Installation

1. R requirement

R (http://www.r-project.org) is a language and environment for statistical computing and graphics. We assume R version (>= 3.0.2) has been installed in your local machine. The current version can be installed following quick instructions below for different platforms (Windows, Mac, and Linux).

• Quick link for Windows: Download R for Windows.

• Quick link for Mac: Download R for Mac OS X 10.6 (Snow Leopard or higher).

• Below are shell command lines for R installation in Terminal (for Linux):

Assume you have a ROOT (sudo) privilege:

sudo su
wget http://www.stats.bris.ac.uk/R/src/base/R-3/R-3.2.1.tar.gz
tar xvfz R-3.2.1.tar.gz
cd R-3.2.1
./configure
make
make check
make install
R # start R

Assume you do not have a ROOT privilege and want R installation under your home directory (below /home/hfang should be replaced with yours):

wget http://www.stats.bris.ac.uk/R/src/base/R-3/R-3.2.1.tar.gz
tar xvfz R-3.2.1.tar.gz
cd R-3.2.1
./configure --prefix=/home/hfang/R-3.2.1
make
make check
make install
/home/hfang/R-3.2.1/bin/R # start R

2. Install the package from Bioconductor and R-Forge

Notes: below are R command lines (NOT shell command lines).

To install stable release version, run:

source("http://bioconductor.org/biocLite.R")
biocLite(c("supraHex","devtools"))

To install latest development version (highly recommended for benefits of latest improvements), run:

library(devtools)
for(pkg in c("supraHex")){
    if(pkg %in% rownames(installed.packages())) remove.packages(pkg)
    install_github(repo=paste("hfang-bristol",pkg,sep="/"))
}