GeneRegionScan

GeneRegionScan

Bioconductor version: 2.5

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

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("GeneRegionScan")    

Documentation

PDF

R Script

GeneRegionScan

Reference Manual

Details

biocViews	Microarray, DataImport, Statistics, SNP, OneChannel, Visualization
Depends	methods, Biobase, Biostrings
Imports	Biobase, affxparser, RColorBrewer, Biostrings
Suggests	BSgenome, affy, AnnotationDbi
System Requirements
License	GPL (>= 2)
URL
Depends On Me
Imports Me
Suggests Me
Version	1.2.0

Package Downloads

Package Source	GeneRegionScan_1.2.0.tar.gz
Windows Binary	GeneRegionScan_1.2.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	GeneRegionScan_1.2.0.tgz
Package Downloads Report	Download Stats