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Install latest GNU R version 3.3.2 on Linux

1) Add CRAN repository

a) Ubuntu
sudo add-apt-repository "deb trusty/"
sudo apt-key adv --keyserver --recv-keys E084DAB9

b) Debian
sudo add-apt-repository "deb jessie-cran3/"
gpg --keyserver --recv-key 381BA480
gpg -a --export 381BA480 | apt-key add -

2) Install R

sudo apt-get update
sudo apt-get install r-base
sudo apt-get install libxml2-dev
sudo apt-get install libcurl4-openssl-dev # required for DESeq2 (annotate -> RCurl)

3) Install R packages DESeq2 & CSS

DESeq2 is required in
CSS is required in

Start R and install packages:

sudo R
> source("")
> biocLite("DESeq2")
Update all/some/none? [a/s/n]: a     # yes, update all old R-packages
> biocLite("optparse")
> biocLite("biom") # for CSS norm, see also: -> how to install biom
> biocLite("metagenomeSeq") # required for CSS normalization
biocLite("randomForest")  # required for
q()   # exit R
Save workspace image? [y/n/c]: n