Install R

Install R

Install Packages

To install a new package for R:

1. Login as root
2. R
3. run the following or substitute biocLite(c('simpleaffy',...) for biocLite(c('nameOfPackage'))

Bioconductor Packages:

biocLite()
biocLite(c('simpleaffy','drosgenome1.db','drosgenome1cdf','drosgenome1probe','mouse4302.db',
'mouse4302cdf','mouse4302probe','rgu34a.db','rgu34acdf','rgu34aprobe','mgu74av2.db',
'mgu74av2cdf','mgu74av2probe','mgu74a.db','mgu74acdf','mgu74aprobe', 'affypdnn', 'hgu95av2probe', 'plier',
'moe430acdf', 'moe430aprobe', 'moe430bcdf', 'moe430bprobe', 'qvalue', 'car', 'modeltools', 'coin', 'corpcor',
'rae230acdf', 'gplots', 'hgu133plus2cdf', 'qtl', 'altcdfenvs', 'MoExExonProbesetLocation', 'SPIA',
'RaExExonProbesetLocation','marray','limma','affyPLM','vsn','multtest','marray')) 

Cran Packages: XML gdata gplots corpcor h5r *see specific command below it's more difficult with the hdf5 dependency.

 install.packages('h5r',configure.args="--with-hdf5=/usr/local/hdf5/")