Download MZmine 2

MZmine 2 beta (version 1.96) can be downloaded here.

Change log

1.96 - 2009/08/04

• on-line identification using METLIN, HMDB and KEGG databases
• started development of new alignment module using RANSAC algorithm
• project saving/loading code cleaned-up and simplified

1.95 - 2009/04/22

• new implementation of project saving/loading
• new task controller module and preferences dialog
• methods for automatic identification of fragment, adducts and complexes
• improvements of peak picking speed and memory usage

1.94 - 2009/02/25

• new JTree component for browsing the project items
• improvement of 2D visualizer

1.93 - 2009/01/30

• added new visualizers - scatter plot, histogram
• added peak list XML import and export
• added a simplified MZviewer mode for viewing analyzed data
• peak detection split into 3 separate modules

1.92 - 2008/11/12

• added a module for searching related peaks - fragments, dimers etc.
• isotope pattern visualization and similarity comparison

1.91 - 2008/09/22

• added missing library for reading Thermo RAW files on Windows
• fixed opening of CDF files created by Thermo XConverter
• bug fixes in raw data filtering
• on-line connection to PubChem Compound database

Please keep in mind that MZmine 2 is under heavy development and results obtained with it should be verified independently. Also, file formats may change during development and there is no guarantee that projects created using current beta version will be readable by the final version.

System requirements

• 2 GHz CPU (2 cores or more), 2 GB memory or better
• Java Virtual Machine version Java SE 6 or newer (available from http://java.sun.com)
• Java3D (available from http://java3d.dev.java.net)

Installation instructions

After downloading the software package, unpack it to a new folder. MZmine 2 can be started by running one of the following startup scripts:

startMZmine_Windows.bat (on Windows)
startMZmine_MacOSX.command (on Mac OS X)
startMZmine_Linux.sh (on Linux/Unix systems)

The startup scripts can be edited and tuned to your needs. You may set a path to a particular Java Virtual Machine (JVM) or adjust its parameters. For example, if you are running a 64-bit system with a plenty of memory, you may add the java -d64 option and increase the JVM heap size by adjusting the -Xms and -Xmx parameters. Detailed description of java options can be found on Sun website.

Source code

Please see the development page.

Old version (MZmine 1)

The last version of original MZmine 1 series is 0.60. This version is already old and unsupported, but it can be still downloaded from here.