Installing BioConductor

Configuring R to work behind a firewall

Within a company network you need to set the proxy server. The following command does this by setting an R environment variable to the proxy:port;

Sys.putenv("HTTP_PROXY"="[URL]:[PORT]")

Once this is set you can check if the variable is set with;

Sys.getenv("HTTP_PROXY")

Now you can fetch the following scripts over the internet;

source("http://www.bioconductor.org/getBioC.R") source("http://www.bioconductor.org/biocLite.R")

Typing the following commands will display the source code of the functions for installing BioConductor automatically. 'getBioC' installs a fairly comprehensive installation, 'biocLite' installs a minimal installation.

getBioC biocLite

Type the following command to install Bioconductor getBioC() or biocLite() depending on type of installation.

See also

• BioConductor install guide