BSgenome.Hsapiens.UCSC.hg19

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Build Report Build Report

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

Source Package IntEREst_1.6.2.tar.gz

Windows Binary IntEREst_1.6.2.zip

Mac OS X 10.11 (El Capitan) IntEREst_1.6.2.tgz

Source Repository git clone https://git.bioconductor.org/packages/IntEREst

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/IntEREst

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Old Source Packages for BioC 3.8 Source Archive