Install the R Package "arrayQualityMetrics"

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I had to use the R package “arrayQualityMetrics” to check the quality of some gene chips. Installing this package in Linux takes a few steps. The following is the brief instruction on how to install R package “arayQualityMetrics” in Debian.

# install the graphics library cairo
sudo apt-get install libcairo2-dev
# install X toolkit intrinsiscs development files
sudo apt-get install libxt-dev
# install development files for the Gnome XML library
sudo apt-get install libxml2-dev
# if you have installed BiocInstaller 
library(BiocInstaller)
biocLite('arrayQualityMetrics')
# if you haven't installed R package BiocInstaller
source("http://bioconductor.org/biocLite.R")
biocLite('arrayQualityMetrics')

Installing R package “arrayQualityMetrics” takes a while, so be patient.