oligo

Tools for low-level analysis of oligonucleotide arrays.

Bioconductor version: 2.5

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

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

Maintainer: Benilton Carvalho

To install this package, start R and enter:

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

Documentation

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

Reference Manual

Details

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 (>= 2)
URL
Depends On Me	ITALICS, makePlatformDesign, pdInfoBuilder
Imports Me
Suggests Me	oligoClasses
Version	1.10.4

Package Downloads

Package Source	oligo_1.10.4.tar.gz
Windows Binary	oligo_1.10.4.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	oligo_1.10.4.tgz
Package Downloads Report	Download Stats