Welcome to the xilmass wiki!
Xilmass is open-source and freely available under the permissive Apache2 license. Xilmass is platform free, therefore works on Windows, Linux and OS-X operating systems. Xilmass is implemented in Java and therefore, make sure that [JDK] (http://www.oracle.com/technetwork/java/javase/downloads/index.html) is already installed on your computer environment. The current program works as a standalone version which can be run by following the steps described underneath, as well as GUI.
This wiki consists of the following page:
1. Start up Xilmass: How to run Xilmass
2. Instructions to run a graphical user-interface (GUI) version for the identification of cross linked peptides
3. Instructions to run a command line (CLI) version for the identification of cross linked peptides
[3.2. Modifications] (https://github.com/compomics/xilmass/wiki/3.2.-Modifications)
4. Visualizing the Xilmass peptides-to-spectrum matches