GeneRegionScan

DOI: 10.18129/B9.bioc.GeneRegionScan    

GeneRegionScan

Bioconductor version: Release (3.6)

A package with focus on analysis of discrete regions of the genome. This package is useful for investigation of one or a few genes using Affymetrix data, since it will extract probe level data using the Affymetrix Power Tools application and wrap these data into a ProbeLevelSet. A ProbeLevelSet directly extends the expressionSet, but includes additional information about the sequence of each probe and the probe set it is derived from. The package includes a number of functions used for plotting these probe level data as a function of location along sequences of mRNA-strands. This can be used for analysis of variable splicing, and is especially well suited for use with exon-array data.

Author: Lasse Folkersen, Diego Diez

Maintainer: Lasse Folkersen <lasfol at cbs.dtu.dk>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("GeneRegionScan")

 

PDF	R Script	GeneRegionScan
PDF		Reference Manual

Details

biocViews	DataImport, Microarray, OneChannel, SNP, Software, Visualization
Version	1.34.0
In Bioconductor since	BioC 2.4 (R-2.9) (9 years)
License	GPL (>= 2)
Depends	methods, Biobase(>= 2.5.5), Biostrings
Imports	S4Vectors(>= 0.9.25), Biobase(>= 2.5.5), affxparser, RColorBrewer, Biostrings
LinkingTo
Suggests	BSgenome, affy, AnnotationDbi
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.

Source Package	GeneRegionScan_1.34.0.tar.gz
Windows Binary	GeneRegionScan_1.34.0.zip
Mac OS X 10.11 (El Capitan)	GeneRegionScan_1.34.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/GeneRegionScan
Package Short Url	http://bioconductor.org/packages/GeneRegionScan/
Package Downloads Report	Download Stats