To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("CexoR")

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

CexoR

An R package to uncover high-resolution protein-DNA interactions in ChIP-exo replicates

Bioconductor version: Release (2.14)

Strand specific peak-pair calling in ChIP-exo replicates. The cumulative Skellam distribution function (package 'skellam') is used to detect significant normalized count differences of opposed sign at each DNA strand (peak-pairs). Irreproducible discovery rate for overlapping peak-pairs across biological replicates is estimated using the package 'idr'.

Author: Pedro Madrigal <pm12 at sanger.ac.uk>

Maintainer: Pedro Madrigal <pm12 at sanger.ac.uk>

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

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("CexoR")

Documentation

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

browseVignettes("CexoR")

 

PDF R Script CexoR Vignette
PDF   Reference Manual
Text   LICENSE

Details

biocViews Genetics, Sequencing, Software, Transcription
Version 1.2.0
In Bioconductor since BioC 2.13 (R-3.0)
License Artistic-2.0 | GPL-2 + file LICENSE
Depends R (>= 2.10.0), IRanges
Imports Rsamtools, GenomicRanges, rtracklayer, idr
Suggests RUnit, BiocGenerics, BiocStyle
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source CexoR_1.2.0.tar.gz
Windows Binary CexoR_1.2.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) CexoR_1.2.0.tgz
Mac OS X 10.9 (Mavericks) CexoR_1.2.0.tgz
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