Waters | Nonlinear Dynamics

Progenesis QI for proteomics

The next generation in LC-MS proteomics data analysis software.
Discover the significantly changing proteins in your samples.

Support for PEAKS Studio

Download PEAKS Studio

About this plug-in

Supports imports of searches performed using PEAKS Studio from Bioinformatics Solutions Inc.

To be able to import results from PEAKS Studio you should perform the search using a mgf file exported from Progenesis QI for proteomics. The search results should then be exported from PEAKS Studio in pepXml format. On importing the pepXml file into Progenesis QI for proteomics you will be asked to provide the original mgf file exported from Progenesis QI for proteomics, this file is required to correctly match search results. The pepXml file from PEAKS does not provide protein description information and so only protein accessions will be imported.

Which PEAKS plugin should I use?

If you are using mixed mode fragmentation, which Progenesis does not currently support, you should use the PEAKS Studio (pepXml import only) plugin.

Otherwise, you should use this plugin to export an MGF from Progenesis.

See also