Download MicrobeMS

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MicrobeMS is available in two different editions: in (i) a stand-alone Windows 64-bit version requiring the Matlab Compiler Runtime (MCR) 64-bit and (ii) a Matlab pcode toolbox version requiring Matlab R2014 (Windows / Linux) or later.

Please note that you accept with downloading the license conditions of MicrobeMS.

MicrobeMS stand-alone (Windows)

Microbe MS 0.84 stand-alone 64-bit version (Windows, February 2022). To download the installer for this edition of MicrobeMS please use the link below:

Microbe MS 0.82 stand-alone 64-bit version (Windows) from January 2020:

Microbe MS 0.80 stand-alone 64-bit version (Windows) from February 2017:

Microbe MS 0.78 stand-alone 64-bit version (Windows) from November 2016:

MicrobeMS pcode (Windows and Linux)

NEW - MicrobeMS version 0.87 Matlab pcode for Windows and Linux (June 2024): requires Matlab R2022a or newer

MicrobeMS version 0.82 Matlab pcode for Windows and Linux (December 2019):

MicrobeMS version 0.78 Matlab pcode (Windows only!, November 2016):

Test Spectra and Databases

MALDI-TOF mass spectra from strains of Escherichia coli (zip archive, Bruker Daltonics MS data format):

MALDI-TOF mass spectra from strains of Escherichia coli (Matlab data format, structure array spec),
see also Data Format of Spectral Multifiles (*.muf):


Peak list files obtained from mass spectra of strains of Escherichia coli (Matlab data format, structure array C),
see also Peaks List Files (*.pkf) to obtain information on the file format


MS Excel template required to define and transfer metadata items into MicrobeMS,
for file format information see Adding / Editing Metadata of MALDI-TOF Mass Spectral Data:


Download the most actual database versions with microbial MALDI-TOF MS, or synthetic LC-MS libraries:

    Mass Spectrometry Databases from the RKI at ZENODO