This page was last updated on Friday, 23-Dec-2016 12:32:12 CST

Installation notes for Bioconductor version 2.13

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Prerequisites

• R
  1. $ sudo apt-get install r-base-dev
  2. For cummeRbund
     $ sudo apt-get install libcurl4-gnutls-dev

Installation

1. $ sudo R
2. $ source("http://bioconductor.org/biocLite.R")
3. To install a selection of core Bioconductor packages, use
   $ biocLite()
4. To verify if all packages are up to date, use
   $ biocValid()
5. To update all your installed packages, use
   $ biocLite(character())
6. To install the edgeR package used by Trinity
   $ biocLite("edgeR")
7. $ biocLite("ctc")
8. To install cummeRbund
   $ biocLite("cummeRbund")
9. To install EBSeq
   $ biocLite("EBSeq")