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How to convert data into imzML?

  • Thermo: converter for LTQ- and Orbitrap-based instruments is available for download
  • Waters: imzML files can be generated using an export filter in Waters' High Definition Imaging (HDI) software
  • Bruker: conversion module 'toimzml' developed by CEA-LIST is availabe. Please contact Jean-Pierre Both
  • ABI: 'Analyze' format can be converteed by 'toimzml'. Please contact Jean-Pierre Both
  • mzML: imzMLConverter (converts mzML to imzML)
  • mspire - a gem for programming language ruby: the mspire executable has a subcommand to_imzml. (commandline interface with rich options) 

Software tools

imzML is already implemented in several MS imaging applications.

  • data exchange and evaluation within the COMPUTIS consortium (see below)
  • DataCubeExplorer
  • BioMap (currently works for 'CONTINUOUS' binary mode only. Version that includes 'PROCESSED' mode will be available shortly)
  • Spectviewer: beta version is available for academic labs. Please contact Jean-Pierre Both
  • TizViz: beta version is available. Please contact Christian Fuchsberger
  • Quantinetix (commercial software by Imabiotech)
  • MALDIVision (commercial software by PREMIER Biosoft)
  • "Indigo Platform" including DESI imaging by Prosolia (Randy Jullian)
  • Internal data handling for MS imaging at Novartis (Stöckli lab)
  • Additional application examples can be found in the MS image gallery.

Currently under development

  • new MS imaging software 'MSImageView' by Markus Stöckli (successor of BioMap)
  • mMass by Martin Strohalm
  • MS imaging quantitation software by Per Andren / Patrik Källback

    More detailed information on MS imaging software tools which were developed by COMPUTIS partners is presented below and in the submenu of this section.

    • Browsing through selected ion images
    • Coregistration of images
    • Extensive analysis tools
    • Free to download!

    Mirion (Justus Liebig University)

    • Mass spectra directly accessible through image
    • Overlay of different masses
    • Overlay of optical and MS image
    • Compatible with high mass accuracy images