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Software

Commercial licensing and technical support for leading mass spectrometry software 

MSFragger 

MSFragger - an ultrafast and most versatile database search engine for peptide identification in mass spectrometry-based proteomics, including all advanced algorithms (DDA+, DIA, glycopeptides, and comprehensive open and labile PTM searches) 

IonQuant 

IonQuant offers advanced label-free and stable isotope labeling quantification, utilizing cutting-edge algorithms for precise peptide and protein abundance measurement, with FDR-controlled match-between-runs for enhanced data accuracy

diaTracer

diaTracer is a spectrum-centric tool for Bruker's diaPASEF data, offering three-dimensional peak tracing and feature detection to generate precursor-resolved "pseudo-tandem mass spectra" for direct ("library-free") peptide identification. It enables fast and comprehensive analysis of diaPASEF data, including nonspecific peptidome searches and unrestricted PTM identification using open/mass offset searches.

FragPipe Platform

By licensing MSFragger, IonQuant, and diaTracer from Fragmatics, users unlock the full capabilities of the comprehensive FragPipe computational platform. Fragmatics also offers dedicated technical support to ensure smooth integration and optimal use of these powerful tools within FragPipe.

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