beadarray

Quality assessment and low-level analysis for Illumina BeadArray data

Bioconductor version: 2.8

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 <Mark.Dunning at cancer.org.uk>

To install this package, start R and enter:

    source("http://bioconductor.org/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 beadsummary.pdf
PDF R Script ImageProcessing.pdf
PDF   Reference Manual

Details

biocViews Microarray, OneChannel, QualityControl, Preprocessing
Depends R (>= 2.13.0), Biobase(>= 2.5.5), methods
Imports BeadDataPackR, limma
Suggests lumi, vsn, affy, hwriter
System Requirements
License GPL-2
URL
Depends On Me
Imports Me arrayQualityMetrics
Suggests Me beadarraySNP, lumi
Version 2.2.0
Since Bioconductor 1.8 (R-2.3)

Package Downloads

Package Source beadarray_2.2.0.tar.gz
Windows Binary beadarray_2.2.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary beadarray_2.2.0.tgz
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