made: Microarray Analysis of Differential Expression

This package has completed development and is being submitted to Bioconductor.

In the interim, download the latest version from the releases tab and extract the zip file to a folder.

Note: Before starting the installation of made, you may need to install libxml2-dev or equivalent from the terminal if using a Linux distribution:

• Type sudo apt-get install libxml2-dev in Debian or Ubuntu
• Type yum install libxml2-devel in Fedora or Red Hat Enterprise Linux
• Type sudo zypper install libxml2-devel in OpenSUSE

Then, in R:

1. Use setwd() to set the working directory to that folder
2. Run source("madeinstall.R") to automatically install the required dependencies from CRAN and Bioconductor.

If instead you are using RStudio then you can open madeinstall.R and source it directly.

Note: ReactomePA and GOstats are large dependencies and may take a while to download. Annotation packages must also be downloaded to support a particular microarray platform.