To install this package, start R and enter:

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

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

metagene

A package to produce metagene plots

Bioconductor version: 3.0

This package produces metagene plots to compare the behavior of DNA-interacting proteins at selected groups of genes/features. Pre-calculated features (such as transcription start sites of protein coding gene or enhancer) are available. Bam files are used to increase the resolution. Multiple combination of group of features and or group of bam files can be compared in a single analysis. Bootstraping analysis is used to compare the groups and locate regions with statistically different enrichment profiles.

Author: Charles Joly Beauparlant <charles.joly-beauparlant at crchul.ulaval.ca>, Fabien Claude Lamaze <fabien.lamaze.1 at ulaval.ca>, Rawane Samb <rawane.samb.1 at ulaval.ca>, Astrid Louise Deschenes <Astrid-Louise.Deschenes at crchudequebec.ulaval.ca> and Arnaud Droit <arnaud.droit at crchuq.ulaval.ca>.

Maintainer: Charles Joly Beauparlant <charles.joly-beauparlant at crchul.ulaval.ca>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("metagene")

 

HTML R Script A package to produce Metafeature plots
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Details

biocViews ChIPSeq, Genetics, MultipleComparison, Software
Version 1.0.0
In Bioconductor since BioC 3.0 (R-3.1)
License Artistic-2.0
Depends rtracklayer, GenomicRanges, GenomicAlignments, ggplot2
Imports
LinkingTo
Suggests RUnit, BiocGenerics, knitr
SystemRequirements
Enhances parallel, biomaRt
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 metagene_1.0.0.tar.gz
Windows Binary metagene_1.0.0.zip
Mac OS X 10.6 (Snow Leopard) metagene_1.0.0.tgz
Mac OS X 10.9 (Mavericks) metagene_1.0.0.tgz
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