Difference between revisions of "MicrobeMS - A Matlab Toolbox for Microbial Identification Based on Mass Spectrometry"

From MicrobeMS Wiki
Jump to navigation Jump to search
Line 20: Line 20:
 
== Preparing Mass Spectra ==
 
== Preparing Mass Spectra ==
  
* [[Adding / Editing Metadata of MALDI-TOF Mass Spectral Data|Adding / editing metadata of MALDI-TOF MS data files]]
+
* [[Adding / Editing Metadata of MALDI-TOF Mass Spectral Data|Adding / editing metadata of MS data files]]
 
* [[Management of Sample Information|Management of sample information (spectral metadata)]] (taxonomic information, culture conditions, sample preparation methods, etc.)
 
* [[Management of Sample Information|Management of sample information (spectral metadata)]] (taxonomic information, culture conditions, sample preparation methods, etc.)
  

Revision as of 18:23, 15 January 2020

Introduction

The software package available from MicrobeMS is a program designed specifically for the analysis of MALDI-TOF mass spectra from microbial samples. The MicrobeMS software was developed by Peter Lasch at the Robert-Koch-Institut (RKI) in Berlin/Germany and can be used to identify microbial strains and species based on their mass spectral patterns. The program is a Matlab-based comprehensive package that operates under Windows 7/8/8.1/10 and LINUX (Debian, MicrobeMS versions later than 0.81). Original MALDI-TOF mass spectra in the format defined by Bruker Daltonics or by Shimadzu (via the mzXML data format) can be imported, processed and converted to a Matlab data matrix format specific to the MicrobeMS program.

The software permits standard mass spectral manipulations such as smoothing, baseline correction, normalization, peak detection, auto-calibration and some other functions. Due to the fact that the software runs also in a complete Windows or LINUX 64-bit environment the number of spectra in the data sets is limited only by the amount of available memory (RAM).

See also the MicrobeMS website for more information.

Getting Started

Preparing Mass Spectra

Description of the Data File Formats

Import and Export of Mass Spectra and Mass Spectral Libraries

Spectral Analysis and Visualization

Identification and Classification

Identification of MALDI-TOF MS Biomarker Peaks