IMP Nodes for Proteome Discoverer 2.1

This package contains free nodes for Proteome Discoverer 2.1, including

  • Elutator
  • MS Amanda
  • PeakJuggler
  • MS2 Spectrum Processor
  • Normalisation and Limma
  • ptmRS

These nodes work with a free version of Proteome Discoverer 2.1. See installation for more information.

What's new?

Date Info
2017-09-13 ptmRS updated
2016-11-09 Updated Peakjuggler, MsAmanda and the Normalization Node
2016-06-21 Added ptmRS, updated Peakjuggler
2016-06-16 Elutator and MS2 Spectrum Processor Node now show up if you don't have the base licence of Proteome Discoverer. Also added sample workflows
2106-06-02 Initial release


is a validation node for PSMs, based on Percolator. It is especially optimized for validating matches from MS Amanda.
MS Amanda
is a scoring system for identifying peptides and proteins out of tandem mass spectrometry data, especially designed for high resolution and high accuracy tandem mass spectra. See here for more information.
is a Proteome Discoverer node for label-free quantification of peptides and proteins. See here for more information.
MS2 Spectrum
Processor Deisotoping of isotopic clusters and charge deconvolution. See here for more information.
Normalisation and Limma
provide different normalisation methods and an interface for limma.
performs site localisation for post translational modifications. See here for more information




To get a free version of Proteome Discoverer 2.1, please download the demo software from the Omics portal.
After 60 days the demo license expires but Proteome Discoverer can still be used with the nodes in this package.
With an existing Proteome Discoverer 2.1 installation, please download and install the IMP nodes package.


We have a forum. Feel free to ask questions and give feedback!

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