beadarray

Quality assessment and low-level analysis for Illumina BeadArray data

Bioconductor version: Release (2.9)

The package is able to read bead-level data (raw TIFFs and text files) output by BeadScan as well as bead-summary data from BeadStudio. Methods for quality assessment and low-level analysis are provided.

Author: Mark Dunning, Mike Smith, Jonathan Cairns, Andy Lynch, Matt Ritchie

Maintainer: Mark Dunning

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("beadarray")

Documentation

PDF	R Script	beadarray.pdf
PDF	R Script	beadlevel.pdf
PDF	R Script	beadsummary.pdf
PDF	R Script	ImageProcessing.pdf
PDF		Reference Manual
Text		NEWS

Details

biocViews	Microarray, OneChannel, QualityControl, Preprocessing
Depends	R, Biobase, methods, ggplot2
Imports	BeadDataPackR, limma, AnnotationDbi
Suggests	lumi, vsn, affy, hwriter, beadarrayExampleData, illuminaHumanv3.db
System Requirements
License	GPL-2
URL
Depends On Me
Imports Me	arrayQualityMetrics
Suggests Me	beadarraySNP, lumi
Version	2.4.1
Since	Bioconductor 1.8 (R-2.3)

Package Downloads

Package Source	beadarray_2.4.1.tar.gz
Windows Binary	beadarray_2.4.1.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	beadarray_2.4.1.tgz
Package Downloads Report	Download Stats

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