Mass spectrometry data analysis made easy. MZmine help you with differential analysis of mass spectrometry data.

MZmine 2 can read and process both unit mass resolution and exact mass resolution (e.g. FTMS) data in both continuous and centroided modes, including fragmentation (MSn) scans.

Visualization
MZmine 2 can visualize your raw data together with peak picking and identification results, which is very useful for evaluating different peak detection methods.

Peak picking
Peak detection in MZmine 2 is performed in a three-step manner: first, mass values are detected within each spectrum (several methods are available, depending on the nature of the data).

Observing the results
MZmine 2 can report the quantification results in table form or using charts. Direct export of the data to CSV (comma-separated) file is also possible.

Peak list processing
There are several modules for further processing of peak detection results, including deisotoping, filtering and alignment. Identification of peaks can be performed by searching a custom database or by connecting to PubChem Compound database.

Statistical analysis
MZmine 2 contains basic methods for statistical analysis of processed data. However, development of these methods is not considered high priority, as processed data can be easily exported to a third-party statistical software.

MZmine 2 can run on any platform which has a Java runtime available (version 1.6 or higher). A startup script is provided for MS Windows (startMZmine_Windows.bat), Mac OS X (startMZmine_MacOSX.command) and Linux (startMZmine_Linux.sh) environments. The startup script may be edited to tweak various Java runtime parameters. Particularly, the amount of memory allocated for the Java Virtual Machine may be adjusted by editing the HEAP_SIZE parameter in the startup script. Default value is set to 1GB. If your computer has more RAM available and you wish to use it for MZmine 2, please edit the startup script.

Requirements:
* Java

The license of this software is Free, you can free download and free use this cad software.