GeneRegionScan

DOI: 10.18129/B9.bioc.GeneRegionScan    

GeneRegionScan

Bioconductor version: Release (3.7)

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>

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

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 1.36.0
In Bioconductor since BioC 2.4 (R-2.9) (9.5 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
Links To Me
Build Report  

Package Archives

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

Source Package GeneRegionScan_1.36.0.tar.gz
Windows Binary GeneRegionScan_1.36.0.zip
Mac OS X 10.11 (El Capitan) GeneRegionScan_1.36.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/GeneRegionScan
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/GeneRegionScan
Package Short Url http://bioconductor.org/packages/GeneRegionScan/
Package Downloads Report Download Stats

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