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

maDB

Microarray database and utility functions for microarray data analysis.

Bioconductor version: 2.13

maDB allows to create a simple microarray database to store microarray experiments and annotation data into it. Affymetrix GeneChip expression values as well as values from two color microarrays can be stored into the database. Whole experiments or subsets from a experiment (or also values for a subset of genes in a subset of microarrays) can be fetched back to R. Additionally maDB provides different utility functions for the microarray data analysis like functions to draw MA plots or volcano plots with the data points color coded according to the local point density or functions that allow a replicate handling of miroarrays.

Author: Johannes Rainer <johannes.rainer at i-med.ac.at>

Maintainer: Johannes Rainer <johannes.rainer at i-med.ac.at>

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("maDB")

 

PDF		maDB-015.pdf
PDF		maDB-016.pdf
PDF		maDB.pdf
PDF		Reference Manual

Details

biocViews	Microarray, OneChannel, Software, TwoChannel, Visualization
Version	1.34.0
In Bioconductor since	BioC 1.6 (R-2.1) or earlier
License	LGPL (>= 2)
Depends	R (>= 2.6.0), Biobase(>= 2.5.5), affy(>= 1.23.4), pgUtils(>= 1.23.2), limma(>= 1.8.0), methods
Imports
Suggests	annaffy(>= 1.6.2), biomaRt(>= 1.8.2), geneplotter
System Requirements
URL
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Imports Me
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Package Archives

Follow Installation instructions to use this package in your R session.

Package Source	maDB_1.34.0.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard)	maDB_1.34.0.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats