Question: How to analyze MALDI imaging data with open source tools?
1
gravatar for foellmelanie
3.5 years ago by
foellmelanie10
Australia
foellmelanie10 wrote:

Hi all,

I just created my first MALDI imaging data (imzML) :)

It made me very happy to see that there are many tools available but having no previous experience with this type of data I am not sure what software is best for which purpose/my data. Looks like some of them can only do the visualization part, but I would also like to do preprocessing and (basic) statistics. Moreover, I would prefer Open Source tools if possible, but what I have found so far is not all Open Source: 

  • Biomap
  • DatacubeExplorer
  • MsiReader
  • Spectviewer
  • Omnispect
  • Mirion
  • Cardinal (command line)
  • Msi.R (command line)
  • msIQuant (when new version is launched imzML compatible)
  • EXIMS
  • OpenMSI
  • Amass

Does anyone have any experiences with some of the tools or any recommendations?

 

Thanks for your help,

Melanie

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