About MZmine 3

MZmine 3 is an open-source software for mass-spectrometry data processing. The goals of the project is to provide a user-friendly, flexible and easily extendable software with a complete set of modules covering the entire MS data analysis workflow. All algorithms are stored in the Mass Spectrometry Development Kit (MSDK).

More information about the software can be found on the MZmine website.

Java version

MZmine requires Java runtime (JRE) version 1.8 or newer.


MZmine 3 is a free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version.

MZmine 3 is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.



Please read our brief tutorial on how to contribute new code to MZmine.


You will need the following prerequisites to build MZmine from sources:

To build the MZmine package from the sources as version X.Y, run the following commands in this directory:

mvn versions:set -DgenerateBackupPoms=false -DnewVersion=X.Y mvn clean jfx:native

The MZmine distribution will be placed in target/jfx/native

If you encounter any problems, please contact the developers: https://github.com/mzmine/mzmine3/issues

Code style