chroGPS

DOI: 10.18129/B9.bioc.chroGPS    

This package is for version 3.7 of Bioconductor; for the stable, up-to-date release version, see chroGPS.

Visualizing the epigenome

Bioconductor version: 3.7

We provide intuitive maps to visualize the association between genetic elements, with emphasis on epigenetics. The approach is based on Multi-Dimensional Scaling. We provide several sensible distance metrics, and adjustment procedures to remove systematic biases typically observed when merging data obtained under different technologies or genetic backgrounds.

Author: Oscar Reina, David Rossell

Maintainer: Oscar Reina <oscar.reina at irbbarcelona.org>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("chroGPS")

 

PDF	R Script	Manual for the chroGPS library
PDF		Reference Manual
Text		NEWS

Details

biocViews	Clustering, Software, Visualization
Version	1.28.0
In Bioconductor since	BioC 2.11 (R-2.15) (6 years)
License	GPL (>=2.14)
Depends	R (>= 3.1.0), GenomicRanges, methods, Biobase, MASS, graphics, stats, changepoint
Imports	cluster, DPpackage, ICSNP
LinkingTo
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SystemRequirements
Enhances	parallel, XML, rgl
URL
Depends On Me
Imports Me
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Build Report

Package Archives

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

Source Package	chroGPS_1.28.0.tar.gz
Windows Binary	chroGPS_1.28.0.zip
Mac OS X 10.11 (El Capitan)	chroGPS_1.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/chroGPS
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/chroGPS
Package Short Url	http://bioconductor.org/packages/chroGPS/
Package Downloads Report	Download Stats