oligo

Tools for low-level analysis of oligonucleotide arrays.

A package to analyze oligonucleotide arrays (expression/SNP/tiling/exon) at probe-level.

Author	Benilton Carvalho , Rafael A. Irizarry and Ben Bolstad with contributions from Vince Carey, Robert Gentleman, Wolfgang Huber
Maintainer	Benilton Carvalho

To install this package, start R and enter:

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

Classes Used in the Oligo Packages	PDF	R Script
Oligo Vignette	PDF	R Script
Analysis of NimbleGen Expression Data with the oligo Package	PDF	R Script
Reference Manual

biocViews	Microarray , OneChannel , TwoChannel , Preprocessing , SNP , DifferentialExpression , DNAMethylation , ExonArray , GeneExpression , Bioinformatics , DataImport , Transcription , ChIPchip , CopyNumberVariants , CpGIsland
Depends	R , oligoClasses , preprocessCore
Imports	splines , affxparser , graphics , utils , stats , DBI , Biobase , methods , affyio
Suggests	hapmap100kxba , pd.mapping50k.xba240 , pd.hg18.60mer.expr , maqcExpression4plex , genefilter , limma , RColorBrewer
System Requirements
License	LGPL version 2 or newer
URL
Depends On Me	ITALICS , makePlatformDesign , pdInfoBuilder
Imports Me
Suggests Me	oligoClasses
Development History	Bioconductor Changelog